The research from the Department of Biology results in numerous publications each year. Here we identify publications in peer-reviewed journals over the past few years.
2024
March 2024
- Todorovic, J., Swapna, I., Suma, A., Carnevale, V. and Zakon, H. (2024) Dual mechanisms contribute to enhanced voltage dependence of an electric fish potassium channel. Biophysical Journal
- Longobardi, C., Damiano, S., Fabroni, S., Montagnaro, S., Russo, V., Vaccaro, E., Giordano, A., Florio, S. and Ciarcia, R. (2024) Red Orange and Lemon Extract Ameliorates the Renal Oxidative Stress and Inflammation Induced by Ochratoxin A through the Modulation of Nrf2. Toxins 16 (3), 151
- Alfano, L., […] G., Dell’Aquila, M., Altieri, A., Caporaso, A. […] Boffo, S., […] Giordano, A. (2024) CDK9-55 guides the anaphase-promoting complex/cyclosome (APC/C) in choosing the DNA repair pathway choice. Oncogene, 1-11
- Rosati, D., Palmieri, M., Brunelli, G., Morrione, A., Iannelli, F., Frullanti, E. and Giordano, A (2024) Differential gene expression analysis pipelines and bioinformatic tools for the identification of specific biomarkers: A Review. Computational and Structural Biotechnology Journal
- Wirthlin, M.E., […] Kosakovsky Pond, S.L. […] Pfenning, A.R. (2024) Vocal learning-associated convergent evolution in mammalian proteins and regulatory elements. Science, eabn3263
- Joseph, S.B., […] Kosakovsky Pond, S.L. [...] Williamson C., (2024) The timing of HIV-1 infection of cells that persist on therapy is not strongly influenced by replication competency or cellular tropism of the provirus. PLoS pathogens 20 (2), e1011974
February 2024
- Babaian, C. and Kumar, S. (2024) Of Phylogenies and Tumors: Cancer as a Model System to Teach Evolution. The American Biology Teacher 86 (2), 62-70
- Bonfim, M., López, D.P., Repetto, M.F. and Freestone, A.L. (2024) Speed and degree of functional and compositional recovery varies with latitude and community age. Ecology, e4259
- Cepeda, A.S., Mello, B., Pacheco, M.A., Luo, Z., Sullivan, S.A., Carlton, J.M. and Escalante, A.A. (2024) The genome of Plasmodium gonderi: Insights into the evolution of human malaria parasites. Genome Biology and Evolution, evae027
- Junod, S.L., Tingey, M., Kelich, J., Goryaynov, A., Herbine, K. and Yang, W. (2024) Nuclear export dynamics of pre-ribosomal subunits revealed by high-speed single-molecule microscopy in live cells. Biophysical Journal 123 (3), 180a
- Kim, H. (2024) Running a summer journal club for an interdisciplinary community: how to maintain engagement when members have disparate prior knowledge. The Journal for Research and Practice in College Teaching 8 (2)
- Luedtke, J.A., […] S Blair Hedges […] Stuart, S.N. (2024) Erratum: Author Correction: Ongoing declines for the world's amphibians in the face of emerging threats (Nature (2023) 622 7982 (308-314)). Nature
- Suma, A., Sigg, D., Gallagher, S., Gonnella, G. and Carnevale, V. (2024) Ion channels in critical membranes: clustering, cooperativity, and memory effects. P R X Life 2, 013007
- Yu, W., Tingey, M., Kelich, J., Li, Y., Yu, J., Junod, S.L., Jiang, Z., Hansen, I., Good, N. and Yang, W. (2024) Mapping intrinsically disordered proteins in live cells by high-speed super-resolution light microscopy. Biophysical Journal 123 (3), 70a
January 2024
- Assis, R., Conant, G., Holland, B., Liberles, D.A., O'Reilly, M.M. and Wilson, A.E. (2024) Models for the retention of duplicate genes and their biological underpinnings. F1000Research, 12.
- Barbarino, M., Bellan, C., Pesetti, M., Bottaro, M., Tomassetti, C., Insinga, G., Burk, S., Arcuri, F., Paladini, P., Graziano, A. and Giordano, A. (2024) Comparison of two mechanical disaggregation methods of fresh lung tissues for extraction of high-quality RNA. Instrumentation Science & Technology, pp.1-13.
- Betters, M.J. and Cordes, E.E. (2024) New records of Provanna (Gastropoda, Provannidae) from the Costa Rica Margin and an identification key for the genus. ZooKeys, 1189, pp.1-32.
- Craig, J.M., Gerhard, G.S., Sharma, S., Yankovskiy, A., Miura, S. and Kumar, S. (2024) Methods for Estimating Personal Disease Risk and Phylogenetic Diversity of Hematopoietic Stem Cells. Molecular Biology and Evolution, 41(1), p.msad279.
- Dabrowski, K.R., Floris, G., Gillespie, A. and Sillivan, S.E. (2024) Orbitofrontal intronic circular RNA from Nrxn3 mediates reward learning and motivation for reward. Progress in Neurobiology, 232, p.102546.
- Luedtke, J.A., […] S Blair Hedges […] Stuart, S.N. (2024) Erratum: Author Correction: Ongoing declines for the world's amphibians in the face of emerging threats (Nature (2023) 622 7982 (308-314)). Nature
- Maurer-Alcalá, X.X., Cote-L’Heureux, A., Kosakovsky Pond, S.L. and Katz, L.A. (2024) Somatic genome architecture and molecular evolution are decoupled in “young” linage-specific gene families in ciliates. Plos one, 19(1), p.e0291688.
- Sowers, D.C., Mayer, L.A., Masetti, G., Cordes, E.E., Gasbarro, R., Lobecker, E., Cantwell, K., Candio, S., Hoy, S., Malik, M., White, M. and Dornback, M. (2024) Mapping and Geomorphic Characterization of the Vast Cold-Water Coral Mounds of the Blake Plateau. Geomatics, 4(1), pp.17-47.
- Weisman, C.M., Minh, B.Q. and Liberles, D.A. (2024) 2023 Zuckerkandl Prize. J Mol Evol. https://doi.org/10.1007/s00239-024-10153-4
- Xu, P., Wang, R., Zhang, H., Carnevale, V., Borguet, E. and Suntivich, J. (2024) Cation Modifies Interfacial Water Structures on Platinum during Alkaline Hydrogen Electrocatalysis. Journal of the American Chemical Society.
- Zhang, N., Wang, F., Yang, X., Wang, Q., Chang, R., Zhu, L., Feitelson, M.A. and Chen, Z. (2024) TMEM43 promotes the development of hepatocellular carcinoma by activating VDAC1 through USP7 deubiquitination. Translational Gastroenterology and Hepatology.
2023
December 2023
- Cordes, E.E., Mienis, F., Gasbarro, R., Davies, A., Baco, A.R., Bernardino, A.F., Clark, M.R., Freiwald, A., Hennige, S.J., Huvenne, V.A. and Buhl-Mortensen, P., (2023) A Global View of the Cold-Water Coral Reefs of the World. In Cold-Water Coral Reefs of the World (pp. 1-30). Cham: Springer International Publishing.
- Costagliola, A., Lombardi, R., Liguori, G., Morrione, A. and Giordano, A., (2023) Orexins and Prostate Cancer: State of the Art and Potential Experimental and Therapeutic Perspectives. Cancer Genomics & Proteomics, 20(6suppl), pp.637-645.
- Craig, J.M., Bamba, G.L., Barba, J., Hedges, S.B. and Kumar, S., (2023) Completing a molecular timetree of apes and monkeys. Frontiers in Bioinformatics, 3, p.1284744.
- Craig, J.M., Gerhard, G.S., Sharma, S., Yankovskiy, A., Miura, S. and Kumar, S., (2023) Methods for Estimating Personal Disease Risk and Phylogenetic Diversity of Hematopoietic Stem Cells. Molecular Biology and Evolution, p.msad279.
- Dabrowski, K.R., Floris, G., Gillespie, A. and Sillivan, S.E., (2024) Orbitofrontal intronic circular RNA from Nrxn3 mediates reward learning and motivation for reward. Progress in Neurobiology, 232, p.102546.
- Elli, S., Raffaini, G., Guerrini, M., Kosakovsky Pond, S. and Matrosovich, M., (2023) Molecular modeling and phylogenetic analyses highlight the role of amino acid 347 of the N1 subtype neuraminidase in influenza virus host range and interspecies adaptation. Frontiers in Microbiology, 14, p.1309156.
- Galati, S., Di Stefano, M., Bertini, S., Granchi, C., Giordano, A., Gado, F., Macchia, M., Tuccinardi, T. and Poli, G., (2023) Identification of New GSK3β Inhibitors through a Consensus Machine Learning-Based Virtual Screening. International Journal of Molecular Sciences, 24(24), p.17233.
- Princiotta, S.D., Nguyen, T. and Sanders, R.W., (2023) High abundances and negligible grazing during winter by the mixotrophic chrysophyte Dinobryon. Fottea, 23(2), pp.201-207.
- Singh, A., Singh, M.P., Ali, N.A., Poriya, R., Rajvanshi, H., Nisar, S., Bhandari, S., Sahu, R.S., Jayswar, H., Mishra, A.K., Das, A., Kaur, H., Anvikar, A.R., Escalante, A.A., Lal A.A. and Bharti, P.K., (2023) Assessment of Plasmodium falciparum drug resistance associated molecular markers in Mandla, Madhya Pradesh, India. Malaria Journal, 22(1), p.375.
- Tingey, M., Junod, S.L., Rush, C. and Yang, W., (2024) Protocol for live-cell super-resolution imaging of transport of pre-ribosomal subunits through the nuclear pore complex. STAR protocols, 5(1), p.102790.
- Wagner, A.M., Kostina, N.Y., Xiao, Q., Klein, M.L., Percec, V. and Rodriguez-Emmenegger, C., (2023) Glycan-Driven Formation of Raft-Like Domains with Hierarchical Periodic Nanoarrays on Dendrimersome Synthetic Cells. Biomacromolecules.
- Wilson, A.E. and Liberles, D.A., (2023) Expectations of duplicate gene retention under the gene duplicability hypothesis. BMC Ecology and Evolution, 23(1), p.76.
November 2023
- Cordes, E.E., Demopoulos, A.W., Davies, A.J., Gasbarro, R., [...] Weinnig, A.M. [...]Lunden,J.J. [...]Betters, M.J. [...] Rasser, M.K. and Adams, C. (2023) Expanding our view of the cold-water coral niche and accounting of the ecosystem services of the reef habitat. Scientific Reports 13 (1), 19482.
- Mancarella, C., Morrione, A. and Scotlandi, K., (2023) PROTAC-Based Protein Degradation as a Promising Strategy for Targeted Therapy in Sarcomas. International Journal of Molecular Sciences 24 (22), 16346.
- Rush, C., Jiang, Z., Tingey, M., Feng, F. and Yang, W., (2023) Unveiling the complexity: assessing models describing the structure and function of the nuclear pore complex. Frontiers in Cell and Developmental Biology 11.
- Spinetta, R., Petrillo, F., Reibaldi, M., Tortori, A., Mazzoni, M., Metrangolo, C., Gelormini, F., Ricardi, F. and Giordano, A., (2023) Intravitreal DEX Implant for the Treatment of Diabetic Macular Edema: A Review of National Consensus. Pharmaceutics 15 (10), 2461.
- Taenzer, L., Wankel, S.D., Kapit, J., Pardis, W.A., Herrera, S., Auscavitch, S., Grabb, K.C., Cordes, E. and Hansel, C.M., (2023) Corals and Sponges are Hotspots of Reactive Oxygen Species in the Deep Sea. PNAS Nexus, pgad398.
October 2023
- Canfora, E.E., Feitelson, M.A. and Arzumanyan, A., (2023) Editorial: Microbiome metabolites in health and disease. Frontiers in microbiology 14.
- Cheng, Z., Lei, L., Zhao, B., Zhu, Y., Yu, T., Yang, W., et al. (2023) High performance reversible thermochromic composite films with wide thermochromic range and multiple colors based on micro/nanoencapsulated phase change materials for temperature indicators. Compos. Sci. Technol., 110091.
- De Bona, S., Barringer, L., Kurtz, P., Losiewicz, J., Parra, G.R. and Helmus, M.R., (2023) lydemapr: an R package to track the spread of the invasive spotted lanternfly (Lycorma delicatula, White 1845) (Hemiptera, Fulgoridae) in the United States. NeoBiota 86, 151-168.
- Delavaux, C.S., […] Bonfim, M. [….] Cortese, M. […] Freestone, A.L. […] Averill, C. (2023) Mycorrhizal feedbacks influence global forest structure and diversity. Communications Biology 6 (1), 1066.
- Guerler, A., Baker, D., van den Beek, M., Gruening, B., Bouvier, D., Coraor, N., Shank, S.D., Zehr, J.D., Schatz, M.C. and Nekrutenko, A., (2023) Fast and accurate genome-wide predictions and structural modeling of protein–protein interactions using Galaxy. BMC bioinformatics 24 (1), 263.
- Kosakovsky Pond, S.L. and Martin, D., (2023) Anti-COVID drug accelerates viral evolution. Nature.
- Lucaci, A.G., Zehr, J.D., Enard, D., Thornton, J.W. and Kosakovsky Pond, S.L. (2023) Evolutionary Shortcuts via Multinucleotide Substitutions and Their Impact on Natural Selection Analyses. Molecular Biology and Evolution 40 (7), msad150.
- Luedtke, J.A., […] S Blair Hedges […] Stuart, S.N. (2023) Ongoing declines for the world’s amphibians in the face of emerging threats. Nature, 1-7.
- Mutti, L. and Gray, S.G. (2023) Editorial: Editor's challenge: Dr. Luciano Mutti-what is the true impact of ICIs on survival in the treatment of thoracic malignancies?. Frontiers in Oncology 13, 1285031.
- Swartz, T.M., Gleditsch, J.M. and Behm, J.E., (2023) A functional trait approach reveals the effects of landscape context on ecosystem services provided by urban birds. Landscape and Urban Planning 234, 104724.
- Zehr, J.D., Kosakovsky Pond, S.L., Millet, J.K., Olarte-Castillo, X.A., Lucaci, A.G., Shank, S.D., Ceres, K.M., Choi, A., Whittaker, G.R., Goodman, L.B. and Stanhope, M.J., (2023) Natural selection differences detected in key protein domains between non-pathogenic and pathogenic feline coronavirus phenotypes. Virus Evolution 9 (1), vead019.
September 2023
- Betters, M., Stabbins, A., Keller, A., & Cordes, E. (2023) Biogeography and depth partitioning in deep‐sea gastropods at the Pacific Costa Rica Margin. Journal of Biogeography.
- Craig, J.M., Kumar, S. and Hedges, S.B. (2023) The origin of eukaryotes and rise in complexity were synchronous with the rise in oxygen. Frontiers in Bioinformatics 3.
- Darbinian, N., Gallia, G.L., Darbinyan, A., Vadachkoria, E., Merabova, N., Moore, A., Goetzl, L., Amini, S. and Selzer, M.E. (2023) Effects of In Utero EtOH Exposure on 18S Ribosomal RNA Processing: Contribution to Fetal Alcohol Spectrum Disorder. International Journal of Molecular Sciences 24 (18), 13714.
- Inzaule, S.C., Siedner, M.J., Little, S.J., Avila-Rios, S., Ayitewala, A., Bosch, R.J., Calvez, V., Ceccherini-Silberstein, … Sergei L. Kosakovsky Pond … Robert W. ShaferI (2023) Recommendations on data sharing in HIV drug resistance research. PLoS medicine 20 (9), e1004293.
- Russo, V., Falco, L., Tessitore, V., Mauriello, A., Catapano, D., Napolitano, N., Tariq, M., Caturano, A., Ciccarelli, G., D’Andrea, A. and Giordano, A. (2023) Anti-Inflammatory and Anticancer Effects of Anticoagulant Therapy in Patients with Malignancy. Life 13 (9), 1888.
- Vieira, L.M.D.C., Pereira, P.H.O., da Rocha Vilela, D.A., Landau, I., Pacheco, M.A., Escalante, A.A., Ferreira, F.C. and Braga, É.M., (2023) Leucocytozoon cariamae n. sp. and Haemoproteus pulcher coinfection in Cariama cristata (Aves: Cariamiformes): First mitochondrial genome analysis and morphological description of a leucocytozoid in Brazil.. Parasitology, 1-41.
August 2023
- Belouard, N., & Behm, J. E. (2023). Multiple paternity in the invasive spotted lanternfly (Hemiptera: Fulgoridae). Environmental Entomology, nvad083.
- Carvalho, N. F., Waters, L.G., Arantes, R. C. M., Couto, D. M., Cavalcanti, G. H., Güth, A. Z., Falcão, A. P. C., Nagata, P. D., Hercos, C. M., Sasaki, D. K., Dottori, M., Cordes, E. E., & Sumida, P. Y. G. (2023). Underwater surveys reveal deep-sea corals in newly explored regions of the southwest Atlantic. Communications Earth & Environment, 4(1), 282.
- Caturano, A., D’Angelo, M., Mormone, A., Russo, V., Mollica, M. P., Salvatore, T., Galiero, R., Rinaldi, L., Vetrano, E., Marfella, R., Monda, M., Giordano, A., & Sasso, F. C. (2023). Oxidative Stress in Type 2 Diabetes: Impacts from Pathogenesis to Lifestyle Modifications. Current Issues in Molecular Biology, 45(8), 6651-6666.
- Darbinian, N., Darbinyan, A., Merabova, N., Kassem, M., Tatevosian, G., Amini, S., ... & Selzer, M. E. (2023). In utero ethanol exposure induces mitochondrial DNA damage and inhibits mtDNA repair in developing brain. Frontiers in Neuroscience, 17.
- Harman, J., Hipsley, C. A., Jacobus, L. M., Liberles, D. A., Settele, J., & Traulsen, A. (2023). 2023 BMC Ecology and Evolution image competition: the winning images. BMC Ecology and Evolution, 23(1), 1-7.
- Li, C., Xu, A.J., Beery, E., Hsieh, S.T. and Kane, S.A. (2023) Putting a new spin on insect jumping performance using 3D modeling and computer simulations of spotted lanternfly nymphs. Journal of Experimental Biology
- Miura, S., Dolker, T., Sanderford, M., & Kumar, S. (2023). Improving cellular phylogenies through the integrated use of mutation order and optimality principles. Computational and Structural Biotechnology Journal.
- Zhang, C., Yue, S., Panagiotopoulos, A. Z., Klein, M. L., & Wu, X. (2023). Why Dissolving Salt in Water Decreases Its Dielectric Permittivity. Physical Review Letters, 131(7), 076801.
July 2023
- Barba-Montoya, Jose, Sudip Sharma, Sudhir Kumar (2023) Molecular timetrees using relaxed clocks and uncertain phylogenies.Frontiers in Bioinformatics 3, 1225807.
- Carroll, Elizabeth W. , Amy L. Freestone (2023) Habitat isolation interacts with top-down and bottom-up processes in a seagrass ecosystem.Plos one 18 (7), e0289174.
- Chmielewski, Matthew W., Skyler Naya, Monica Borghi, Jen Cortese, Alisdair R. Fernie, Mark T. Swartz, Konstantina Zografou, Brent J. Sewall, Rachel B. Spigler (2023) Phenology and foraging bias contribute to sex‐specific foraging patterns in the rare declining butterfly Argynnis idalia idalia.Ecology and Evolution 13 (7), e10287.
- Darbinian, Nune, Emily C. Sparks, Armine Darbinyan, Nana Merabova, Gabriel Tatevosian, Ekaterina Vadachkoria, Huaqing Zhao, Shohreh Amini, Laura Goetzl, Michael E. Selzer. (2023) Maternal Blood Lipid Biomarkers of Oligodendrocyte Pathology to Predict Fetal Alcohol Spectrum Disorders.Obstetrics and Gynecology Research 6 (2), 127-138.
- Darbinian, Nune, Emily C. Sparks, Armine Darbinyan, Nana Merabova, Tamara Tatevosian-Geller, Katie Calaku, Sarah Bachman, Huaqing Zhao, Shohreh Amini, Laura Goetzl, Solomon P. Samuel, Amer Samdani, Michael E. Selzer.(2023) Exosomal Lipid Biomarkers of Oligodendrocyte Pathology to Predict Scoliosis in Children with Cerebral Palsy.Obstetrics and Gynecology Research 6 (2), 160-171.
- Feitelson, Mark A., Alla Arzumanyan, Arvin Medhat & Ira Spector (2023) Short-chain fatty acids in cancer pathogenesis.Cancer and Metastasis Reviews, 1-22.
- Joyce, Collin, Sasha Murrell, Ben Murrell, Oluwarotimi Omorodion, Lorena S. Ver, Nancy Carrico, Raiza Bastidas, Rebecca Nedellec, Michael Bick, Jordan Woehl, Fangzhu Zhao, Alison Burns, Shawn Barman, Michael Appel, Alejandra Ramos, Lalinda Wickramasinghe, Kemal Eren, Thomas Vollbrecht, Davey M. Smith, Sergei L. Kosakovsky Pond, Ryan McBride, Charli Worth, Facundo Batista, Devin Sok, The IAVI Protocol C Investigators & The IAVI African HIV Research Network , Pascal Poignard, Bryan Briney, Ian A. Wilson, Elise Landais , Dennis R. Burton (2023) Antigen pressure from two founder viruses induces multiple insertions at a single antibody position to generate broadly neutralizing HIV antibodies.PLoS Pathogens 19 (6), e1011416.
- Junod, Samuel L., Mark Tingey, Joseph M. Kelich, Alexander Goryaynov, Karl Herbine, Weidong Yang (2023) Dynamics of nuclear export of pre-ribosomal subunits revealed by high-speed single-molecule microscopy in live cells. iScience.
- Luzuriaga-Neira, Agusto R., Andrew M. Ritchie, Bryan L. Payne, Oliver Carrillo-Parramon, David A. Liberles, and David Alvarez-Ponce (2023) Highly Abundant Proteins Are Highly Thermostable.Genome Biology and Evolution 15 (7), evad112.
- Means, D. Bruce, Matthew P. Heinicke, S. Blair Hedges, Ross D. Macculloch, Amy Lathrop (2023) Exceptional diversity of Pristimantis Landfrogs (Anura: Terraranae) on the Wokomung Massif, Guyana, with descriptions of three new species.Journal of Vertebrate Biology 72 (23026), 23026.1-26.
- Ose, Nicholas J., Paul Campitelli, Ravi Patel, Sudhir Kumar, S. Banu Ozkan (2023) Protein dynamics provide mechanistic insights about epistasis among common missense polymorphisms.Biophysical journal.
- Phophi, Lufuno, Mohamed A. Abouelkhair, Rebekah Jones, Jordan Zehr, Stephen A. Kania (2023) Temporal changes in antibiotic resistance and population structure of methicillin-resistant Staphylococcus pseudintermedius between 2010 and 2021 in the United States.Comparative Immunology, Microbiology and Infectious Diseases, 102028.
- Princiotta, Sarah DeVaul, Andrew VanKuren, Craig E. Williamson, Robert W. Sanders, Macarena S. Valiñas (2023) Disentangling the role of light and nutrient limitation on bacterivory by mixotrophic nanoflagellates. Journal of Phycology.
- Ventura, E., Belfiore, A., Iozzo, R.V., Giordano, A. and Morrione, A. (2023) Progranulin and EGFR modulate RYK (Receptor like Tyrosine Kinase) sorting and stability in mesothelioma cell. American Journal of Physiology-Cell Physiology 325(2), C391-C405
- Zhang, J., Kumar, S.,(2023) Masatoshi Nei (1931–2023). Nature Ecology & Evolution, 1-2.
June 2023
- Barone, D., Iannuzzi, C. A., Forte, I. M., Ragosta, M. C., Cuomo, M., Dell’Aquila, M., et al. [Antonio Giordano] (2023). The hydrophilic extract from a new tomato genotype (named DHO) kills cancer cell lines through the modulation of the DNA damage response induced by Campthotecin treatment. Front. Oncol. 13, 1117262.
- Cao, A., Li, Q., Yang, W., and Zhang, Z. (2023). Frequency shifting of transmitted ultrasound in thick composites containing fiber wrinkles and its application in non-destructive evaluation. Compos. Struct. 314, 116939.
- Chikelu, C. W., Berns, M., Conover, D., Habas, R., Han, L., Street, R. M., et al. (2023). Collagen Nanoyarns: Hierarchical Three-Dimensional Biomaterial Constructs. Biomacromolecules 24, 1155–1163.
- Curigliano, G., Shapiro, G. I., Kristeleit, R. S., Abdul Razak, A. R., Leong, S., Alsina, M., et al. [Antonio Giordano] (2023). A Phase 1B open-label study of gedatolisib (PF-05212384) in combination with other anti-tumour agents for patients with advanced solid tumours and triple-negative breast cancer. Br. J. Cancer 128, 30–41.
- Curigliano, G., Shapiro, G. I., Kristeleit, R. S., Razak, A. R. A., Leong, S., Alsina, M., et al. [Antonio Giordano] (2023). Correction to: A Phase 1B open-label study of gedatolisib (PF-05212384) in combination with other anti-tumour agents for patients with advanced solid tumours and triple-negative breast cancer. Br. J. Cancer 128, 400.
- DelloStritto, M. J., Kaplan, A. D., Perdew, J. P., and Klein, M. L. (2023). Predicting the properties of NiO with density functional theory: Impact of exchange and correlation approximations and validation of the r2SCAN functional. APL Mater. 11.
- Esposito, A., Menna, D., Giordano, A. N., and Cappiello, A. P. (2023). Adjunctive techniques in endovascular repair of postcarotid endarterectomy pseudoaneurysm: Case report and literature review. Catheter. Cardiovasc. Interv. 101, 900–906.
- Fanale, D., Brando, C., Corsini, L. R., Cutaia, S., Di Donna, M. C., Randazzo, U., et al. [Antonio Giordano] (2023). Low plasma PD-L1 levels, early tumor onset and absence of peritoneal carcinomatosis improve prognosis of women with advanced high-grade serous ovarian cancer. BMC Cancer 23, 437.
- Huzar, J., Shenoy, M., Sanderford, M. D., Kumar, S., and Miura, S. (2023). Bootstrap confidence for molecular evolutionary estimates from tumor bulk sequencing data. Front. Bioinforma. 3, 1090730.
- Incorvaia, L., Dimino, A., Algeri, L., Brando, C., Magrin, L., De Luca, I., et al. [Antonio Giordano] (2023). Body mass index and baseline platelet count as predictive factors in Merkel cell carcinoma patients treated with avelumab. Front. Oncol. 13, 1141500.
- Millette, N. C., Gast, R. J., Luo, J. Y., Moeller, H. V, Stamieszkin, K., Andersen, K. H., et al. [Robert W Sanders] (2023). Mixoplankton and mixotrophy: future research priorities. J. Plankton Res., fbad020.
- Ruiz-Whalen, D. M., Aichele, C. P., Dyson, E. R., Gallen, K. C., Stark, J. V, Saunders, J. A., et al. [Raymond Habas] (2023). “Gaining Wings to FLY: Using Drosophila Oogenesis as an Entry Point for Citizen Scientists in Laboratory Research,” in Drosophila Oogenesis: Methods and Protocols (Springer), 399–444.
- Scalia, P., Williams, S. J., Suma, A., and Carnevale, V. (2023). The DTX Protein Family: An Emerging Set of E3 Ubiquitin Ligases in Cancer. Cells 12, 1680.
- Tian, J., Liu, M., Xiao, H., Zhang, Z., Yang, W., Long, Z., et al. (2023). Optimized ultrasonic total focusing imaging of diverse and multiple defects in crossply CFRP: Floquet wave theory, numerical simulation, and experimental validation. Mech. Syst. Signal Process. 199, 110486.
- Wang, X., Xu, T., Peckmann, J., Bayon, G., Jia, Z., Gong, S., et al. [Erik Cordes] (2023). Molybdenum isotope signature of microbial nitrogen utilization in siboglinid tubeworms. Geology.
- Yu, W., Rush, C., Tingey, M., Junod, S., and Yang, W. (2023). Application of Super-resolution SPEED Microscopy in the Study of Cellular Dynamics. Chem. \& Biomed. Imaging.
- Zhang, Z., Cao, A., Li, Q., Yang, W., and Li, Y. (2023). Imaging of Fiber Waviness in Thick Composites with Unknown Material Properties Using Probability-Based Ultrasound Non-Reciprocity. Materials (Basel). 16, 3786.
May 2023
- Chothe, S. K., Jakka, P., Boorla, V. S., Ramasamy, S., Gontu, A., Nissly, R. H., et al. [Brent Sewal] (2023). Little Brown Bats (Myotis lucifugus) Support the Binding of SARS-CoV-2 Spike and Are Likely Susceptible to SARS-CoV-2 Infection. Viruses 15, 1103.
- Dash, P. K., Chen, C., Kaminski, R., Su, H., Mancuso, P., Sillman, B., et al. [Shohreh Amini] (2023). CRISPR editing of CCR5 and HIV-1 facilitates viral elimination in antiretroviral drug-suppressed virus-infected humanized mice. Proc. Natl. Acad. Sci. 120, e2217887120.
- Di Fiore, R., Suleiman, S., Drago-Ferrante, R., Subbannayya, Y., Suleiman, S., Vasileva-Slaveva, M., et al. [Antonio Giordano] (2023). The Role of FBXW7 in Gynecologic Malignancies. Cells 12, 1415.
- Escalera-Zamudio, M., Kosakovsky Pond, S. L., de la Viña, N., Gutiérrez, B., Inward, R. P. D., Thézé, J., et al. (2023). Identification of evolutionary trajectories shared across human betacoronaviruses. Genome Biol. Evol., evad076.
- Feitelson, M., and Arzumanyan, A. (2023). Liver Cancer. Rijeka: IntechOpen doi:10.5772/intechopen.100845.
- Kagawa, S., Tanabe, K., Hiromura, M., Ogawa, K., Koga, T., Maeda, T., et al. [Antonio Giordano] (2023). Hachimijiogan, a traditional herbal medicine, modulates adipose cell function and ameliorates diet-induced obesity and insulin resistance in mice. Front. Pharmacol. 14. doi:10.3389/fphar.2023.1167934.
- Kaiser, S., Stransky, B., Jennings, R. M., Kihara, T. C., and Brix, S. (2023). Combining morphological and mitochondrial DNA data to describe a new species of Austroniscus Vanhöffen, 1914 (Isopoda, Janiroidea, Nannoniscidae) linking abyssal and hadal depths of the Puerto Rico Trench. Zootaxa 5293, 401–434. doi:10.11646/zootaxa.5293.3.1.
- Liguori, G., Costagliola, A., Lombardi, R., Paciello, O., and Giordano, A. (2023). Human-Animal Interaction in Animal-Assisted Interventions (AAI) s: Zoonosis Risks, Benefits, and Future Directions—A One Health Approach. Animals 13, 1592.
- Liu, H., Chen, C., Liao, S., Sohaii, D. K., Cruz, C. R. Y., Burdo, T. H., et al. [Shohreh Amini] (2023). Strategic self-limiting production of infectious HIV particles by CRISPR in permissive cells. Mol. Ther. Acids.
- Pacheco, M. A., and Escalante, A. A. (2023). Origin and diversity of malaria parasites and other Haemosporida. Trends Parasitol. doi:10.1016/j.pt.2023.04.004.
- Wilson, A. E., and Liberles, D. A. (2023). Dosage balance acts as a time-dependent selective barrier to subfunctionalization. BMC Ecol. Evol. 23, 14.
- Yamamoto, K., Ohsiro, Y., Suzuki, T., Suzuki, M., Miura, S., Nagashima, M., et al. (2023). Validation of the severe COVID-19 prognostic value of serum IL-6, IFN-$λ$3, CCL17, and calprotectin considering the timing of clinical need for prediction. PLoS One 18, e0279897.
April 2023
- Benvenuto, M., Angiolini, V., Focaccetti, C., Nardozi, D., Palumbo, C., Carrano, R., et al. [Luciano Mutti] (2023). Antitumoral effects of Bortezomib in malignant mesothelioma: evidence of mild endoplasmic reticulum stress in vitro and activation of T cell response in vivo. Biol. Direct 18, 1–20.
- Blum, T. G., Morgan, R. L., Durieux, V., Chorostowska-Wynimko, J., Baldwin, D. R., Boyd, J., et al. [Luciano Mutti] (2023). European Respiratory Society guideline on various aspects of quality in lung cancer care. Eur. Respir. J. 61.
- Dai, T., Du, Y., Cromley, J., Fechter, T., and Nelson, F. (2023). Analytic Approaches to Handle Missing Data in Simple Matrix Sampling Planned Missing Designs. J. Exp. Educ., 1–28.
- Farshad, M., DelloStritto, M. J., Suma, A., and Carnevale, V. (2023). Detecting Liquid--Liquid Phase Separations Using Molecular Dynamics Simulations and Spectral Clustering. J. Phys. Chem. B.
- Hazra, A., O’Hara, A., Polyak, K., Nakhlis, F., Harrison, B. T., Giordano, A., et al. (2023). Copy Number Variation in Inflammatory Breast Cancer. Cells 12, 1086.Liberles, D. A. (2023). A Genomic Conceptualization of Species. J. Mol. Evol., 1–3.
- Pentimalli, F., Krstic-Demonacos, M., Costa, C., Mutti, L., and Bakker, E. (2023). Intratumor microbiota as a novel potential prognostic indicator in mesothelioma. Front. Immunol. 14.
- Rahouma, M., Baudo, M., Zhang, J., and Mutti, L. (2023). Editorial: Prognostic factors in non-small cell lung cancer. Front. Oncol. 13. doi:10.3389/fonc.2023.1174625.
- Ren, W., Yuan, Y., Li, Y., Mutti, L., Peng, J., and Jiang, X. (2023). The function and clinical implication of YTHDF1 in the human system development and cancer. Biomark. Res. 11, 1–13.
- Scalia, P., Merali, C., Barrero, C., Suma, A., Carnevale, V., Merali, S., et al. (2023). Novel Isoform DTX3c Associates with UBE2N-UBA1 and Cdc48/p97 as Part of the EphB4 Degradation Complex Regulated by the Autocrine IGF-II/IRA Signal in Malignant Mesothelioma. Int. J. Mol. Sci. 24, 7380.
- Spitz, S., Cremer, I., Kotwal, A., Correale, P., Botta, C., Fameli, A., et al. [Antonio Giordano] (2023). Giuseppe Giaccone, Cornell University, United States. Progn. factors non-small cell lung cancer, 448.
- Tang, P. K., Khatua, P., Carnevale, V., and Loverde, S. M. (2023). Exploration of the Nucleation Pathway for Supramolecular Fibers. J. Chem. Inf. Model.
- Tao, K., Rhee, S.-Y., Tzou, P. L., Osman, Z. A., Pond, S. L. K., Holmes, S. P., et al. (2023). HIV-1 Group M Capsid Amino Acid Variability: Implications for Sequence Quality Control of Genotypic Resistance Testing. Viruses 15, 992.
- Tossetta, G., Fantone, S., Busilacchi, E. M., Di Simone, N., Giannubilo, S. R., Scambia, G., et al. [Antonio Giordano] (2023). Correction to: Modulation of matrix metalloproteases by ciliary neurotrophic factor in human placental development. Cell Tissue Res.
- Ventura, E., Iozzo, R., Belfiore, A., Giordano, A., and Morrione, A. (2023). Progranulin modulates RYK and EGFR activity in mesothelioma cells. J. Biol. Chem. 299, S731.
- Zhang, S., Srivastava, A., Li, W., Rijpkema, S. J., Carnevale, V., Klein, M. L., et al. (2023). Molecular Engineering of pH-Responsive Anchoring Systems onto Poly (ethylene glycol) Corona. J. Am. Chem. Soc.
March 2023
- Albukhaytan, H., Torkzaban, B., Sariyer, I. K., and Amini, S. (2023). PurA sensitizes cells to toxicity induced by oxidative stress. NeuroImmune Pharmacol. Ther.
- Boudeau, S., Ramakodi, M. P., Zhou, Y., Liu, J. C., Ragin, C., and Kulathinal, R. J. (2023). Extensive set of African ancestry-informative markers (AIMs) to study ancestry and population health. Front. Genet. 14.
- Levin, L. A., Alfaro-Lucas, J. M., Colaço, A., Cordes, E. E., Craik, N., Danovaro, R., et al. (2023). Deep-sea impacts of climate interventions. Science (80-. ). 379, 978–981.
- Ponce-Chazarri, L., Ponce-Blandón, J. A., Immordino, P., Giordano, A., and Morales, F. (2023). Barriers to Breast Cancer-Screening Adherence in Vulnerable Populations. Cancers (Basel). 15, 604.
- Ruba, A., Tingey, M., Luo, W., Yu, J., Evangelou, A., Higgins, R., et al. [Weidong Yang] (2023). The Ciliary Lumen Accommodates Passive Diffusion and Vesicle-Assisted Trafficking in Cytoplasm-Ciliary Transport. Mol. Biol. Cell, mbc--E22.
- Silva, S. R., Miranda, V. F. O., Michael, T. P., Płachno, B. J., Matos, R. G., Adamec, L., et al. [Sergei Pond] (2023). The phylogenomics and evolutionary dynamics of the organellar genomes in carnivorous Utricularia and Genlisea species (Lentibulariaceae). Mol. Phylogenet. Evol., 107711.
- Ventura, E., Ducci, G., Benot Dominguez, R., Ruggiero, V., Belfiore, A., Sacco, E., et al. [Andrea Morrione, Antonio Giordano] (2023). Progranulin Oncogenic Network in Solid Tumors. Cancers (Basel). 15, 1706.
- Yang, W., Liu, M., Chen, S., Kang, W., Chen, J., and Li, Y. (2023). Electromechanical analysis of a self-sensing torsional micro-actuator based on CNTs reinforced piezoelectric composite with damage. Compos. Struct., 116945.
February 2023
- Belouard, N., and Behm, J. E. (2023). Spotted! Computer-aided individual photo-identification allows for mark-recapture of invasive spotted lanternfly (Lycorma delicatula). Front. Insect Sci. 3, 9.
- Bien, T., Alexander, B.H., White, E., Hsieh, S.T. and Kane, S.A. (2023) Sizing up spotted lanternfly nymphs for instar determination and growth allometry. Plos one 18 (2), e0265707
- Bravo, M. E., Brandt, M. I., Der Grient, V., Jesse, M. A., Dahlgren, T. G., Esquete Garrote, P., et al. [Erik Cordes] (2023). Insights from the management of offshore energy resources: Towards an ecosystem-services based management approach for deep-ocean industries. Front. Mar. Sci. 9, 2576.
- Chebaane, S., Freestone, A. L., Des Pérez, A., Sempere-Valverde, J., Chainho, P., Monteiro, J. G., et al. (2023). Predation facilitates the abundance of biofouling non-indigenous species in estuarine marinas in NE Atlantic Portugal. Mar. Pollut. Bull. 188, 114724.
- Coronel, L., Vouga, A. G., Rothberg, B. S., and Carnevale, V. (2023). Role of lipids in hydrophobic gating and blocker affinity in BK channels. Biophys. J. 122, 13a.
- Flammia, R. S., Tufano, A., Chierigo, F., Würnschimmel, C., Hoeh, B., Sorce, G., et al. [Andrea Morrione] (2023). The Effect of Sex on Disease Stage and Survival after Radical Cystectomy in Non-Urothelial Variant-Histology Bladder Cancer. J. Clin. Med. 12, 1776.
- Junod, S. L., and Yang, W. (2023). The role of O-GlcNAcylation in mRNA nuclear export studied by single-molecule super-resolution microscopy. Biophys. J. 122, 193a.
- Junod, S. L., Tingey, M., Rush, C., Alkurdi, A., Bajoria, K., and Yang, W. (2023). Obtaining 3D super-resolution images by utilizing rotationally symmetric structures and 2D-to-3D transformation. Comput. Struct. Biotechnol. J.
- Malavazos, A. E., Iacobellis, G., Dozio, E., Basilico, S., Di Vincenzo, A., Dubini, C., et al. [Antonio Giordano] (2023). Human Epicardial Adipose Tissue Expresses Glucose-dependent Insulinotropic Polypeptide, Glucagon and Glucagon-Like Peptide 1 Receptors as Potential Targets of Pleiotropic Therapies. Eur. J. Prev. Cardiol., zwad050.
- Nardone, V., Romeo, C., D’Ippolito, E., Pastina, P., D’Apolito, M., Pirtoli, L., et al. [Luciano Mutti, Antonio Giordano] (2023). The role of brain radiotherapy for EGFR-and ALK-positive non-small-cell lung cancer with brain metastases: a review. Radiol. Med., 1–14.
- Sewall, B. J., Turner, G. G., Scafini, M. R., Gagnon, M. F., Johnson, J. S., Keel, M. K., et al. (2023). Environmental control reduces white-nose syndrome infection in hibernating bats. Anim. Conserv.
- Stopar, A., and Nicholson, A. W. (2023). Multivalent forms of the ribonuclease H1 hybrid binding domain are high-affinity binders of RNA--DNA hybrids. FEBS Lett. 597, 472–482.
- Suma, A., Sigg, D., Srivastava, A., Gonnella, G., and Carnevale, V. (2023). Channel-lipid interactions drive the emergence of ion channel clustering, channel-channel cooperativity, and activation hysteresis. Biophys. J.122, 29a.
- Tingey, M., Yang, W., Zhang, B., Ruba, A., and Junod, S. (2023). Paired-objectives photon enhancement (POPE) microscopy. Biophys. J. 122, 127a.
- Troisi, N., Saratzis, A., Katsogridakis, E., Stavroulakis, K., Berchiolli, R., Zayed, H., et al. [Antonio Giordano] (2023). Different endovascular modalities of treatment for isolated atherosclerotic popliteal artery lesions (EMO-POP) registry. J. Vasc. Surg. 77, 231–240.
January 2023
- Belfiore A, Rapicavoli RV, le Moli R, Lappano R, Morrione A, de Francesco EM, Vella V (2023) IGF2: A Role in Metastasis and Tumor Evasion from Immune Surveillance? Biomedicines 11:229.
- Ciccarelli G, Conte S, Cimmino G, Maiorano P, Morrione A, Giordano A (2023) Mitochondrial Dysfunction: The Hidden Player in the Pathogenesis of Atherosclerosis? Int J Mol Sci 24:1086.
- Fan S, Zhang J, Wang B, Chen J, Yang W, Liu W, Li Y (2023) A deep learning method for fast predicting curing process-induced deformation of aeronautical composite structures. Compos Sci Technol 232:109844.
- Liberles DA (2023) The Memory Problem for Neutral Mutational Models of Evolution. J Mol Evol 91:2–5.
- Lotta-Arévalo IA, González AD, Gamboa-Suárez BA, Pacheco MA, Escalante AA, Moreno C, Rodrìguez-Fandìño O, Cuervo A, Matta NE (2023) Haemosporidians in Non-Passerine Birds of Colombia: An Overview of the Last 20 Years of Research. Diversity (Basel) 15:57.
- Osman EO, Vohsen SA, Girard F, Cruz R, Glickman O, Bullock LM, Anderson KE, Weinnig AM, Cordes EE, Fisher CR, others (2023) Capacity of deep-sea corals to obtain nutrition from cold seeps aligned with microbiome reorganization. Glob Chang Biol 29:189–205.
- Piontek SM, Naujoks D, Tabassum T, DelloStritto MJ, Jaugstetter M, Hosseini P, Corva M, Ludwig A, Tschulik K, Klein ML, others (2023) Probing the Gold/Water Interface with Surface-Specific Spectroscopy. ACS Physical Chemistry Au.
- Salvio G, Petrelli M, Paolini S, Baldini V, Sbaffi C, Basili S, Giordano A, Balercia G, Cinti S (2023) Gender-specific effects of capsiate supplementation on body weight and bone mineral density: a randomized, double-blind, placebo-controlled study in slightly overweight women. J Endocrinol Invest:1–8.
- Scalia P, Williams SJ, Fujita-Yamaguchi Y, Giordano A (2023) Cell cycle control by the insulin-like growth factor signal: at the crossroad between cell growth and mitotic regulation. Cell Cycle 22:1–37.
- Spigler R, Charles A (2023) Inbreeding reduces floral longevity and flower size in the mixed-mating biennial Sabatia angularis. Int J Plant Sci.
- Stanhope MJ, Ceres KM, Sun Q, Wang M, Zehr JD, Marra NJ, Wilder AP, Zou C, Bernard AM, Pavinski-Bitar P, others (2023) Genomes of endangered great hammerhead and shortfin mako sharks reveal historic population declines and high levels of inbreeding in great hammerhead. iScience 26:105815.
- Stanojevic M, Andjelkovic J, Kasprowicz A, Huuki LA, Chao J, Hedges SB, Kumar S, Obradovic Z (2023) Discovering research articles containing evolutionary timetrees by machine learning. Bioinformatics.
- Suma A, Carnevale V, Micheletti C (2023) Nonequilibrium thermodynamics of DNA nanopore unzipping. Phys Rev Lett 130:48101.
- Tingey M, Ruba A, Yang W (2023) High-SPEED super-resolution SPEED microscopy to study primary cilium signaling in vivo. In: Methods in cell biology. Elsevier
- Zhang C, Yue S, Panagiotopoulos A, Klein M, Wu X (2023) Origin of the dielectric decrement of salt water. Bulletin of the American Physical Society.
Previous Years
2022
- Accarino G, Giordano AN, Falcone M, Celano A, Vassallo MG, Fornino G, Bracale UM, Vecchione C, Galasso G (2022) Abdominal aortic aneurysm: natural history, pathophysiology and translational perspectives. Translational Medicine@ UniSa 24:6.
- Adedeji Olulana, A. F., Choi, D., Inverso, V., Redhu, S. K., Vidonis, M., Crevatin, L., et al. (2022). Noncanonical DNA Cleavage by BamHI Endonuclease in Laterally Confined DNA Monolayers Is a Step Function of DNA Density and Sequence. Molecules 27, 5262.
- Ali JR, Hedges SB (2022) A review of geological evidence bearing on proposed Cenozoic land connections between Madagascar and Africa and its relevance to biogeography. Earth Sci Rev 232:104103.
- Allegretti, M., Cesta, M. C., Zippoli, M., Beccari, A., Talarico, C., Mantelli, F., et al. (2022). Repurposing the estrogen receptor modulator raloxifene to treat SARS-CoV-2 infection. Cell Death \& Differ. 29, 156–166.
- Amendola A, Canuti M, Bianchi S, Kumar S, Fappani C, Gori M, Colzani D, Pond SLK, Miura S, Baggieri M, others (2022) Molecular evidence for SARS-CoV-2 in samples collected from patients with morbilliform eruptions since late 2019 in Lombardy, northern Italy. Environ Res 215:113979.
- André, T., Diaz, L. A., and Shiu, K.-K. (2022). Crossing survival curves of KEYNOTE-177 illustrate the rationale behind combining immune checkpoint inhibition with chemotherapy--Authors’ reply. Lancet Oncol. 23, e246.
- Annunziata C, Pirozzi C, Lama A, Senzacqua M, Comella F, Bordin A, Monnolo A, Pelagalli A, Ferrante MC, Mollica MP, others (2022) Palmitoylethanolamide promotes white-to-beige conversion and metabolic reprogramming of adipocytes: contribution of PPAR-α. Pharmaceutics 14:338.
- Ashton G v, Freestone AL, Duffy JE, Torchin ME, Sewall BJ, Tracy B, Albano M, Altieri AH, Altvater L, Bastida-Zavala R, others (2022) Predator control of marine communities increases with temperature across 115 degrees of latitude. Science (1979) 376:1215–1219.
- Azofeifa-Solano JC, Pereira OS, Cowell EJ, Cordes E, Levin LA, Goffredi S, Cortés J (2022) Sexual dimorphism in the methane seep-dwelling Costa Rican yeti crab Kiwa puravida (Decapoda: Anomura: Kiwaidae). Front Mar Sci:2226.
- Babaian C (2022) Fantastic Science Communication. Am Sci 110:24–27.
- Babaian C, Kumar S (2022a) Epistasis Storyboarded. Am Biol Teach 84:562–569.
- Babaian C, Kumar S (2022b) Storyboarding for Biology: An Authentic STEAM Experience. Am Biol Teach 84:328–335.
- Badalamenti G, Giordano A, Capoluongo E, Russo A, Malapelle U, Bazan V (2022) Cell-free/circulating tumor DNA profiling: from next-generation sequencing-based to digital polymerase chain reaction-based methods. Liquid Biopsy: New Challenges in the Era of Immunotherapy and Precision Oncology:168.
- Bajic M, Ravishankar S, Sheth M, Rowe LA, Pacheco MA, Patel DS, Batra D, Loparev V, Olsen C, Escalante AA, others (2022) The first complete genome of the simian malaria parasite Plasmodium brasilianum. Sci Rep 12:19802.
- Bakouny Z, Labaki C, Grover P, Awosika J, Gulati S, Hsu C-Y, Alimohamed SI, Bashir B, Berg S, Bilen MA, others (2022) Interplay of immunosuppression and immunotherapy among patients with cancer and COVID-19. JAMA Oncol.
- Barbarino M, Bottaro M, Spagnoletti L, de Santi MM, Guazzo R, Defraia C, Custoza C, Serio G, Iannelli F, Pesetti M, others (2022) Analysis of Primary Cilium Expression and Hedgehog Pathway Activation in Mesothelioma Throws Back Its Complex Biology. Cancers (Basel) 14:5216.
- Behm JE, Bélouard N, Gleditsch JM, Phillips PM, Swartz TM (2022a) Trait-based approaches for understanding how biodiversity generates sustainable benefits in urban vegetated green infrastructure. Curr Opin Environ Sustain 57:101204.
- Behm JE, Busala GM, Helmus M, others (2022b) First records of three new lizard species and a range expansion of a fourth lizard species introduced to Aruba. Bioinvasions Rec 11.
- Benndorf R, Velazquez R, Zehr JD, Pond SLK, Martin JL, Lucaci AG (2022) Human HspB1, HspB3, HspB5 and HspB8: Shaping these disease factors during vertebrate evolution. Cell Stress Chaperones 27:309–323.
- Benot-Dominguez R, Cimini A, Barone D, Giordano A, Pentimalli F (2022) The Emerging Role of Cyclin-Dependent Kinase Inhibitors in Treating Diet-Induced Obesity: New Opportunities for Breast and Ovarian Cancers? Cancers (Basel) 14:2709.
- Bergamaschi R, Beghi E, Bosetti C, Ponzio M, Santucci C, Lepore V, Mosconi P, Sclerosis IM, Group RDRC, the Scientific Committee of Italian SM, Register RD, Aguglia U, Amato MP, others (2022) Do patients’ and referral centers’ characteristics influence multiple sclerosis phenotypes? Results from the Italian multiple sclerosis and related disorders register. Neurological Sciences 43:5459–5469.
- Berns, M. L., and Habas, R. (2022). “Biochemical Assays to Detect Activation of Small GTPases Rho, Rac Rac, and Cdc42 Cdc42 during Morphogenesis Morphogenesis,” in Cell Polarity Signaling: Methods and Protocols (Springer), 83–95.
- Bucci, E., and Carafoli, E. (2022). SCIENTIFIC FRAUD Part I: Definition, General Concepts, Historical Cases. Eur. Rev. 30, 835–849.
- Burk S, Giordano A (2022) Incidence Of Breast Cancer In Ethnic Minority Groups In North America And Populations In Western Europe. Annals of Research in Oncology:116.
- Cabezas-Bratesco D, Mcgee FA, Colenso CK, Zavala K, Granata D, Carnevale V, Opazo JC, Brauchi SE (2022) Sequence and structural conservation reveal fingerprint residues in TRP channels. Elife 11:e73645.
- Canciello A, Cerveró-Varona A, Peserico A, Mauro A, Russo V, Morrione A, Giordano A, Barboni B (2022) “In medio stat virtus”: Insights into hybrid E/M phenotype attitudes. Front Cell Dev Biol 10.
- Canuti, M., Bianchi, S., Kolbl, O., Pond, S. L. K., Kumar, S., Gori, M., et al. (2022). Waiting for the truth: is reluctance in accepting an early origin hypothesis for SARS-CoV-2 delaying our understanding of viral emergence? BMJ Glob. Heal. 7, e008386.
- Caraballo-Ortiz MA, Miura S, Sanderford M, Dolker T, Tao Q, Weaver S, Pond SLK, Kumar S (2022) TopHap: rapid inference of key phylogenetic structures from common haplotypes in large genome collections with limited diversity. Bioinformatics 38:2719–2726.
- Carafoli, E., and Bucci, E. (2022). Scientific fraud part II: From past to present, facts and analyses. Eur. Rev. 30, 850–871.
- Carbone, M., Pass, H. I., Ak, G., Alexander Jr, H. R., Baas, P., Baumann, F., et al. (2022). Medical and surgical care of mesothelioma patients and their relatives carrying germline BAP1 mutations. J. Thorac. Oncol.
- Caruso L, Castellino A, Dess\`\i D, Flenghi L, Giordano A, Ibatici A, Massone C, Pileri A, Proietti I, Pupo L, others (2022a) Italian Real-Life Experience on the Use of Mogamulizumab in Patients with Cutaneous T-Cell Lymphomas. Cancer Manag Res:3205–3221.
- Caruso M, Emma R, Distefano A, Rust S, Poulas K, Giordano A, Volarevic V, Mesiakaris K, Boffo S, Arsenijevic A, others (2022b) Comparative assessment of electronic nicotine delivery systems aerosol and cigarette smoke on endothelial cell migration: the Replica Project. Drug Test Anal.
- Cavender-Bares JM, Nelson E, Meireles JE, Lasky JR, Miteva DA, Nowak DJ, Pearse WD, Helmus MR, Zanne AE, Fagan WF, others (2022) The hidden value of trees: quantifying the ecosystem services of tree lineages and their major threats across the contiguous US. PLOS Sustainability and Transformation 1:e0000010.
- Chen Z, Ding D, Yu T, Yang W, Li Q, Li Y (2022) Enzymatic degradation behaviors and kinetics of bio-degradable jute/poly (lactic acid)(PLA) composites. Composites Communications 33:101227.
- Chen, X., Guo, J., Zhou, F., Ren, W., Pu, J., Mutti, L., et al. (2022). Over-expression of long non-coding RNA-AC099850. 3 correlates with tumor progression and poor prognosis in lung adenocarcinoma. Front. Oncol. 12.
- Chroni, A., Miura, S., Hamilton, L., Vu, T., Gaffney, S. G., Aly, V., et al. (2022). Clone Phylogenetics Reveals Metastatic Tumor Migrations, Maps, and Models. Cancers (Basel). 14, 4326. doi:10.3390/cancers14174326.
- Colleluori G, Galli C, Severi I, Perugini J, Giordano A (2022a) Early Life Stress, Brain Development, and Obesity Risk: Is Oxytocin the Missing Link? Cells 11:623.
- Colleluori G, Graciotti L, Pesaresi M, di Vincenzo A, Perugini J, di Mercurio E, Caucci S, Bagnarelli P, Zingaretti CM, Nisoli E, others (2022b) Visceral fat inflammation and fat embolism are associated with lung’s lipidic hyaline membranes in subjects with COVID-19. Int J Obes 46:1009–1017.
- Colleluori G, Perugini J, di Vincenzo A, Senzacqua M, Giordano A, Cinti S (2022d) Brown fat anatomy in humans and rodents. In: Brown Adipose Tissue: Methods and Protocols. Springer, p 19–42
- Colleluori G, Perugini J, Giordano A, Cinti S (2022c) From obesity to diabetes: the role of the adipose organ. From Obesity to Diabetes:75–92.
- Coppi, L., Peri, C., Bonacina, F., Longo, R., Cricr\’\i, D., Pedretti, S., et al. (2022). Role of histone deacetylase 3 (HDAC3) in adipose tissue metabolism and immunophenotype: Selected Abstract-SITeCS Congress 2022. Eur. Atheroscler. J. 1.
- Coronel L, Carnevale V (2022) Allosteric metamaterials: leveraging the enthalpy-entropy competition to mimic the responsiveness of biomolecules to external stimuli. Biophys J 121:65a.
- Correale P, Pentimalli F, Nardone V, Giordano A, Mutti L (2022) CONFIRM trial: what is the real efficacy of second-line immunotherapy in mesothelioma? Lancet Oncol 23:e13.
- Costa A, Forte IM, Ventura E, Pentimalli F, Giordano A (2022) Pharmacological reactivation of RBL2/p130 could be an effective antitumoral strategy for malignant pleural mesothelioma. The FASEB Journal 36.
- Cox N, Young BE, Bowles P, Fernandez M, Marin J, Rapacciuolo G, Böhm M, Brooks TM, Hedges SB, Hilton-Taylor C, others (2022) A global reptile assessment highlights shared conservation needs of tetrapods. Nature 605:285–290.
- Craig JM, Kumar S, Hedges SB (2022) Limitations of phylogenomic data can drive inferred speciation rate shifts. Mol Biol Evol 39:msac038.
- Darbinian N, Darbinyan A, Sinard J, Tatevosian G, Merabova N, D’Amico F, Khader T, Bajwa A, Martirosyan D, Gawlinski AK, others (2022) Molecular Markers in Maternal Blood Exosomes Allow Early Detection of Fetal Alcohol Spectrum Disorders. Int J Mol Sci 24:135.
- de Almeida NCV, Louzada J, Neves MSAS, Carvalho TM, Castro-Alves J, Silva-do-Nascimento TF, Escalante AA, Oliveira-Ferreira J (2022) Larval habitats, species composition and distribution of malaria vectors in regions with autochthonous and imported malaria in Roraima state, Brazil. Malar J 21:1–16.
- de Klerk A, Swanepoel P, Lourens R, Zondo M, Abodunran I, Lytras S, MacLean OA, Robertson D, Kosakovsky Pond SL, Zehr JD, others (2022) Conserved recombination patterns across coronavirus subgenera. Virus Evol 8:veac054.
- Dell’Anno I, Melani A, Martin SA, Barbarino M, Silvestri R, Cipollini M, Giordano A, Mutti L, Nicolini A, Luzzi L, others (2022) A Drug Screening Revealed Novel Potential Agents against Malignant Pleural Mesothelioma. Cancers (Basel) 14:2527.
- Dellostritto M, Percec S, Klein M (2022) Illuminating Stress and Failure in Polyethylene with a Neural Network Potential. In: APS March Meeting Abstracts. p W16–009
- di Fiore R, Suleiman S, Drago-Ferrante R, Subbannayya Y, Pentimalli F, Giordano A, Calleja-Agius J (2022) Cancer Stem cells and their possible implications in Cervical Cancer: a short review. Int J Mol Sci 23:5167.
- Distefano A, Caruso M, Emma R, Rust S, Poulas K, Zadjali F, Boffo S, Volarevic V, Mesiakaris K, Karanasios G, others (2022) Electronic Nicotine Delivery Systems Exhibit LowerToxicity Compared to Cigarettes:“The Replica Study Experience”. The FASEB Journal 36.
- Doughan A, Salifu SP (2022) Genes associated with diagnosis and prognosis of Burkitt lymphoma. IET Syst Biol 16:220–229.
- Ducci G, Pasquale V, Rota S, Arrigoni E, Campioni G, Ventura E, Giordano A, Morrione A, Sacco E, Vanoni M (2022) Profiling Metabolic and Signaling Phenotype of Bladder Cancer Cell Lines. The FASEB Journal 36.
- Dutta A, Tapio K, Suma A, Mostafa A, Kanehira Y, Carnevale V, Bussi G, Bald I (2022) Molecular states and spin crossover of hemin studied by DNA origami enabled single-molecule surface-enhanced Raman scattering. Nanoscale 14:16467–16478.
- Emont MP, Jacobs C, Essene AL, Pant D, Tenen D, Colleluori G, di Vincenzo A, Jørgensen AM, Dashti H, Stefek A, others (2022) A single-cell atlas of human and mouse white adipose tissue. Nature 603:926–933.
- Escalante AA, Cepeda AS, Pacheco MA (2022) Why Plasmodium vivax and Plasmodium falciparum are so different? A tale of two clades and their species diversities. Malar J 21:1–19.
- Fameli A, Nardone V, Azgomi MS, Bianco G, Gandolfo C, Oliva BM, Monoriti M, Saladino RE, Falzea A, Romeo C, others (2022) PD-1/PD-L1 immune-checkpoint blockade induces immune effector cell modulation in metastatic non-small cell lung cancer patients: A single-cell flow cytometry approach. Front Oncol 12.
- Feitelson MA, Arzumanyan A, Spector I, Medhat A (2022) Hepatitis B x (HBx) as a Component of a Functional Cure for Chronic Hepatitis B. Biomedicines 10:2210.
- Fiorillo A, Giordano A (2022) The biopsychosocial model of schizophrenia and cancer: Unraveling the etiopathogenesis of complex diseases. European Psychiatry:1–5.
- Foutel-Rodier, F., Blanquart, F., Courau, P., Czuppon, P., Duchamps, J.-J., Gamblin, J., et al. (2022). From individual-based epidemic models to McKendrick-von Foerster PDEs: A guide to modeling and inferring COVID-19 dynamics. J. Math. Biol. 85, 43.
- Fu J, Reid SA, French B, Hennessy C, Hwang C, Gatson NT, Duma N, Mishra S, Nguyen R, Hawley JE, others (2022) Racial disparities in COVID-19 outcomes among black and white patients with cancer. JAMA Netw Open 5:e224304–e224304.
- Gabbianelli R, Giordano A, Guerrieri M, Lezoche G, di Mercurio E, Petracci I, Perugini J, Bordoni L (2022) Mitochondrial DNA in visceral adipose tissue in severe obesity: from copy number to D-loop methylation. Frontiers in Bioscience-Landmark 27:172.
- Gallagher S, Carnevale V (2022) Modeling ion channel clustering using critical phenomena. Biophys J 121:371a.
- Gasbarro R, Sowers D, Margolin A, Cordes EE (2022) Distribution and predicted climatic refugia for a reef-building cold-water coral on the southeast US margin. Glob Chang Biol 28:7108–7125.
- Giordano A, Cinti F, Canese R, Carpinelli G, Colleluori G, di Vincenzo A, Palombelli G, Severi I, Moretti M, Redaelli C, others (2022a) The Adipose Organ Is a Unitary Structure in Mice and Humans. Biomedicines 10:2275.
- Giordano A, Pagano L (2022) The Treatment of Advanced-Stage Mycosis Fungoides and Sezary Syndrome: a Hematologist’s Point of View. Mediterr J Hematol Infect Dis 14.
- Giordano A, Rucci N, Falone S (2022b) Extracellular vesicles as modulators of cancer cell adaptive responses linked to therapy resistance. Front Oncol:6870.
- Gleditsch JM, Behm JE, Ellers J, Jesse WAM, Helmus MR (2022) Contemporizing island biogeography theory with anthropogenic drivers of species richness. Global Ecology and Biogeography.
- Gómez CE, Gori A, Weinnig AM, Hallaj A, Chung HJ, Cordes EE (2022) Natural variability in seawater temperature compromises the metabolic performance of a reef-forming cold-water coral with implications for vulnerability to ongoing global change. Coral Reefs 41:1225–1237.
- Grattepanche J-D, Jeffrey WH, Gast RJ, Sanders RW (2022) Diversity of microbial eukaryotes along the West Antarctic peninsula in austral spring. Front Microbiol 13:844856.
- Grillo E, Ravelli C, Colleluori G, D’Agostino F, Domenichini M, Giordano A, Mitola S (2022) Role of gremlin-1 in the pathophysiology of the adipose tissues. Cytokine Growth Factor Rev:S1359–6101.
- Gutierrez-Velez VH, Gilbert MR, Kinsey D, Behm JE (2022) Beyond the ‘urban’and the ‘rural’: conceptualizing a new generation of infrastructure systems to enable rural–urban sustainability. Curr Opin Environ Sustain 56:101177.
- Harman J, Hipsley CA, Jacobus LM, Liberles DA, Settele J, Traulsen A (2022) 2022 BMC Ecology and Evolution image competition: the winning images. BMC Ecol Evol 22:99.
- Hawley JE, Sun T, Chism DD, Duma N, Fu JC, Gatson NTN, Mishra S, Nguyen RH, Reid SA, Serrano OK, others (2022) Assessment of regional variability in COVID-19 outcomes among patients with cancer in the United States. JAMA Netw Open 5:e2142046–e2142046.
- He J, Yu T, Yang W, Li Y (2022) Biodegradable star-shaped poly (lactic acid): Synthesis, characterization and its reaction kinetics. J Polym Environ 30:3121–3128.
- Hedges SB (2022) A new species of frog from the Caribbean island of Montserrat (Eleutherodactylidae, Eleutherodactylus). Zootaxa 5219:375–387.
- Henry CN, Piper K, Wilson AE, Miraszek JL, Probst CS, Rong Y, Liberles DA (2022) WGDTree: a phylogenetic software tool to examine conditional probabilities of retention following whole genome duplication events. BMC Bioinformatics 23:1–15.
- Huron NA, Behm JE, Helmus MR (2022) Paninvasion severity assessment of a US grape pest to disrupt the global wine market. Commun Biol 5:655.
- Huzar J, Kim H, Kumar S, Miura S (2022) MOCA for Integrated Analysis of Gene Expression and Genetic Variation in Single Cells. Front Genet 13.
- Iaconis, D., Bordi, L., Matusali, G., Talarico, C., Manelfi, C., Cesta, M. C., et al. (2022). Characterization of raloxifene as a potential pharmacological agent against SARS-CoV-2 and its variants. Cell Death \& Dis. 13, 498.
- Infante MS, Salmanton-Garc\’\ia J, Fernandez-Cruz A, Marchesi F, Jaksic O, Weinbergerova B, Besson C, Duarte RF, Itri F, Valković T, others (2022) B-cell malignancies treated with targeted drugs and SARS-CoV-2 infection: A European Hematology Association Survey (EPICOVIDEHA). Front Oncol 12.
- Intiso D, Centra AM, Giordano A, Santamato A, Amoruso L, di Rienzo F (2022) Critical illness polyneuropathy and functional outcome in subjects with COVID-19: report on four patients and a scoping review of the literature. J Rehabil Med 54.
- Islam MS, Junod SL, Zhang S, Buuh ZY, Guan Y, Zhao M, Kaneria KH, Kafley P, Cohen C, Maloney R, others (2022) Unprotected peptide macrocyclization and stapling via a fluorine-thiol displacement reaction. Nat Commun 13:350.
- Järvinen, K. M., Davis, E. C., Bevec, E., Jackson, C. M., Pizzarello, C., Catlin, E., et al. (2022). Biomarkers of development of immunity and allergic diseases in farming and non-farming lifestyle infants: design, methods and 1 year outcomes in the “Zooming in to Old Order Mennonites” birth cohort study. Front. Pediatr. 10, 916184.
- Jarzyna MA, Norman KEA, LaMontagne JM, Helmus MR, Li D, Parker SM, Perez Rocha M, Record S, Sokol ER, Zarnetske PL, others (2022) Community stability is related to animal diversity change. Ecosphere 13:e3970.
- Jiang, X., Chen, X., Guo, J., Zhou, F., Pu, J., Mutti, L., et al. (2022). Identification and Validation of lncRNA-AC087588. 2 in Lung Adenocarcinoma: A Novel Prognostic and Diagnostic Indicator. Front. Mol. Biosci. 9.
- Jiang, Z., El-Brolosy, M. A., Serobyan, V., Welker, J. M., Retzer, N., Dooley, C. M., et al. (2022). Parental mutations influence wild-type offspring via transcriptional adaptation. Sci. Adv. 8, eabj2029.
- Johnstone JW, Lunden JJ, Waller RG, Poulton NJ, Togami H (2022) Antarctic deep-sea coral larvae may be resistant to end-century ocean warming. Coral Reefs 41:1495–1510.
- Kalvaityté, M., and Balciunas, D. (2022). Conditional mutagenesis strategies in zebrafish. Trends Genet.
- Kaur H, Pacheco MA, Garber L, Escalante AA, Vinetz JM (2022) Evolutionary Insights into the Microneme-Secreted, Chitinase-Containing High-Molecular-Weight Protein Complexes Involved in Plasmodium Invasion of the Mosquito Midgut. Infect Immun 90:e00314–21.
- Kawamoto S, Liu H, Miyazaki Y, Seo S, Dixit M, DeVane R, MacDermaid C, Fiorin G, Klein ML, Shinoda W (2022) SPICA force field for proteins and peptides. J Chem Theory Comput 18:3204–3217.
- Krishnamurthy R, Goldman AD, Liberles DA, Rogers KL, Tor Y (2022) Nucleobases in Meteorites to Nucleobases in RNA and DNA? J Mol Evol 90:328–331.
- Kumar Sudhir (2022) Embracing green computing in molecular phylogenetics. Mol Biol Evol 39: msac043.
- Kumar S, Suleski M, Craig JM, Kasprowicz AE, Sanderford M, Li M, Stecher G, Hedges SB (2022) TimeTree 5: An expanded resource for species divergence times. Mol Biol Evol 39:msac174.
- la Puente A, Ventura J, Miñarro M, Somoano A, Hey J, Castresana J (2022) Divergence time estimation using ddRAD data and an isolation-with-migration model applied to water vole populations of Arvicola. Sci Rep 12:4065.
- Lama A, Pirozzi C, Severi I, Morgese MG, Senzacqua M, Annunziata C, Comella F, del Piano F, Schiavone S, Petrosino S, others (2022) Palmitoylethanolamide dampens neuroinflammation and anxiety-like behavior in obese mice. Brain Behav Immun 102:110–123.
- Landoni, G., Piemonti, L., Monforte, A. d’Arminio, Grossi, P., Zangrillo, A., Bucci, E., et al. (2022). A multicenter phase 2 randomized controlled study on the efficacy and safety of reparixin in the treatment of hospitalized patients with COVID-19 pneumonia. Infect. Dis. Ther. 11, 1559–1574.
- Lewkiewicz SM, de Bona S, Helmus MR, Seibold B (2022) Temperature sensitivity of pest reproductive numbers in age-structured PDE models, with a focus on the invasive spotted lanternfly. J Math Biol 85:29.
- Li D, Record S, Sokol ER, Bitters ME, Chen MY, Chung YA, Helmus MR, Jaimes R, Jansen L, Jarzyna MA, others (2022) Standardized NEON organismal data for biodiversity research. Ecosphere 13:e4141.
- Li, H., Yang, W., Ma, Q., Qian, Z., and Yang, L. (2022). Specific Sensitivity Analysis and Imitative Full Stress Method for Optimal BCCZ Lattice Structure by Additive Manufacturing. Crystals 12, 1844.
- Liu M, Chen Y, Cheng W, Chen S, Yu T, Yang W (2022a) Controllable electromechanical stability of a torsional micromirror actuator with piezoelectric composite structure under capillary force. Capillarity 5:51–64.
- Liu S, Behm JE, Meng Y, Zhang W, Xia S, Yang X, Fu S (2022b) Nitrogen addition enhances the bottom-up effects in the detrital food web. Glob Ecol Conserv 39:e02299.
- Liu S, Meng Y, Behm JE, Zhang W, Fu S (2022c) Canopy nitrogen addition affects ground-dwelling spider assemblages and trophic position. Insect Conserv Divers.
- Liu S, Xia S, Wu D, Behm JE, Meng Y, Yuan H, Wen P, Hughes AC, Yang X (2022d) Understanding global and regional patterns of termite diversity and regional functional traits. iScience 25:105538.
- Liu W, Fan X, Jung J-H, Grattepanche J-D (2022e) Ciliates: Key Organisms in Aquatic Environments. Front Microbiol 13.
- Longhitano L, Vicario N, Tibullo D, Giallongo C, Broggi G, Caltabiano R, Barbagallo GMV, Altieri R, Baghini M, di Rosa M, others (2022) Lactate induces the expressions of MCT1 and HCAR1 to promote tumor growth and progression in glioblastoma. Front Oncol 12.
- López DP, Freestone AL (2022) Biotic interactions shape trait assembly of marine communities across time and latitude. Proceedings of the Royal Society B 289:20221838.
- Lucaci, A. G., Notaras, M. J., Kosakovsky Pond, S. L., and Colak, D. (2022). The evolution of BDNF is defined by strict purifying selection and prodomain spatial coevolution, but what does it mean for human brain disease? Transl. Psychiatry 12, 258.
- Lucaci, A. G., Zehr, J. D., Shank, S. D., Bouvier, D., Ostrovsky, A., Mei, H., et al. (2022). RASCL: Rapid Assessment of Selection in CLades through molecular sequence analysis. PLoS One 17, e0275623.
- Lytras, S., Hughes, J., Martin, D., Swanepoel, P., de Klerk, A., Lourens, R., et al. (2022). Exploring the natural origins of SARS-CoV-2 in the light of recombination. Genome Biol. Evol. 14, evac018.
- Maffei M, Giordano A (2022) Leptin, the brain and energy homeostasis: from an apparently simple to a highly complex neuronal system. Rev Endocr Metab Disord 23:87–101.
- Maher, M. C., Bartha, I., Weaver, S., Di Iulio, J., Ferri, E., Soriaga, L., et al. (2022). Predicting the mutational drivers of future SARS-CoV-2 variants of concern. Sci. Transl. Med. 14, eabk3445.
- Malavazos AE, di Vincenzo A, Iacobellis G, Basilico S, Dubini C, Morricone L, Menicanti L, Luca T, Giordano A, Castorina S, others (2022) The density of crown-like structures in epicardial adipose tissue could play a role in cardiovascular diseases. Eating and Weight Disorders-Studies on Anorexia, Bulimia and Obesity 27:2905–2910.
- Manandhar A, Haron MH, Klein ML, Elokely K (2022a) Understanding the Dynamics of the Structural States of Cannabinoid Receptors and the Role of Different Modulators. Life 12:2137.
- Manandhar A, Haron MH, Ross SA, Klein ML, Elokely KM (2022b) Potential Pro-Inflammatory Effect of Vitamin E Analogs through Mitigation of Tetrahydrocannabinol (THC) Binding to the Cannabinoid 2 Receptor. Int J Mol Sci 23:4291.
- Mancuso P, Tricarico R, Bhattacharjee V, Cosentino L, Kadariya Y, Jelinek J, Nicolas E, Einarson M, Beeharry N, Devarajan K, others (2022) Correction to: Thymine DNA glycosylase as a novel target for melanoma. Oncogene 41:3300–3301.
- Martelli E, Sotgiu G, Saderi L, Federici M, Sangiorgi G, Zamboni M, Martelli AR, Accarino G, Bianco G, Bonanno F, others (2022) How the First Year of the COVID-19 Pandemic Impacted Patients’ Hospital Admission and Care in the Vascular Surgery Divisions of the Southern Regions of the Italian Peninsula. J Pers Med 12:1170.
- Martin, D. P., Lytras, S., Lucaci, A. G., Maier, W., Grüning, B., Shank, S. D., et al. (2022). Selection analysis identifies clusters of unusual mutational changes in Omicron lineage BA. 1 that likely impact Spike function. Mol. Biol. Evol. 39, msac061.
- Matacchione G, Perugini J, di Mercurio E, Sabbatinelli J, Prattichizzo F, Senzacqua M, Storci G, Dani C, Lezoche G, Guerrieri M, others (2022) Senescent macrophages in the human adipose tissue as a source of inflammaging. Geroscience 44:1941–1960.
- Matta NE, González LP, Vargas-Ram\’\irez M, Valkiūnas G, Escalante AA, Pacheco MA (2022) Morphometric and molecular characterization of an unpigmented haemosporidian parasite in the Neotropical turnip-tailed gecko (Thecadactylus rapicauda). Parasitology:1–9.
- Mauro D, Ciancio A, di Vico C, Passariello L, Rozza G, Pasquale MD, Pantano I, Cannistrà C, Bucci L, Scriffignano S, others (2022) Serological response to BNT162b2 anti-SARS-CoV-2 vaccination in patients with inflammatory rheumatic diseases: results from the RHEUVAX cohort. Front Immunol:2668.
- McCartin LJ, Vohsen SA, Ambrose SW, Layden M, McFadden CS, Cordes EE, McDermott JM, Herrera S (2022) Temperature Controls eDNA Persistence across Physicochemical Conditions in Seawater. Environ Sci Technol 56:8629–8639.
- McElderry RM, Spigler RB, Vogler DW, Kalisz S (2022) How early does the selfing syndrome arise? Associations between selfing ability and flower size within populations of the mixed-mater Collinsia verna. Am J Bot 109:333–344.
- McGee FA, Carnevale V (2022a) Exploring the sequence-structure map: joint embedding of protein sequence & structure. Biophys J 121:132a.
- McGee FA, Carnevale V (2022b) Using latent space models to investigate the evolution of ion channels. Biophys J 121:101a.
- Meirson T, Nardone V, Pentimalli F, Markel G, Bomze D, D’Apolito M, Correale P, Giordano A, Pirtoli L, Porta C, others (2022a) Analysis of new treatments proposed for malignant pleural mesothelioma raises concerns about the conduction of clinical trials in oncology. J Transl Med 20:1–9.
- Meirson T, Pentimalli F, Cerza F, Baglio G, Gray SG, Correale P, Krstic-Demonacos M, Markel G, Giordano A, Bomze D, others (2022b) Comparison of 3 randomized clinical trials of frontline therapies for malignant pleural mesothelioma. JAMA Netw Open 5:e221490–e221490.
- Melillo A, Chirico A, de Pietro G, Gallo L, Caggianese G, Barone D, de Laurentiis M, Giordano A (2022a) Virtual Reality Rehabilitation Systems for Cancer Survivors: A Narrative Review of the Literature. Cancers (Basel) 14:3163.
- Melillo A, Maiorano P, Rachedi S, Caggianese G, Gragnano E, Gallo L, de Pietro G, Guida M, Giordano A, Chirico A (2022b) Labor Analgesia: A Systematic Review and Meta-Analysis of Non-Pharmacological Complementary and Alternative Approaches to Pain during First Stage of Labor. Crit Rev Eukaryot Gene Expr 32.
- Miura S, Vu T, Choi J, Townsend JP, Karim S, Kumar S (2022) A phylogenetic approach to study the evolution of somatic mutational processes in cancer. Commun Biol 5:617.
- Moore AR (2022) Genetic, Epigenetic, and Epitranscriptomic Mechanisms Associated With Learning and Memory. Front Genet 12:2847.
- Morganti S, Bianchini G, Giordano A, Giuliano M, Curigliano G, Criscitiello C (2022) How I treat HER2-positive early breast cancer: how long adjuvant trastuzumab is needed? ESMO Open 7:100428.
- Morrione A, Belfiore A (2022) Obesity, Diabetes, and Cancer: The Role of the Insulin/IGF Axis; Mechanisms and Clinical Implications. Biomolecules 12:612.
- Muche, S., El-Fenej, J., Mihaita, A., Mrozek, Z., Cleary, S., Critelli, B., et al. (2022). The two sRNAs OmrA and OmrB indirectly repress transcription from the LEE1 promoter of enteropathogenic Escherichia coli. Folia Microbiol. (Praha)., 1–16.
- Nardone, V., Correale, P., Mutti, L., Desideri, I., Romeo, C., Pastina, P., et al. (2022). Comparing Addition of Radiotherapy in EGFR-and ALK-Positive NSCLC With Brain Metastases: Are We Evaluating the Optimal End Point? J. Thorac. Oncol. 17, e10--e12.
- Nardone, V., Porta, C., Giannicola, R., Correale, P., and Mutti, L. (2022). Abemaciclib for malignant pleural mesothelioma. Lancet Oncol. 23, e237.
- on Global NGHU, Glasbey JC, Abbott TEF, Ademuyiwa A, Adisa A, AlAmeer E, Alshryda S, Arnaud AP, Bankhead-Kendall B, Abou Chaar MK, others (2022) Elective surgery system strengthening: development, measurement, and validation of the surgical preparedness index across 1632 hospitals in 119 countries. The Lancet 400:1607–1617.
- Opoku NK-DO, Borkor RN, Adu AF, Nyarko HN, Doughan A, Appiah EM, Yakubu B, Mensah I, Salifu SP, others (2022) Modelling the Transmission Dynamics of Meningitis among High and Low-Risk People in Ghana with Cost-Effectiveness Analysis. In: Abstract and Applied Analysis.
- Ose NJ, Butler BM, Kumar A, Kazan IC, Sanderford M, Kumar S, Ozkan SB (2022) Dynamic coupling of residues within proteins as a mechanistic foundation of many enigmatic pathogenic missense variants. PLoS Comput Biol 18:e1010006.
- Pacheco MA, Ferreira FC, Logan CJ, McCune KB, MacPherson MP, Albino Miranda S, Santiago-Alarcon D, Escalante AA (2022a) Great-tailed Grackles (Quiscalus mexicanus) as a tolerant host of avian malaria parasites. PLoS One 17:e0268161.
- Pacheco MA, Junge RE, Menon A, McRoberts J, Valkiūnas G, Escalante AA (2022b) The evolution of primate malaria parasites: A study on the origin and diversification of Plasmodium in lemurs. Mol Phylogenet Evol 174:107551.
- Pagano Zottola AC, Severi I, Cannich A, Ciofi P, Cota D, Marsicano G, Giordano A, Bellocchio L (2022) Expression of Functional Cannabinoid Type-1 (CB1) Receptor in Mitochondria of White Adipocytes. Cells 11:2582.
- Patel R, Carnevale V, Kumar S (2022) Epistasis creates invariant sites and modulates the rate of molecular evolution. Mol Biol Evol 39:msac106.
- Peng X, Na R, Zhou W, Meng X, Yang Y, Amini S, Song L (2022) Nuclear translocation of Gasdermin D sensitizes colorectal cancer to chemotherapy in a pyroptosis-independent manner. Oncogene:1–15.
- Poli G, di Stefano M, Estevez JA, Minutolo F, Granchi C, Giordano A, Parisi S, Mauceri M, Canzonieri V, Macchia M, others (2022) New PIN1 inhibitors identified through a pharmacophore-driven, hierarchical consensus docking strategy. J Enzyme Inhib Med Chem 37:145–150.
- Posada EF, McGee F, Berger R, Dorrell M, Lamanna J, Sanielevici S, Carnevale V (2022) AlphaFold2 Workflow Optimization for High Throughput Predictions in HPC Environment. In: Practice and Experience in Advanced Research Computing. p 1–5
- Quattrini AM, Herrera S, Adams JM, Grinyo J, Allcock AL, Shuler A, Wirshing HH, Cordes EE, McFadden CS (2022) Phylogeography of Paramuricea: The role of depth and water mass in the evolution and distribution of deep-sea corals. Front Mar Sci.
- Raballah E, Anyona SB, Cheng Q, Munde EO, Hurwitz I-F, Onyango C, Ndege C, Hengartner NW, Pacheco MA, Escalante AA, others (2022) Complement component 3 mutations alter the longitudinal risk of pediatric malaria and severe malarial anemia. Exp Biol Med 247:672–682.
- Ramirez VA, de Bona S, Helmus MR, Behm JE (2022) Multiscale assessment of oviposition habitat associations and implications for management in the spotted lanternfly (Lycorma delicatula), an emerging invasive pest. Journal of Applied Ecology.
- Ren, W., Yuan, Y., Chen, X., Zhai, H., An, Y., Tang, L., et al. (2022). Identification and validation of long non-coding RNA LCIIAR as a biomarker in LUAD. Front. Oncol. 12.
- Ren, W., Yuan, Y., Peng, J., Mutti, L., and Jiang, X. (2022). The function and clinical implication of circular RNAs in lung cancer. Front. Oncol. 12.
- Rosati D, Giordano A (2022) Single-cell RNA sequencing and bioinformatics as tools to decipher cancer heterogenicity and mechanisms of drug resistance. Biochem Pharmacol 195:114811.
- Rossi E, Mutti L, Morrione A, Giordano A (2022) Neuro–Immune Interactions in Severe COVID-19 Infection. Pathogens 11:1256.
- Russo A, Maurea N, Farmakis D, Giordano A (2022a) Cardio-oncology: Management of Toxicities in the Era of Immunotherapy. Springer Nature.
- Russo C, Barone D, Lavorgna M, Piscitelli C, Macaluso M, Pacifico S, Piccolella S, Giordano A, Isidori M (2022b) Cytotoxic evaluation and chemical investigation of tomatoes from plants (Solanum lycopersicum L.) grown in uncontaminated and experimentally contaminated soils. Sci Rep 12:13024.
- Salifu SP, Doughan A (2022) New Clues to Prognostic Biomarkers of Four Hematological Malignancies. J Cancer 13:2490.
- Samrat SK, Xu J, Xie X, Gianti E, Chen H, Zou J, Pattis JG, Elokely K, Lee H, Li Z, others (2022) Allosteric inhibitors of the main protease of SARS-CoV-2. Antiviral Res 205:105381.
- Schnell SJ, Tingey M, Yang W (2022) Speed Microscopy: High-Speed Single Molecule Tracking and Mapping of Nucleocytoplasmic Transport. In: The Nuclear Pore Complex: Methods and Protocols. Springer, p 353–371
- SCHOOLS M, HEDGES SB, others (2022) A new genus and species of Caribbean forest lizard (Diploglossidae; Celestinae) from southern Hispaniola. Zootaxa 5219:201–226.
- Schools M, Kasprowicz A, Hedges SB (2022) Phylogenomic data resolve the historical biogeography and ecomorphs of Neotropical forest lizards (Squamata, Diploglossidae). Mol Phylogenet Evol 175:107577.
- Sewall BJ, Turner GG, Scafini MR, Johnson JS (2022) Cooling subterranean environments for climate adaptation and disease management: reply to Meierhofer et al. Conservation Biology 36.
- Sharma S, Kumar S (2022) Taming the selection of optimal substitution models in Phylogenomics by site subsampling and upsampling. Mol Biol Evol 39:msac236.
- Sianga-Mete, R., Hartnady, P., Mandikumba, W. C., Rutherford, K., Currin, C. B., Phelanyane, F., et al. (2022). Viral genome sequence datasets display pervasive evidence of strand-specific substitution biases that are best described using non-reversible nucleotide substitution models. Res. Sq., rs--3.
- Spigler RB, Maguiña R (2022) Changes in female function and autonomous selfing across floral lifespan interact to drive variation in the cost of selfing. Am J Bot 109:616–627.
- Srivastava A, Carnevale V (2022) Thermodynamic coupling between local lipid composition and ion channel conformation. Biophys J 121:371a.
- Stolow J, Cloutier M, Freestone A, Salisbury K (2022) Extreme Weather Preparedness for Institutions of Higher Education: Impacts and Lessons Learned to Inform Campus Health. CommonHealth 3:87–97.
- Suma A, Sigg D, Carnevale V (2022) From spatial to temporal patterns: cooperativity across ion channels in supercritical membranes. Biophys J 121:372a.
- Tao, K., Tzou, P. L., Kosakovsky Pond, S. L., Ioannidis, J. P. A., and Shafer, R. W. (2022). Susceptibility of SARS-CoV-2 Omicron variants to therapeutic monoclonal antibodies: systematic review and meta-analysis. Microbiol. Spectr. 10, e00926--22.
- Tarantino P, Niman SL, Erick T, Priedigkeit N, Harrison B, Giordano A, Nakhlis F, Bellon JR, Parker T, Strauss S, others (2022a) 206P HER2-low inflammatory breast cancer (IBC): Clinicopathologic features and prognostic implications. Annals of Oncology 33:S629–S630.
- Tarantino P, Niman SM, Erick TK, Priedigkeit N, Harrison BT, Giordano A, Nakhlis F, Bellon JR, Parker T, Strauss S, others (2022b) HER2-low inflammatory breast cancer: Clinicopathologic features and prognostic implications. Eur J Cancer 174:277–286.
- Tegally, H., Moir, M., Everatt, J., Giovanetti, M., Scheepers, C., Wilkinson, E., et al. (2022). Emergence of SARS-CoV-2 omicron lineages BA. 4 and BA. 5 in South Africa. Nat. Med. 28, 1785–1790.
- Thakur R, Collens AB, Greco M, Sleith RS, Grattepanche J-D, Katz LA (2022) Newly designed foraminifera primers identify habitat-specific lineages through metabarcoding analyses. Journal of Eukaryotic Microbiology 69:e12913.
- Tingey M, Li Y, Yang W (2022a) Selective Degradation and Quantification of Nucleoporins in the Nuclear Pore by Auxin-Inducible Degrons and Single-Molecule Microscopy. Curr Protoc 2:e520.
- Tingey M, Li Y, Yu W, Young A, Yang W (2022b) Spelling out the roles of individual nucleoporins in nuclear export of mRNA. Nucleus 13:172–195.
- Tingey M, Schnell SJ, Yu W, Saredy J, Junod S, Patel D, Alkurdi AA, Yang W (2022c) Technologies Enabling Single-Molecule Super-Resolution Imaging of mRNA. Cells 11:3079.
- Tingey M, Yang W (2022) Unraveling docking and initiation of mRNA export through the nuclear pore complex. BioEssays 44:2200027.
- Torres K, Ferreira MU, Castro MC, Escalante AA, Conn JE, Villasis E, da Silva Araujo M, Almeida G, Rodrigues PT, Corder RM, others (2022) Malaria Resilience in South America: Epidemiology, Vector Biology, and Immunology Insights from the Amazonian International Center of Excellence in Malaria Research Network in Peru and Brazil. Am J Trop Med Hyg 107:168.
- Troisi, N., Adami, D., Michelagnoli, S., Berchiolli, R., Accrocca, F., Amico, A., et al. (2022). Factors Affecting Patency of In Situ Saphenous Vein Bypass: Two Year Results from LIMBSAVE (Treatment of critical Limb Ischaemia with infragenicular Bypass adopting in situ SAphenous VEin technique) Registry. Eur. J. Vasc. Endovasc. Surg. 64, 350–358.
- Troisi, N., Michelagnoli, S., Adami, D., Berchiolli, R., Accrocca, F., Amico, A., et al. (2022). Comparison of long occlusive femoropopliteal de novo versus previous endovascularly treated lesions managed with in situ saphenous bypass. J. Vasc. Surg. 76, 797–805.
- Tufano A, Cordua N, Nardone V, Ranavolo R, Flammia RS, D’Antonio F, Borea F, Anceschi U, Leonardo C, Morrione A, others (2022) Prognostic significance of organ-specific metastases in patients with metastatic upper tract urothelial carcinoma. J Clin Med 11:5310.
- Turner DB, Behm JE, Phillips PM, Ramirez VA, Helmus MR (2022a) Coding for broader impact: leveraging coding skills for stakeholder communication. Front Ecol Environ 20:255–262.
- Turner GG, Sewall BJ, Scafini MR, Lilley TM, Bitz D, Johnson JS (2022b) Cooling of bat hibernacula to mitigate white-nose syndrome. Conservation Biology 36:e13803.
- Tzou, P. L., Tao, K., Pond, S. L. K., and Shafer, R. W. (2022). Coronavirus Resistance Database (CoV-RDB): SARS-CoV-2 susceptibility to monoclonal antibodies, convalescent plasma, and plasma from vaccinated persons. PLoS One 17, e0261045.
- Tzou, P. L., Tao, K., Sahoo, M. K., Pond, S. L. K., Pinsky, B. A., and Shafer, R. W. (2022). Sierra SARS-CoV-2 sequence and antiviral resistance analysis program. J. Clin. Virol. 157, 105323.
- Ventura E, Buraschi S, Williams SJ, Belfiore A, Iozzo R v, Giordano A, Morrione A (2022a) Mechanisms of action and regulation of the progranulin/EphA2 axis in mesothelioma. Cancer Res 82:97.
- Ventura E, Xie C, Buraschi S, Belfiore A, Iozzo R v, Giordano A, Morrione A (2022b) Complexity of progranulin mechanisms of action in mesothelioma. Journal of Experimental & Clinical Cancer Research 41:333.
- Viana, R., Moyo, S., Amoako, D. G., Tegally, H., Scheepers, C., Althaus, C. L., et al. (2022). Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa. Nature 603, 679–686.
- Wang B, Fan S, Chen J, Yang W, Liu W, Li Y (2022a) A Review on Prediction and Control of Curing Process-Induced Deformation of Continuous Fiber-reinforced Thermosetting Composite Structures. Compos Part A Appl Sci Manuf:107321.
- Wang R, Zou Y, Remsing RC, Ross NO, Klein ML, Carnevale V, Borguet E (2022b) Superhydrophilicity of α-alumina surfaces results from tight binding of interfacial waters to specific aluminols. J Colloid Interface Sci 628:943–954.
- Wang S, Kang W, Yang W, Zhang Z, Li Q, Liu M, Wang X (2022c) Hygrothermal effects on buckling behaviors of porous bi-directional functionally graded micro-/nanobeams using two-phase local/nonlocal strain gradient theory. European Journal of Mechanics-A/Solids 94:104554.
- Wertheim, J. O., Wang, J. C., Leelawong, M., Martin, D. P., Havens, J. L., Chowdhury, M. A., et al. (2022). Detection of SARS-CoV-2 intra-host recombination during superinfection with Alpha and Epsilon variants in New York City. Nat. Commun. 13, 3645.
- Xiao Q, Rivera-Martinez N, Raab CJ, Bermudez JG, Good MC, Klein ML, Percec V (2022) Co-assembly of liposomes, Dendrimersomes, and Polymersomes with amphiphilic Janus dendrimers conjugated to Mono-and Tris-Nitrilotriacetic Acid (NTA, TrisNTA) enhances protein recruitment. Giant 9:100089.
- Yang W, Liu M, Ying L, Wang X (2022) Coupled effects of surface interaction and damping on electromechanical stability of functionally graded nanotubes reinforced torsional micromirror actuator. J Strain Anal Eng Des 57:360–376.
- Yang, W., Xian, H., Zhu, D., Wang, Y., and Shi, Y. (2022). Numerical simulation of binder curing on the penetration in sand bed. Mod. Phys. Lett. B 36, 2250015.
- Yuan ML, Frederick JH, McGuire JA, Bell RC, Smith SR, Fenton C, Cassius J, Williams R, Wang IJ, Powell R, others (2022) Endemism, invasion, and overseas dispersal: the phylogeographic history of the Lesser Antillean frog, Eleutherodactylus johnstonei. Biol Invasions 24:2707–2722.
- Zehr JD, Pond SLK, Martin DP, Ceres K, Whittaker GR, Millet JK, Goodman LB, Stanhope MJ (2022) Recent zoonotic spillover and tropism shift of a Canine Coronavirus is associated with relaxed selection and putative loss of function in NTD subdomain of spike protein. Viruses 14:853.
- Zhang C, Yue S, Panagiotopoulos A, Klein M, Wu X (2022a) Structural insights into sodium chloride solutions from state-of-the-art neural network potentials. In: APS March Meeting Abstracts. p W49–009
- Zhang C, Yue S, Panagiotopoulos AZ, Klein ML, Wu X (2022b) Dissolving salt is not equivalent to applying a pressure on water. Nat Commun 13:822.
- Zhang S, Li W, Luan J, Srivastava A, Carnevale V, Klein ML, Sun J, Wang D, Teora SP, Rijpkema SJ, others (2022c) Adaptive insertion of a hydrophobic anchor into a poly (ethylene glycol) host for programmable surface functionalization. Nat Chem:1–8.
- Zhang Y, Zhang J, Zhao X, Li Y, Che S, Yang W, Han L (2022d) Mechanical behaviors regulation of triply periodic minimal surface structures with crystal twinning. Addit Manuf 58:103036.
- Zhang Z, Li Q, Cao A, Yeoh W, Liu M, Yang W (2022e) Defect identification in thick porous and wavy composites with hybrid use of ultrasound non-reciprocity and scattering. Compos Sci Technol 225:109514.
- Zhang Z, Li Q, Liu M, Yang W, Ang Y (2022f) Through transmission ultrasonic inspection of fiber waviness for thickness-tapered composites using ultrasound non-reciprocity: Simulation and experiment. Ultrasonics 123:106716.
- Zhao B, Chen Z, Cheng Z, Wang S, Yu T, Yang W, Li Y (2022a) Piezoelectric nanogenerators based on electrospun PVDF-coated mats composed of multilayer polymer-coated BaTiO3 nanowires. ACS Appl Nano Mater 5:8417–8428.
- Zhao S, Carnevale V, Rohacs T (2022b) Phosphoinositide regulation of TRPM3 channels. Biophys J 121:14a.
- Zografou K, Adamidis GC, Sewall BJ, Grill A (2022) Not Too Warm, Not Too Cold: Thermal Treatments to Slightly Warmer or Colder Conditions from Mother’s Origin Can Enhance Performance of Montane Butterfly Larvae. Biology (Basel) 11:915.
2021
- Abou-Hatab S, Carnevale V, Matsika S (2021) Modeling solvation effects on absorption and fluorescence spectra of indole in aqueous solution. J Chem Phys 154:64104.
- Alhebshi, H., Tian, K., Patnaik, L., Taylor, R., Bezecny, P., Hall, C., et al. (2021). Evaluation of the role of p53 tumour suppressor posttranslational modifications and TTC5 cofactor in lung cancer. Int. J. Mol. Sci. 22, 13198.
- Ali JR, Hedges SB (2021) Colonizing the Caribbean: New geological data and an updated land-vertebrate colonization record challenge the GAARlandia land-bridge hypothesis. J Biogeogr 48:2699–2707.
- Andretta E, Costa C, Longobardi C, Damiano S, Giordano A, Pagnini F, Montagnaro S, Quintiliani M, Lauritano C, Ciarcia R (2021) Potential approaches versus approved or developing chronic myeloid leukemia therapy. Front Oncol 11:801779.
- Anstoter CS, DelloStritto M, Klein ML, Matsika S (2021) Modeling the Ultrafast Electron Attachment Dynamics of Solvated Uracil. J Phys Chem A 125:6995–7003.
- Ashford OS, Guan S, Capone D, Rigney K, Rowley K, Cordes EE, Cortés J, Rouse GW, Mendoza GF, Sweetman AK, others (2021a) Relationships between biodiversity and ecosystem functioning proxies strengthen when approaching chemosynthetic deep-sea methane seeps. Proceedings of the Royal Society B 288:20210950.
- Ashford OS, Guan S, Capone D, Rigney K, Rowley K, Orphan V, Mullin SW, Dawson KS, Cortés J, Rouse GW, others (2021b) A chemosynthetic ecotone—“chemotone”—in the sediments surrounding deep-sea methane seeps. Limnol Oceanogr 66:1687–1702.
- Astarita C, Palchetti S, Massaro-Giordano M, di Domenico M, Petrillo F, Boffo S, Caracciolo G, Giordano A (2021) Artificial protein coronas enable controlled interaction with corneal epithelial cells: new opportunities for ocular drug delivery. Pharmaceutics 13:867.
- Babaian C, Kumar S (2021) How to Build a Super Predator: From Genotype to Phenotype. Am Biol Teach 83:138–146.
- Barba-Montoya J, Tao Q, Kumar S (2021a) Assessing rapid relaxed-clock methods for Phylogenomic dating. Genome Biol Evol 13:evab251.
- Barba-Montoya J, Tao Q, Kumar S (2021b) Molecular and morphological clocks for estimating evolutionary divergence times. BMC Ecol Evol 21:1–15.
- Barbarino M, Giordano A (2021) Assessment of the carcinogenicity of carbon nanotubes in the respiratory system. Cancers (Basel) 13:1318.
- Benot-Dominguez R, Tupone MG, Castelli V, d’Angelo M, Benedetti E, Quintiliani M, Cinque B, Forte IM, Cifone MG, Ippoliti R, others (2021) Olive leaf extract impairs mitochondria by pro-oxidant activity in MDA-MB-231 and OVCAR-3 cancer cells. Biomedicine & Pharmacotherapy 134:111139.
- Bhullar RK, Zdilla MJ, Klein ML, Remsing RC (2021) Effect of water frustration on water oxidation catalysis in the nanoconfined interlayers of layered manganese oxides birnessite and buserite. J Mater Chem A Mater 9:6924–6932.
- Borne, F., Kulathinal, R. J., and Courtier-Orgogozo, V. (2021). Glue genes are subjected to diverse selective forces during Drosophila development. Genome Biol. Evol. 13, evab248.
- Brix S, Held C, Kaiser S, Jennings RM, Driskell A, Brandt A (2021) Evolution and phylogeny of the deep-sea isopod families Desmosomatidae Sars, 1897 and Nannoniscidae Hansen, 1916 (Isopoda: Asellota). Org Divers Evol 21:691–717.
- Bucci, E. M., Berkhof, J., Gillibert, A., Gopalakrishna, G., Calogero, R. A., Bouter, L. M., et al. (2021). Data discrepancies and substandard reporting of interim data of Sputnik V phase 3 trial. Lancet 397, 1881–1883.
- Burghardt I, Ventura E, Weiss T, Schroeder JJ, Seystahl K, Zielasek C, Gramatzki D, Weller M (2021) Endoglin and TGF-β signaling in glioblastoma. Cell Tissue Res 384:613–624.
- Cai L, Wang Z, Kulathinal R, Kumar S, Ji S (2021) Deep low-shot learning for biological image classification and visualization from limited training samples. IEEE Trans Neural Netw Learn Syst.
- Caracciolo D, Riillo C, Ballerini A, Gaipa G, Lhermitte L, Rossi M, Botta C, Duroyon E, Grillone K, Cantafio MEG, others (2021) Therapeutic afucosylated monoclonal antibody and bispecific T-cell engagers for T-cell acute lymphoblastic leukemia. J Immunother Cancer 9.
- Carbone, M., Lednicky, J., Xiao, S.-Y., Venditti, M., and Bucci, E. (2021). Coronavirus 2019 infectious disease epidemic: where we are, what can be done and hope for. J. Thorac. Oncol. 16, 546–571.
- Carnevale V, Delemotte L, Howard RJ (2021) Molecular dynamics simulations of ion channels. Trends Biochem Sci 46:621–622.
- Carter AM, Hsieh ST, Dodson P, Sallan L (2021) Early amphibians evolved distinct vertebrae for habitat invasions. PLoS One 16:e0251983.
- Caruso M, Emma R, Distefano A, Rust S, Poulas K, Zadjali F, Giordano A, Volarevic V, Mesiakaris K, al Tobi M, others (2021) Electronic nicotine delivery systems exhibit reduced bronchial epithelial cells toxicity compared to cigarette: the Replica Project. Sci Rep 11:1–15.
- Castelli V, Giordano A, Benedetti E, Giansanti F, Quintiliani M, Cimini A, d’Angelo M (2021) The great escape: the power of cancer stem cells to evade programmed cell death. Cancers (Basel) 13:328.
- Cepeda AS, Pacheco MA, Escalante AA, Alzate JF, Matta NE (2021) The apicoplast of Haemoproteus columbae: a comparative study of this organelle genome in Haemosporida. Mol Phylogenet Evol 161:107185.
- Cersosimo F, Barbarino M, Lonardi S, Vermi W, Giordano A, Bellan C, Giurisato E (2021) Mesothelioma malignancy and the microenvironment: molecular mechanisms. Cancers (Basel) 13:5664.
- Chapple DG, Roll U, Böhm M, Aguilar R, Amey AP, Austin CC, Baling M, Barley AJ, Bates MF, Bauer AM, others (2021) Conservation status of the world’s skinks (Scincidae): Taxonomic and geographic patterns in extinction risk. Biol Conserv 257:109101.
- Chroni A, Kumar S (2021) Tumors are evolutionary island-like ecosystems. Genome Biol Evol 13:evab276.
- Chroni A, Miura S, Oladeinde O, Aly V, Kumar S (2021) Migrations of cancer cells through the lens of phylogenetic biogeography. Sci Rep 11:17184.
- Colicchio JM, Hamm LN, Verdonk HE, Kooyers NJ, Blackman BK (2021) Adaptive and nonadaptive causes of heterogeneity in genetic differentiation across the Mimulus guttatus genome. Mol Ecol 30:6486–6507.
- Collaborative Covids, Collaborative G, Nepogodiev D, Simoes JFF, Li E, Picciochi M, Glasbey JC, Baiocchi G, Blanco-Colino R, Chaudhry D, others (2021) Timing of surgery following SARS-CoV-2 infection: an international prospective cohort study. Anaesthesia 76:748–758.
- Colleluori G, Graciotti L, Pesaresi M, di Vincenzo A, Perugini J, di Mercurio E, Caucci S, Bagnarelli P, Menzo S, Tagliabracci A, others (2021) Visceral Adipose Tissue Inflammation and Fat Embolism in COVID-19 patients with Obesity: a Histomorphologic Cross-sectional Study. Italian Journal of Anatomy and Embryology 125:73.
- Córdoba OH, Ferreira FC, Pacheco MA, Escalante AA, Braga ÉM (2021) Plasmodium ouropretensis, n. sp., a new case of non-erythrocytic species within lizard malaria parasites. Parasitology 148:1467–1474.
- Correale P, Pentimalli F, Baglio G, Krstic-Demonacos M, Saladino RE, Giordano A, Mutti L (2021) Is there already a need of reckoning on cancer immunotherapy? Front Pharmacol:214.
- Coyote-Maestas W, Nedrud D, Suma A, He Y, Matreyek KA, Fowler DM, Carnevale V, Myers CL, Schmidt D (2021) Probing ion channel functional architecture and domain recombination compatibility by massively parallel domain insertion profiling. Nat Commun 12:7114.
- Crispo A, Bimonte S, Porciello G, Forte CA, Cuomo G, Montagnese C, Prete M, Grimaldi M, Celentano E, Amore A, others (2021) Strategies to evaluate outcomes in long-COVID-19 and post-COVID survivors. Infect Agent Cancer 16:1–20.
- Cromley JG, Dai T, Fechter T, van Boekel M, Nelson FE, Dane A (2021a) What cognitive interviewing reveals about a new measure of undergraduate biology reasoning. The Journal of Experimental Education 89:145–168.
- Cromley JG, Dai T, Fechter TS, Nelson FE, van Boekel M, Du Y (2021b) Development of a tool to assess inference-making and reasoning in biology. J Microbiol Biol Educ 22:e00159–21.
- Cromley JG, Fechter TS, Dai T, Nelson FE (2021c) IMRB User and Technical Manual.
- Cui, R., Tyers, A. M., Malubhoy, Z. J., Wisotsky, S., Valdesalici, S., Henriette, E., et al. (2021). Ancestral transoceanic colonization and recent population reduction in a nonannual killifish from the Seychelles archipelago. Mol. Ecol. 30, 3610–3623.
- d’Angelo D, Chirico A, Sacchettino L, Manunta F, Martucci M, Cestaro A, Avallone L, Giordano A, Ciani F (2021) Human-dog relationship during the first COVID-19 lockdown in Italy. Animals 11:2335.
- Darbinian N, Darbinyan A, Khalili K, Amini S (2021a) Fetal Brain Injury Models of Fetal Alcohol Syndrome: Examination of Neuronal Morphologic Condition Using Sholl Assay. Methods Mol Biol 2311:195–201.
- Darbinian N, Darbinyan A, Merabova N, Amini S (2021b) Isolation of Primary Human and Rodent Brain Microvascular Endothelial Cells: Culturing, Characterization, and High-Efficiency Transfection Transfections. In: Neuronal Cell Culture: Methods and Protocols. Springer, p 185–193
- Dasari K, Somarelli JA, Kumar S, Townsend JP (2021) The somatic molecular evolution of cancer: Mutation, selection, and epistasis. Prog Biophys Mol Biol 165:56–65.
- de Caro R, Boscolo-Berto R, Artico M, Bertelli E, Cannas M, Cappello F, Carpino G, Castorina S, Cataldi A, Cavaletti GA, others (2021) The Italian law on body donation: A position paper of the Italian College of Anatomists. Annals of Anatomy-Anatomischer Anzeiger 238:151761.
- de Castro Duarte AMR, Fernandes LN, Silva FS, Sicchi IL, Mucci LF, Curado I, Fernandes A, Medeiros-Sousa AR, Ceretti-Junior W, Marrelli MT, others (2021) Complexity of malaria transmission dynamics in the Brazilian Atlantic Forest. Current Research in Parasitology & Vector-borne Diseases 1:100032.
- Deiana G, Genadiev G, Giordano AN, Moro M, Spanu F, Urru F, Camparini S (2021) Infiltrating Angiosarcoma of the Ascending, Arch and Descending Aorta Manifested as Acute Mesenteric Ischemia. Vasc Specialist Int 37:46.
- DeLeo DM, Glazier A, Herrera S, Barkman A, Cordes EE (2021) Transcriptomic responses of deep-sea corals experimentally exposed to crude oil and dispersant. Front Mar Sci 8:649909.
- Dell’Anno I, Martin SA, Barbarino M, Melani A, Silvestri R, Bottaro M, Paolicchi E, Corrado A, Cipollini M, Melaiu O, others (2021) Drug-repositioning screening identified fludarabine and risedronic acid as potential therapeutic compounds for malignant pleural mesothelioma. Invest New Drugs 39:644–657.
- di Fiore R, Suleiman S, Drago-Ferrante R, Felix A, O’toole SA, O’leary JJ, Ward MP, Beirne J, Yordanov A, Vasileva-Slaveva M, others (2021a) Lncrna mort (Znf667-as1) in cancer—is there a possible role in gynecological malignancies? Int J Mol Sci 22:7829.
- di Fiore R, Suleiman S, Ellul B, O’toole SA, Savona-Ventura C, Felix A, Napolioni V, Conlon NT, Kahramanoglu I, Azzopardi MJ, others (2021b) Gynocare update: modern strategies to improve diagnosis and treatment of rare gynecologic tumors—current challenges and future directions. Cancers (Basel) 13:493.
- di Fiore R, Suleiman S, Felix A, O’toole SA, O’leary JJ, Ward MP, Beirne J, Sabol M, Ozretić P, Yordanov A, others (2021c) An overview of the role of long non-coding RNAs in human choriocarcinoma. Int J Mol Sci 22:6506.
- di Fiore R, Suleiman S, Pentimalli F, O’toole SA, O’leary JJ, Ward MP, Conlon NT, Sabol M, Ozretić P, Erson-Bensan AE, others (2021d) Could MicroRNAs be useful tools to improve the diagnosis and treatment of rare gynecological cancers? A brief overview. Int J Mol Sci 22:3822.
- Diaz LM, Salas D, Hedges SB, others (2021) A new semifossorial snake of the genus Arrhyton (Squamata: Dipsadidae) from eastern Cuba, with taxonomic comments on other species. Zootaxa 5052:406–418.
- Ding Y-Y, Kim H, Madden K, Loftus JP, Chen GM, Allen DH, Zhang R, Xu J, Chen C-H, Hu Y, others (2021) Network analysis reveals synergistic genetic dependencies for rational combination therapy in Philadelphia chromosome-like acute lymphoblastic leukemia. Clin Cancer Res 27:5109.
- Dixon CR, Malik P, Jose I, Saiz-Ros N, de Lima Alves F, Tingey M, Gaunt E, Richardson AC, Kelly DA, Goldberg MW, others (2021) STING nuclear partners contribute to innate immune signaling responses. iScience 24:103055.
- Doria CR da C, Agudelo E, Akama A, Barros B, Bonfim M, Carneiro L, Briglia-Ferreira SR, Nobre Carvalho L, Bonilla-Castillo CA, Charvet P, others (2021) The silent threat of non-native fish in the Amazon: ANNF database and review. Front Ecol Evol 9:646702.
- Emel SL, Wang S, Metz RP, Spigler RB (2021) Type and intensity of surrounding human land use, not local environment, shape genetic structure of a native grassland plant. Mol Ecol 30:639–655.
- Fanale D, Iovanna JL, Giordano A, Russo A, Bazan V (2021) Tumor Biology and Natural History. Practical Medical Oncology Textbook:15–31.
- Faria, N. R., Mellan, T. A., Whittaker, C., Claro, I. M., Candido, D. da S., Mishra, S., et al. (2021). Genomics and epidemiology of the P. 1 SARS-CoV-2 lineage in Manaus, Brazil. Science (80-. ). 372, 815–821.
- Fechter T, Dai T, Cromley JG, Nelson FE, van Boekel M, Du Y (2021) Developing a Validity Argument for an Inference-Making and Reasoning Measure for Use in Higher Education. In: Frontiers in Education. p 727539
- Fiorin G, DelloStritto MJ, Percec S, Klein ML (2021) Shear response in crystalline models of poly (p-phenylene terephthalamide). Mol Phys 119:e1948122.
- Fischer, W., Giorgi, E. E., Chakraborty, S., Nguyen, K., Bhattacharya, T., Theiler, J., et al. (2021). HIV-1 and SARS-CoV-2: Patterns in the evolution of two pandemic pathogens. Cell Host Microbe 29, 1093–1110.
- Forero-Peña DA, Carrión-Nessi FS, Chavero M, Gamardo Á, Figuera L, Camejo-Ávila NA, Marcano M v, Hidalgo M, Arenas-Leal CJ, Villegas L, others (2021) The clinical–epidemiological profile of malaria patients from Southern Venezuela, a critical hotspot in Latin America. Malar J 20:1–12.
- Forte IM, Indovina P, Montagnaro S, Costa A, Iannuzzi CA, Capone F, Camerlingo R, Malfitano AM, Pentimalli F, Ferrara G, others (2021) The oncolytic caprine herpesvirus 1 (CpHV-1) induces apoptosis and synergizes with cisplatin in mesothelioma cell lines: a new potential virotherapy approach. Viruses 13:2458.
- Frazee LJ, Rifkin J, Maheepala DC, Grant A-G, Wright S, Kalisz S, Litt A, Spigler R (2021) New genomic resources and comparative analyses reveal differences in floral gene expression in selfing and outcrossing Collinsia sister species. G3 11:jkab177.
- Freestone AL, Bonfim M, Cortese MR (2021a) A New Field Station, Footsteps from Philadelphia. Bulletin of the Ecological Society of America 102:1–9.
- Freestone AL, Torchin ME, Jurgens LJ, Bonfim M, López DP, Repetto MF, Schlöder C, Sewall BJ, Ruiz GM (2021b) Stronger predation intensity and impact on prey communities in the tropics. Ecology 102:e03428.
- Gauthier AE, Chandler CE, Poli V, Gardner FM, Tekiau A, Smith R, Bonham KS, Cordes EE, Shank TM, Zanoni I, others (2021) Deep-sea microbes as tools to refine the rules of innate immune pattern recognition. Sci Immunol 6:eabe0531.
- Giordano A, di Landro F, de Carolis E, Criscuolo M, Dragonetti G, Fianchi L, Pagano L (2021b) Disseminated geosmithia argillacea infection in a patient with ph-positive acute lymphoblastic leukemia. Case report and literature review. Journal of Fungi 7:778.
- Giordano A, Grimaldi F, Rossi G, Zappasodi P, de Novellis D, Finizio O, Pagano L, Ferrara F (2021a) A Real Life Study Of Activity Of Ato Plus Atra Regimen In Treatment Of Acute Promyelocitic Leukemia. In: Haematologica. p 99
- Giordano A, Pinto C, Pentimalli F (2021c) Cancer research and care in the future post-COVID-19 era. Ann Res Oncol 1:4.
- Giordano A, Pinto C, Pentimalli F (2021d) COVID-19 still on center stage in oncology debates. Ann Res Oncol 1:98–100.
- Goldman AD, Liberles DA (2021) The Journal of Molecular Evolution Turns 50. J Mol Evol 89:119–121.
- Gordon J, Amini S (2021) General overview of neuronal cell culture. Neuronal Cell Culture: Methods and Protocols:1–8.
- Grillet ME, Moreno JE, Hernández-Villena J v, Vincenti-González MF, Noya O, Tami A, Paniz-Mondolfi A, Llewellyn M, Lowe R, Escalante AA, others (2021) Malaria in Southern Venezuela: the hottest hotspot in Latin America. PLoS Negl Trop Dis 15:e0008211.
- Halanych KM, Ainsworth CH, Cordes EE, Dodge RE, Huettel M, Mendelssohn IA, Murawski SA, Paris-Limouzy CB, Schwing PT, Shaw RF, others (2021a) Effects of petroleum by-products and dispersants on ecosystems. Oceanography 34:152–163.
- Halanych KM, Ainsworth CH, Cordes EE, Dodge RE, Huettel M, Mendelssohn IA, Murawski SA, Paris-Limouzy CB, Schwing PT, Shaw RF, others (2021b) Special Issue On The Gulf Of Mexico Research Initiative: Ten Years Of Oil Spill And Ecosystem Science. Oceanography 34:152.
- Hall KW, Percec S, Shinoda W, Klein ML (2021) Chain-end modification: A starting point for controlling polymer crystal nucleation. Macromolecules 54:1599–1610.
- Harman JL, Cuff AL, Settele J, Jacobus LM, Liberles DA, Traulsen A (2021) Inaugural BMC Ecology and Evolution image competition: the winning images. BMC Ecol Evol 21:1–5.
- Howell KL, Hilário A, Allcock AL, Bailey D, Baker M, Clark MR, Colaço A, Copley J, Cordes EE, Danovaro R, others (2021) A decade to study deep-sea life. Nat Ecol Evol 5:265–267.
- Hurwitz SJ, McBrearty N, Arzumanyan A, Bichenkov E, Tao S, Bassit L, Chen Z, Kohler JJ, Amblard F, Feitelson MA, others (2021) Studies on the efficacy, potential cardiotoxicity and monkey pharmacokinetics of GLP-26 as a potent hepatitis B virus capsid assembly modulator. Viruses 13:114.
- Ichikawa Y, Bruno VM, Woolford CA, Kim H, Do E, Brewer GC, Mitchell AP (2021) Environmentally contingent control of Candida albicans cell wall integrity by transcriptional regulator Cup9. Genetics 218:iyab075.
- Junod SL, Saredy J, Yang W (2021b) Nuclear import of adeno-associated viruses imaged by high-speed single-molecule microscopy. Viruses 13:167.
- Kaiser S, Kihara TC, Brix S, Mohrbeck I, Janssen A, Jennings RM (2021) Species boundaries and phylogeographic patterns in new species of Nannoniscus (Janiroidea: Nannoniscidae) from the equatorial Pacific nodule province inferred from mtDNA and morphology. Zool J Linn Soc 193:1020–1071.
- Kane, S.A., Bien, T., Contreras-Orendain, L., Ochs, M.F. and Tonia Hsieh, S. (2021) Many ways to land upright: novel righting strategies allow spotted lanternfly nymphs to land on diverse substrates. Journal of the Royal Society Interface, 18(181), 20210367
- Klein ML, Romero A, Kaltner H, Percec V, Gabius H-J (2021) From examining the relationship between (corona) viral adhesins and galectins to glyco-perspectives. Biophys J 120:1031–1039.
- Kosakovsky Pond SL, Wisotsky SR, Escalante A, Magalis BR, Weaver S (2021) Contrast-FEL—a test for differences in selective pressures at individual sites among clades and sets of branches. Mol Biol Evol 38:1184–1198.
- Kostina NY, Wagner AM, Haraszti T, Rahimi K, Xiao Q, Klein ML, Percec V, Rodriguez-Emmenegger C (2021) Unraveling topology-induced shape transformations in dendrimersomes. Soft Matter 17:254–267.
- Krasniqi E, Barba M, Venuti A, Pizzuti L, Cappuzzo F, Landi L, Carpano S, Marchetti P, Villa A, Vizza E, others (2021a) Circulating HPV DNA in the management of oropharyngeal and cervical cancers: current knowledge and future perspectives. J Clin Med 10:1525.
- Krasniqi E, Pizzuti L, Valerio MR, Capomolla E, Botti C, Sanguineti G, Marchetti P, Anselmi E, Tomao S, Giordano A, others (2021b) Second-line eribulin in triple negative metastatic breast cancer patients. Multicentre retrospective study: the TETRIS trial. Int J Med Sci 18:2245.
- Kumar S, Tao Q, Weaver S, Sanderford M, Caraballo-Ortiz MA, Sharma S, Pond SLK, Miura S (2021) An evolutionary portrait of the progenitor SARS-CoV-2 and its dominant offshoots in COVID-19 pandemic. Mol Biol Evol 38:3046–3059.
- Lepore V, Bosetti C, Santucci C, Iaffaldano P, Trojano M, Mosconi P, Italian Multiple Sclerosis Register Centers Group the SC of ISMR, Totaro R, Coniglio MG, Bossio RB, others (2021) Detection of disability worsening in relapsing-remitting multiple sclerosis patients: a real-world roving Expanded Disability Status Scale reference analysis from the Italian Multiple Sclerosis Register. Eur J Neurol 28:567–578.
- Li Y, Aksenova V, Tingey M, Yu J, Ma P, Arnaoutov A, Chen S, Dasso M, Yang W (2021a) Distinct roles of nuclear basket proteins in directing the passage of mRNA through the nuclear pore. Proceedings of the National Academy of Sciences 118:e2015621118.
- Li Y, Tingey M, Ruba A, Yang W (2021b) High-speed super-resolution imaging of rotationally symmetric structures using SPEED microscopy and 2D-to-3D transformation. Nat Protoc 16:532–560.
- Li, X., Liu, H., Rife Magalis, B., Kosakovsky Pond, S. L., and Volz, E. M. (2021). Molecular evolution of human norovirus GII. 2 clusters. Front. Microbiol. 12, 655567.
- Little, S. J., Chen, T., Wang, R., Anderson, C., Pond, S. K., Nakazawa, M., et al. (2021). Effective human immunodeficiency virus molecular surveillance requires identification of incident cases of infection. Clin. Infect. Dis. 73, 842–849.
- Liu L, Chandrashekar P, Zeng B, Sanderford MD, Kumar S, Gibson G (2021a) TreeMap: a structured approach to fine mapping of eQTL variants. Bioinformatics 37:1125–1134.
- Liu S, Behm JE, Wan S, Yan J, Ye Q, Zhang W, Yang X, Fu S (2021b) Effects of canopy nitrogen addition on soil fauna and litter decomposition rate in a temperate forest and a subtropical forest. Geoderma 382:114703.
- López DP, Freestone AL (2021) History of co-occurrence shapes predation effects on functional diversity and structure at low latitudes. Funct Ecol 35:535–545.
- Lucaci, A. G., Wisotsky, S. R., Shank, S. D., Weaver, S., and Kosakovsky Pond, S. L. (2021). Extra base hits: widespread empirical support for instantaneous multiple-nucleotide changes. PLoS One 16, e0248337.
- MacLean, O. A., Lytras, S., Weaver, S., Singer, J. B., Boni, M. F., Lemey, P., et al. (2021). Natural selection in the evolution of SARS-CoV-2 in bats created a generalist virus and highly capable human pathogen. PLoS Biol. 19, e3001115.
- Maier, W., Bray, S., van den Beek, M., Bouvier, D., Coraor, N., Miladi, M., et al. (2021). Ready-to-use public infrastructure for global SARS-CoV-2 monitoring. Nat. Biotechnol. 39, 1178–1179.
- Manandhar A, Blass BE, Colussi DJ, Almi I, Abou-Gharbia M, Klein ML, Elokely KM (2021a) Targeting SARS-CoV-2 M3CLpro by HCV NS3/4a inhibitors: In silico modeling and in vitro screening. J Chem Inf Model 61:1020–1032.
- Manandhar A, Srinivasulu V, Hamad M, Tarazi H, Omar H, Colussi DJ, Gordon J, Childers W, Klein ML, Al-Tel TH, others (2021b) Discovery of novel small-molecule inhibitors of SARS-CoV-2 main protease as potential leads for COVID-19 treatment. J Chem Inf Model 61:4745–4757.
- Mancarella C, Morrione A, Scotlandi K (2021a) Novel regulators of the IGF system in cancer. Biomolecules 11:273.
- Mancarella C, Morrione A, Scotlandi K (2021b) Unraveling the IGF system interactome in sarcomas exploits novel therapeutic options. Cells 10:2075.
- Marei HE, Althani A, Afifi N, Hasan A, Caceci T, Pozzoli G, Morrione A, Giordano A, Cenciarelli C (2021) P53 signaling in cancer progression and therapy. Cancer Cell Int 21:1–15.
- Martin, D. P., Weaver, S., Tegally, H., San, J. E., Shank, S. D., Wilkinson, E., et al. (2021). The emergence and ongoing convergent evolution of the SARS-CoV-2 N501Y lineages. Cell 184, 5189–5200.
- McBrearty N, Arzumanyan A, Bichenkov E, Merali S, Merali C, Feitelson M (2021) Short chain fatty acids delay the development of hepatocellular carcinoma in HBx transgenic mice. Neoplasia 23:529–538.
- McGee F, Hauri S, Novinger Q, Vucetic S, Levy RM, Carnevale V, Haldane A (2021) The generative capacity of probabilistic protein sequence models. Nat Commun 12:6302.
- Medhat A, Arzumanyan A, Feitelson MA (2021) Hepatitis B x antigen (HBx) is an important therapeutic target in the pathogenesis of hepatocellular carcinoma. Oncotarget 12:2421.
- Mei, H., Kosakovsky Pond, S., and Nekrutenko, A. (2021). Stepwise evolution and exceptional conservation of ORF1a/b overlap in coronaviruses. Mol. Biol. Evol. 38, 5678–5684.
- Mello B, Tao Q, Barba-Montoya J, Kumar S (2021) Molecular dating for phylogenies containing a mix of populations and species by using Bayesian and RelTime approaches. Mol Ecol Resour 21:122–136.
- Meng Y, Chen H, Behm JE, Xia S, Wang B, Liu S, Yang X (2021) Effects of different tea plantation management systems on arthropod assemblages and network structure. Ecosphere 12:e03677.
- Montseny M, Linares C, Carreiro-Silva M, Henry L-A, Billett D, Cordes EE, Smith CJ, Papadopoulou N, Bilan M, Girard F, others (2021) Active ecological restoration of cold-water corals: Techniques, challenges, costs and future directions. Front Mar Sci:1309.
- Morani, F., Bisceglia, L., Rosini, G., Mutti, L., Melaiu, O., Landi, S., et al. (2021). Identification of overexpressed genes in malignant pleural mesothelioma. Int. J. Mol. Sci. 22, 2738.
- Morato T, Pham CK, Fauconnet L, Taranto GH, Chimienti G, Cordes E, Dominguez-Carrió C, Durán Muñoz P, Egilsdottir H, González-Irusta J-M, others (2021) North atlantic basin-scale multi-criteria assessment database to inform effective management and protection of vulnerable marine ecosystems. Front Mar Sci:255.
- Moretti, G., Aretini, P., Lessi, F., Mazzanti, C. M., Ak, G., Metinta\cs, M., et al. (2021). Liquid biopsies from pleural effusions and plasma from patients with malignant pleural mesothelioma: A feasibility study. Cancers (Basel). 13, 2445.
- Murphy P v, Romero A, Xiao Q, Ludwig A-K, Jogula S, Shilova N v, Singh T, Gabba A, Javed B, Zhang D, others (2021) Probing sulfatide-tissue lectin recognition with functionalized glycodendrimersomes. iScience 24:101919.
- Nagy RC, Balch JK, Bissell EK, Cattau ME, Glenn NF, Halpern BS, Ilangakoon N, Johnson B, Joseph MB, Marconi S, others (2021) Harnessing the NEON data revolution to advance open environmental science with a diverse and data-capable community. Ecosphere 12:e03833.
- Nardone V, Barbarino M, Angrisani A, Correale P, Pastina P, Cappabianca S, Reginelli A, Mutti L, Miracco C, Giannicola R, others (2021a) CDK4, CDK6/cyclin-D1 complex inhibition and radiotherapy for cancer control: A Role for Autophagy. Int J Mol Sci 22:8391.
- Nardone V, Giannicola R, Bianco G, Giannarelli D, Tini P, Pastina P, Falzea AC, Macheda S, Caraglia M, Luce A, others (2021b) Inflammatory markers and procalcitonin predict the outcome of metastatic non-small-cell-lung-cancer patients receiving PD-1/PD-L1 immune-checkpoint blockade. Front Oncol 11:684110.
- Nardone V, Giannicola R, Giannarelli D, Saladino RE, Azzarello D, Romeo C, Bianco G, Rizzo MR, di Meo I, Nesci A, others (2021c) Distinctive role of the systemic inflammatory profile in non-small-cell lung cancer younger and elderly patients treated with a PD-1 immune checkpoint blockade: A real-world retrospective multi-institutional analysis. Life 11:1235.
- Novinger Q, Suma A, Sigg D, Gonnella G, Carnevale V (2021) Particle-based Ising model. Phys Rev E 103:12125.
- Ordway EM, Elmore AJ, Kolstoe S, Quinn JE, Swanwick R, Cattau M, Taillie D, Guinn SM, Chadwick KD, Atkins JW, others (2021) Leveraging the NEON Airborne Observation Platform for socio-environmental systems research. Ecosphere 12:e03640.
- Orlandi N, Bartolini E, Audenino D, Moja MC, Urso L, d’Orsi G, Pauletto G, Nilo A, Zinno L, Cappellani R, others (2021) Intravenous brivaracetam in status epilepticus: A multicentric retrospective study in Italy. Seizure 86:70–76.
- Patel R, Kumar S (2021) Epistasis produces an excess of invariant sites in neutral molecular evolution. Proceedings of the National Academy of Sciences 118:e2018767118.
- Pearsall H, Gutierrez-Velez VH, Gilbert MR, Hoque S, Eakin H, Brondizio ES, Solecki W, Toran L, Baka JE, Behm JE, others (2021) Advancing equitable health and well-being across urban–rural sustainable infrastructure systems. npj Urban Sustainability 1:26.
- Pereira OS, Gonzalez J, Mendoza GF, Le J, Coscino CL, Lee RW, Cortés J, Cordes EE, Levin LA (2021) The dynamic influence of methane seepage on macrofauna inhabiting authigenic carbonates. Ecosphere 12:e03744.
- Pezzicoli, G., Rizzo, M., Perrone, M., Minei, S., Mutti, L., and Porta, C. (2021). A glimpse in the future of malignant mesothelioma treatment. Front. Pharmacol. 12.
- Pfeiffenberger JA, Hsieh ST (2021) Autotomy-induced effects on the locomotor performance of the ghost crab Ocypode quadrata. Journal of Experimental Biology 224.
- Phillips P, Clark MM, Baral S, Koen EL, Bowman J (2021) Comparison of methods for estimating omnidirectional landscape connectivity. Landsc Ecol 36:1647–1661.
- Porta, C., Nardone, V., Gray, S. G., Correale, P., and Mutti, L. (2021). RAMES study: is there really a role for VEGF inhibition in mesothelioma? Lancet Oncol. 22, e532.
- Pravin S, Chang B, Han E, London L, Goldman DI, Jaeger HM, Hsieh ST (2021) Effect of two parallel intruders on total work during granular penetrations. Phys Rev E 104:24902.
- Prinzing A, Pavoine S, Jactel H, Hortal J, Hennekens SM, Ozinga WA, Bartish I v, Helmus MR, Kühn I, Moen DS, others (2021) Disturbed habitats locally reduce the signal of deep evolutionary history in functional traits of plants. New Phytologist 232:1849–1862.
- Radke, E. E., Li, Z., Hernandez, D. N., El Bannoudi, H., Kosakovsky Pond, S. L., Shopsin, B., et al. (2021). Diversity of Functionally Distinct Clonal Sets of Human Conventional Memory B Cells That Bind Staphylococcal Protein A. Front. Immunol. 12, 662782.
- Rahman S, Kosakovsky Pond SL, Webb A, Hey J (2021) Weak selection on synonymous codons substantially inflates dN/dS estimates in bacteria. Proceedings of the National Academy of Sciences 118:e2023575118.
- Ramey AM, Buchheit RM, Uher-Koch BD, Reed JA, Pacheco MA, Escalante AA, Schmutz JA (2021) Negligible evidence for detrimental effects of Leucocytozoon infections among Emperor Geese (Anser canagicus) breeding on the Yukon-Kuskokwim Delta, Alaska. Int J Parasitol Parasites Wildl 16:103–112.
- Ritchie AM, Stark TL, Liberles DA (2021) Inferring the number and position of changes in selective regime in a non-equilibrium mutation-selection framework. BMC Ecol Evol 21:1–16.
- Romani I, Nencini P, Sarti C, Pracucci G, Zedde M, Nucera A, Cianci V, Moller J, Toni D, Orsucci D, others (2021) Fabry-Stroke Italian Registry (FSIR): a nationwide, prospective, observational study about incidence and characteristics of Fabry-related stroke in young-adults. Presentation of the study protocol. Neurological Sciences:1–7.
- Scalia P, Maurancy J, Giordano A, Williams SJ (2021) Transcriptional and Post-Translational Control Mechanisms for EphB4 Expression in Physiology and Cancer Disease. Crit Rev Eukaryot Gene Expr 31.
- Scheinfeldt LB, Brangan A, Kusic DM, Kumar S, Gharani N (2021) Common Treatment, Common Variant: Evolutionary Prediction of Functional Pharmacogenomic Variants. J Pers Med 11:131.
- Schmidt D, Coyote-Maestas W, Nedrud D, Suma A, He Y, Matreyek KA, Fowler DM, Carnevale V, Myers CL (2021) The Biophysical basis of protein domain compatibility. In: PROTEIN SCIENCE. p 73–74
- Schools M, Hedges SB (2021) Phylogenetics, classification, and biogeography of the Neotropical forest lizards (Squamata, Diploglossidae). Zootaxa 4974:201257.
- Selberg AGA, Gaucher EA, Liberles DA (2021) Ancestral sequence reconstruction: from chemical paleogenetics to maximum likelihood algorithms and beyond. J Mol Evol 89:157–164.
- Severi I, Fosca M, Colleluori G, Marini F, Imperatori L, Senzacqua M, di Vincenzo A, Barbatelli G, Fiori F, Rau J v, others (2021) High-fat diet impairs mouse median eminence: A study by transmission and scanning electron microscopy coupled with raman spectroscopy. Int J Mol Sci 22:8049.
- Sharma S, Kumar S (2021) Fast and accurate bootstrap confidence limits on genome-scale phylogenies using little bootstraps. Nat Comput Sci 1:573–577.
- Smith GX, Swartz MT, Spigler RB (2021) Causes and consequences of variation in heterospecific pollen receipt in Oenothera fruticosa. Am J Bot 108:1612–1624.
- Stark TL, Kaufman RS, Maltepes MA, Chi PB, Liberles DA (2021) Detecting Selection on Segregating Gene Duplicates in a Population. J Mol Evol 89:554–564.
- Stark TL, Liberles DA (2021) Characterizing amino acid substitution with complete linkage of sites on a lineage. Genome Biol Evol 13:evab225.
- Su D, Yang L, Shi X, Ma X, Zhou X, Hedges SB, Zhong B (2021) Large-scale phylogenomic analyses reveal the monophyly of bryophytes and Neoproterozoic origin of land plants. Mol Biol Evol 38:3332–3344.
- Tamura K, Stecher G, Kumar S (2021) MEGA11: molecular evolutionary genetics analysis version 11. Mol Biol Evol 38:3022–3027.
- Tang X, Yang W, Yin S, Tai G, Su M, Yang J, Shi H, Wei D, Yang J (2021) Controllable graphene wrinkle for a high-performance flexible pressure sensor. ACS Appl Mater Interfaces 13:20448–20458.
- Tao Q, Barba-Montoya J, Kumar S (2021a) Data-driven speciation tree prior for better species divergence times in calibration-poor molecular phylogenies. Bioinformatics 37:i102–i110.
- Tao Y, Rajaraman A, Cui X, Cui Z, Chen H, Zhao Y, Eaton J, Kim H, Ma J, Schwartz R (2021b) Assessing the contribution of tumor mutational phenotypes to cancer progression risk. PLoS Comput Biol 17:e1008777.
- Tao, K., Tzou, P. L., Nouhin, J., Gupta, R. K., de Oliveira, T., Kosakovsky Pond, S. L., et al. (2021). The biological and clinical significance of emerging SARS-CoV-2 variants. Nat. Rev. Genet. 22, 757–773.
- Tarca AL, Pataki BÁ, Romero R, Sirota M, Guan Y, Kutum R, Gomez-Lopez N, Done B, Bhatti G, Yu T, others (2021) Crowdsourcing assessment of maternal blood multi-omics for predicting gestational age and preterm birth. Cell Rep Med 2:100323.
- Tegally, H., Wilkinson, E., Giovanetti, M., Iranzadeh, A., Fonseca, V., Giandhari, J., et al. (2021). Detection of a SARS-CoV-2 variant of concern in South Africa. Nature 592, 438–443.
- Thompson MA, Henderson JP, Shah PK, Rubinstein SM, Joyner MJ, Choueiri TK, Flora DB, Griffiths EA, Gulati AP, Hwang C, others (2021) Association of convalescent plasma therapy with survival in patients with hematologic cancers and COVID-19. JAMA Oncol 7:1167–1175.
- Tingey M, Li Y, Yang W (2021) Protocol for single-molecule fluorescence recovery after photobleaching microscopy to analyze the dynamics and spatial locations of nuclear transmembrane proteins in live cells. STAR Protoc 2:100490.
- Torchin ME, Freestone AL, McCann L, Larson K, SchlÖder C, Steves BP, Fofonoff P, Repetto MF, Ruiz GM (2021) Asymmetry of marine invasions across tropical oceans. Ecology 102:e03434.
- Townsend JP, Hassler HB, Wang Z, Miura S, Singh J, Kumar S, Ruddle NH, Galvani AP, Dornburg A (2021) The durability of immunity against reinfection by SARS-CoV-2: a comparative evolutionary study. Lancet Microbe 2:e666–e675.
- Uwimana A, Umulisa N, Venkatesan M, Svigel SS, Zhou Z, Munyaneza T, Habimana RM, Rucogoza A, Moriarty LF, Sandford R, others (2021) Association of Plasmodium falciparum kelch13 R561H genotypes with delayed parasite clearance in Rwanda: an open-label, single-arm, multicentre, therapeutic efficacy study. Lancet Infect Dis 21:1120–1128.
- Vella V, Giuliano M, la Ferlita A, Pellegrino M, Gaudenzi G, Alaimo S, Massimino M, Pulvirenti A, Dicitore A, Vigneri P, others (2021a) Novel mechanisms of tumor promotion by the insulin receptor isoform A in triple-negative breast cancer cells. Cells 10:3145.
- Vella V, Giuliano M, Nicolosi ML, Majorana MG, Marć MA, Muoio MG, Morrione A, Maggiolini M, Lappano R, de Francesco EM, others (2021b) DDR1 affects metabolic reprogramming in breast cancer cells by cross-talking to the insulin/IGF system. Biomolecules 11:926.
- Ventura E, Iannuzzi CA, Pentimalli F, Giordano A, Morrione A (2021) RBL1/p107 expression levels are modulated by multiple signaling pathways. Cancers (Basel) 13:5025.
- Vitale F, Mangone L, Fanale D, Iovanna JL, Giordano A, Russo A, Bazan V, Troncone G, Vigliar E, Guadagni F, others (2021) From Basic Research to Cancer Diagnosis. Practical Medical Oncology Textbook 1:1.
- Wang R, Klein ML, Carnevale V, Borguet E (2021a) Investigations of water/oxide interfaces by molecular dynamics simulations. Wiley Interdiscip Rev Comput Mol Sci 11:e1537.
- Wang Z, Li X, Yang Z, Guo H, Tan YJ, Susanto GJ, Cheng W, Yang W, Tee BCK (2021b) Fully transient stretchable fruit-based battery as safe and environmentally friendly power source for wearable electronics. EcoMat 3:e12073.
- Warren, D. L., Matzke, N. J., Cardillo, M., Baumgartner, J. B., Beaumont, L. J., Turelli, M., et al. (2021). ENMTools 1.0: An R package for comparative ecological biogeography. Ecography (Cop.). 44, 504–511.
- Webb A, Knoblauch J, Sabankar N, Kallur AS, Hey J, Sethuraman A (2021) The Pop-Gen Pipeline Platform: A Software Platform for Population Genomic Analyses. Mol Biol Evol 38:3478–3485.
- Wei A, Xiong J, Yang W, Guo F (2021) Deep learning-assisted elastic isotropy identification for architected materials. Extreme Mech Lett 43:101173.
- West, J., Röder, J., Matrosovich, T., Beicht, J., Baumann, J., Mounogou Kouassi, N., et al. (2021). Characterization of changes in the hemagglutinin that accompanied the emergence of H3N2/1968 pandemic influenza viruses. PLoS Pathog. 17, e1009566.
- Wilson AE, Sweazea KL, Braun EJ, others (2021) Correction to: Fewer Exposed Lysine Residues May Explain Relative Resistance of Chicken Serum Albumin to In Vitro Protein Glycation in Comparison to Bovine Serum Albumin. J Mol Evol 89:117.
- Wirsching H-G, Silginer M, Ventura E, Macnair W, Burghardt I, Claassen M, Gatti S, Wichmann J, Riemer C, Schneider H, others (2021) Negative allosteric modulators of metabotropic glutamate receptor 3 target the stem-like phenotype of glioblastoma. Molecular Therapy-Oncolytics 20:166–174.
- Xiao J, Bondarenko V, Wang Y, Suma A, Wells M, Chen Q, Tillman T, Luo Y, Yu B, Dailey WP, others (2021) Regulation and drug modulation of a voltage-gated sodium channel: Pivotal role of the S4–S5 linker in activation and slow inactivation. Proceedings of the National Academy of Sciences 118:e2102285118.
- Xu J, Sun Z, Zhang C, DelloStritto M, Lu D, Klein ML, Wu X (2021) Importance of nuclear quantum effects on the hydration of chloride ion. Phys Rev Mater 5:L012801.
- Yang E, Bu W, Suma A, Carnevale V, Grasty KC, Loll PJ, Woll K, Bhanu N, Garcia BA, Eckenhoff RG, others (2021a) Binding Sites and the Mechanism of Action of Propofol and a Photoreactive Analogue in Prokaryotic Voltage-Gated Sodium Channels. ACS Chem Neurosci 12:3898–3914.
- Yang W, Ding W, Liu M, Yang J, Li M (2021b) A theoretical model of a flexible capacitive pressure sensor with microstructured electrodes for highly sensitive electronic skin. J Phys D Appl Phys 55:94001.
- Yang Z, Zhu Z, Chen Z, Liu M, Zhao B, Liu Y, Cheng Z, Wang S, Yang W, Yu T (2021c) Recent advances in self-powered piezoelectric and triboelectric sensors: From material and structure design to frontier applications of artificial intelligence. Sensors 21:8422.
- Yazici AT, Gianti E, Kasimova MA, Lee B-H, Carnevale V, Rohacs T (2021) Dual regulation of TRPV1 channels by phosphatidylinositol via functionally distinct binding sites. Journal of Biological Chemistry 296.
- Yu. Kostina N, Söder D, Haraszti T, Xiao Q, Rahimi K, Partridge BE, Klein ML, Percec V, Rodriguez-Emmenegger C (2021) Enhanced concanavalin A binding to preorganized mannose nanoarrays in glycodendrimersomes revealed multivalent interactions. Angewandte Chemie International Edition 60:8352–8360.
- Zhang C, Tang F, Chen M, Xu J, Zhang L, Qiu DY, Perdew JP, Klein ML, Wu X (2021) Modeling liquid water by climbing up Jacob’s ladder in density functional theory facilitated by using deep neural network potentials. J Phys Chem B 125:11444–11456.
- Zhao Y, Tan YJ, Yang W, Ling S, Yang Z, Teo JT, See HH, Lee DKH, Lu D, Li S, others (2021) Scaling metal-elastomer composites toward stretchable multi-helical conductive paths for robust responsive wearable health devices. Adv Healthc Mater 10:2100221.
- Zografou K, Swartz MT, Adamidis GC, Tilden VP, McKinney EN, Sewall BJ (2021) Species traits affect phenological responses to climate change in a butterfly community. Sci Rep 11:3283.
2020
- Akurugu WA, Doughan A, Bukari A-RA, Hayat M, San EJ, Nyarko HN, Mogaka J, Ndung’u MH, Rahman F, Shome S (2020) Highlights of the 3rd ISCB Africa Student Council Symposium 2019 in Ghana. F1000Res 9.
- Alhammad, R., Khunchai, S., Tongmuang, N., Limjindaporn, T., Yenchitsomanus, P.-T., Mutti, L., et al. (2020). Protein disulfide isomerase A1 regulates breast cancer cell immunorecognition in a manner dependent on redox state. Oncol. Rep. 44, 2406–2418.
- Alkhalifa S, Jennings MC, Granata D, Klein M, Wuest WM, Minbiole KPC, Carnevale V (2020) Analysis of the destabilization of bacterial membranes by quaternary ammonium compounds: A combined experimental and computational study. ChemBioChem 21:1510–1516.
- Altieri A, Dell’Aquila M, Pentimalli F, Giordano A, Luigi A (2020) SMART (single molecule analysis of resection tracks) technique for assessing DNA end-resection in response to DNA damage. Bio Protoc 10:e3701–e3701.
- Amirkhani Namagerdi A, d’Angelo D, Ciani F, Iannuzzi CA, Napolitano F, Avallone L, de Laurentiis M, Giordano A (2020) Triple-Negative Breast Cancer Comparison With Canine Mammary Tumors From Light Microscopy to Molecular Pathology. Front Oncol 10:563779.
- Anthony-Regnitz CM, Wilson AE, Sweazea KL, Braun EJ (2020) Fewer exposed lysine residues may explain relative resistance of chicken serum albumin to in vitro protein glycation in comparison to bovine serum albumin. J Mol Evol 88:653–661.
- Antonosante A, Brandolini L, d’Angelo M, Benedetti E, Castelli V, del Maestro M, Luzzi S, Giordano A, Cimini A, Allegretti M (2020) Autocrine CXCL8-dependent invasiveness triggers modulation of actin cytoskeletal network and cell dynamics. Aging (Albany NY) 12:1928.
- Auscavitch SR, Deere MC, Keller AG, Rotjan RD, Shank TM, Cordes EE (2020a) Oceanographic drivers of deep-sea coral species distribution and community assembly on seamounts, islands, atolls, and reefs within the Phoenix Islands protected area. Front Mar Sci 7:42.
- Auscavitch SR, Lunden JJ, Barkman A, Quattrini AM, Demopoulos AWJ, Cordes EE (2020b) Distribution of deep-water scleractinian and stylasterid corals across abiotic environmental gradients on three seamounts in the Anegada Passage. PeerJ 8:e9523.
- Babaian C, Kumar S (2020) Molecular memories of a Cambrian fossil. Am Biol Teach 82:586–595.
- Baker, D., Van Den Beek, M., Blankenberg, D., Bouvier, D., Chilton, J., Coraor, N., et al. (2020). No more business as usual: Agile and effective responses to emerging pathogen threats require open data and open analytics. PLoS Pathog. 16, e1008643.
- Baldi A, de Luca A, Maiorano P, D’Angelo C, Giordano A (2020) Curcumin as an anticancer agent in malignant mesothelioma: A review. Int J Mol Sci 21:1839.
- Barba-Montoya J, Tao Q, Kumar S (2020) Using a GTR+ Γ substitution model for dating sequence divergence when stationarity and time-reversibility assumptions are violated. Bioinformatics 36:i884–i894.
- Barbarino M, Bottaro M, Luzzi L, Giordano A, Mutti L (2020a) Tumour treating fields for mesothelioma. Lancet Oncol 21:e8.
- Barbarino M, Cesari D, Bottaro M, Luzzi L, Namagerdi A, Bertolino FM, Bellan C, Proietti F, Somma P, Micheli M, others (2020b) PRMT5 silencing selectively affects MTAP-deleted mesothelioma: In vitro evidence of a novel promising approach. J Cell Mol Med 24:5565–5577.
- Behm JE (2020) Is biodiversity needed for sustainability? A spotlight on urban landscapes. Am J Bot 107:703–706.
- Bernardino AF, Cordes EE, Schlacher TA (2020) The natural capital of offshore oil, gas, and methane hydrates in the World. Natural Capital and Exploitation of the Deep Ocean:111.
- Black SJ, Ozdemir AY, Kashkina E, Kent T, Rusanov T, Ristic D, Shin Y, Suma A, Hoang T, Chandramouly G, others (2020) Publisher Correction: Molecular basis of microhomology-mediated end-joining by purified full-length Polθ. Nat Commun 11:1831.
- Bucci, E., Andreev, K., Björkman, A., Calogero, R. A., Carafoli, E., Carninci, P., et al. (2020). Safety and efficacy of the Russian COVID-19 vaccine: more information needed. Lancet 396, e53.
- Buraschi S, Morcavallo A, Neill T, Stefanello M, Palladino C, Xu S-Q, Belfiore A, Iozzo R v, Morrione A (2020a) Discoidin Domain Receptor 1 functionally interacts with the IGF-I system in bladder cancer. Matrix Biol Plus 6:100022.
- Buraschi S, Neill T, Xu S-Q, Palladino C, Belfiore A, Iozzo R v, Morrione A (2020b) Progranulin/EphA2 axis: A novel oncogenic mechanism in bladder cancer. Matrix Biology 93:10–24.
- Campitelli P, Modi T, Kumar S, Ozkan SB (2020) The role of conformational dynamics and allostery in modulating protein evolution. Annu Rev Biophys 49:267–288.
- Canciello A, Teti G, Mazzotti E, Falconi M, Russo V, Giordano A, Barboni B (2020) Progesterone prolongs viability and anti-inflammatory functions of explanted preterm ovine amniotic membrane. Front Bioeng Biotechnol 8:135.
- Canonico B, Cesarini E, Montanari M, di Sario G, Campana R, Galluzzi L, Sola F, Gundogdu O, Luchetti F, Diotallevi A, others (2020) Rapamycin re-directs lysosome network, stimulates ER-remodeling, involving membrane CD317 and affecting exocytosis, in campylobacter jejuni-lysate-infected U937 cells. Int J Mol Sci 21:2207.
- Caputo R, Cianniello D, Giordano A, Piezzo M, Riemma M, Trovò M, Berretta M, de Laurentiis M (2020) Gene expression assay in the management of early breast cancer. Curr Med Chem 27:2826–2839.
- Carbone, M., Green, J. B., Bucci, E. M., and Lednicky, J. A. (2020). Coronaviruses: facts, myths, and hypotheses. J. Thorac. Oncol. 15, 675–678.
- Castelli V, d’Angelo M, Lombardi F, Alfonsetti M, Antonosante A, Catanesi M, Benedetti E, Palumbo P, Cifone MG, Giordano A, others (2020a) Effects of the probiotic formulation SLAB51 in in vitro and in vivo Parkinson’s disease models. Aging (albany NY) 12:4641.
- Castelli V, Melani F, Ferri C, d’Angelo M, Catanesi M, Grassi D, Benedetti E, Giordano A, Cimini A, Desideri G (2020b) Neuroprotective activities of bacopa, lycopene, astaxanthin, and vitamin B12 combination on oxidative stress-dependent neuronal death. J Cell Biochem 121:4862–4869.
- Castelli V, Piroli A, Marinangeli F, d’Angelo M, Benedetti E, Ippoliti R, Zis P, Varrassi G, Giordano A, Paladini A, others (2020c) Local anesthetics counteract cell proliferation and migration of human triple-negative breast cancer and melanoma cells. J Cell Physiol 235:3474–3484.
- Catanesi M, d’Angelo M, Tupone MG, Benedetti E, Giordano A, Castelli V, Cimini A (2020) MicroRNAs dysregulation and mitochondrial dysfunction in neurodegenerative diseases. Int J Mol Sci 21:5986.
- Cendon-Florez Y, Pippa R, Boffo S, Odero MD, Giordano A (2020) Data mining analysis of the PP2A-cell cycle axis in breast and prostate cancer patients. Cancer Res 80:107.
- Chandrashekar P, Ahmadinejad N, Wang J, Sekulic A, Egan JB, Asmann YW, Kumar S, Maley C, Liu L (2020) Somatic selection distinguishes oncogenes and tumor suppressor genes. Bioinformatics 36:1712–1717.
- Chi PB, Kosater WM, Liberles DA (2020) Detecting signatures of positive selection against a backdrop of compensatory processes. Mol Biol Evol 37:3353–3362.
- Chirico A, Maiorano P, Indovina P, Milanese C, Giordano GG, Alivernini F, Iodice G, Gallo L, de Pietro G, Lucidi F, others (2020) Virtual reality and music therapy as distraction interventions to alleviate anxiety and improve mood states in breast cancer patients during chemotherapy. J Cell Physiol 235:5353–5362.
- Correale P, Mutti L, Pentimalli F, Baglio G, Saladino RE, Sileri P, Giordano A (2020a) HLA-B* 44 and C* 01 prevalence correlates with Covid19 spreading across Italy. Int J Mol Sci 21:5205.
- Correale P, Saladino RE, Giannarelli D, Giannicola R, Agostino R, Staropoli N, Strangio A, del Giudice T, Nardone V, Altomonte M, others (2020b) Distinctive germline expression of class I human leukocyte antigen (HLA) alleles and DRB1 heterozygosis predict the outcome of patients with non-small cell lung cancer receiving PD-1/PD-L1 immune checkpoint blockade. J Immunother Cancer 8.
- Correale, P., Saladino, R. E., Giannarelli, D., Sergi, A., Mazzei, M. A., Bianco, G., et al. (2020). HLA expression correlates to the risk of immune checkpoint inhibitor-induced pneumonitis. Cells 9, 1964.
- Costa C, Indovina P, Mattioli E, Forte IM, Iannuzzi CA, Luzzi L, Bellan C, de Summa S, Bucci E, di Marzo D, others (2020a) Correction: P53-regulated miR-320a targets PDL1 and is downregulated in malignant mesothelioma. Cell Death Dis 11.
- Costa C, Indovina P, Mattioli E, Forte IM, Iannuzzi CA, Luzzi L, Bellan C, de Summa S, Bucci E, di Marzo D, others (2020b) P53-regulated miR-320a targets PDL1 and is downregulated in malignant mesothelioma. Cell Death Dis 11:748.
- Costagliola A, Liguori G, d’Angelo D, Costa C, Ciani F, Giordano A (2020) Do animals play a role in the transmission of severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2)? A commentary. Animals 11:16.
- Council, O. D., Zhou, S., McCann, C. D., Hoffman, I., Tegha, G., Kamwendo, D., et al. (2020). Deep sequencing reveals compartmentalized HIV-1 in the semen of Men with and without sexually transmitted infection-associated urethritis. J. Virol. 94, e00151--20.
- Coyote-Maestas W, Suma A, Nedrud D, Carnevale V, Schmidt D (2020) Deep Domain Insertion Profiling is a Window into Inward Rectifier K+ Channel Dynamics and Gating. Biophys J 118:320a.
- Croog, R., Saenz Montoya, A., Cunningham, C. M., Kulathinal, R., Hayes-Conroy, A., and others (2020). The biological, biographical, and biospheric dimensions of puberty onset: Using Bio3Science to frame transdisciplinary health research on puberty. Fac. Work.
- Crous PW, Cowan DA, Maggs-Kölling G, Yilmaz N, Larsson E, Angelini C, Brandrud TE, Dearnaley JDW, Dima B, Dovana F, others (2020) Fungal Planet description sheets: 1112–1181. Persoonia: Molecular Phylogeny and Evolution of Fungi 45:251.
- Cunningham, C. M., Bellipanni, G., Habas, R., and Balciunas, D. (2020). Deletion of morpholino binding sites (DeMOBS) to assess specificity of morphant phenotypes. Sci. Rep. 10, 1–7.
- Damiano S, Iovane V, Squillacioti C, Mirabella N, Prisco F, Ariano A, Amenta M, Giordano A, Florio S, Ciarcia R (2020) Red orange and lemon extract prevents the renal toxicity induced by ochratoxin A in rats. J Cell Physiol 235:5386–5393.
- Darbinian N, Darbinyan A, Merabova N, Amini S, Goetzl L, Selzer M (2020a) IN UTERO ETHANOL EXPOSURE INDUCES MITOCHONDRIAL DNA DAMAGE AND INHIBITS MTDNA REPAIR IN DEVELOPING BRAIN. In: Alcoholism-Clinical And Experimental Research. p 59
- Darbinian N, Darbinyan A, Merabova N, Gomberg R, Chabriere E, Simm M, Selzer ME, Amini S (2020b) DING Protein Inhibits Transcription of HIV-1 Gene through Suppression of Phosphorylation of NF-κB p65. J HIV AIDS 6.
- Darbinian N, Darbinyan A, Merabova N, Selzer ME, Amini S (2020c) HIV-1 and HIV-1-Tat induce mitochondrial DNA damage in human neurons. J HIV AIDS 6.
- Darbinian N, Darbinyan A, Merabova N, Sparks E, Tatevosian G, Amini S, Goetzl L, Selzer M (2020d) PRENATAL ALCOHOL EXPOSURE INHIBITS TRANSIENT EXPRESSION OF SYNAPTIC AND AUTOPHAGY PROTEINS IN DEVELOPING BRAIN. In: Alcoholism-Clinical And Experimental Research. p 59
- Dell’Anno I, Barbarino M, Barone E, Giordano A, Luzzi L, Bottaro M, Migliore L, Agostini S, Melani A, Melaiu O, others (2020) EIF4G1 and RAN as possible drivers for malignant pleural mesothelioma. Int J Mol Sci 21:4856.
- Dell’Anno, I., Barone, E., Mutti, L., Rassl, D. M., Marciniak, S. J., Silvestri, R., et al. (2020). Tissue expression of lactate transporters (MCT1 and MCT4) and prognosis of malignant pleural mesothelioma (brief report). J. Transl. Med. 18, 1–7.
- DelloStritto M, Xu J, Wu X, Klein ML (2020) Aqueous solvation of the chloride ion revisited with density functional theory: impact of correlation and exchange approximations. Physical Chemistry Chemical Physics 22:10666–10675.
- Derstine NT, Meier L, Canlas I, Murman K, Cannon S, Carrillo D, Wallace M, Cooperband MF (2020) Plant volatiles help mediate host plant selection and attraction of the spotted lanternfly (Hemiptera: Fulgoridae): a generalist with a preferred host. Environ Entomol 49:1049–1062.
- Diao J, Stark TL, Liberles DA, O’Reilly MM, Holland BR (2020) Level-dependent QBD models for the evolution of a family of gene duplicates. Stoch Model 36:285–311.
- Dondi G, Coluccelli S, de Leo A, Ferrari S, Gruppioni E, Bovicelli A, Godino L, Coadă CA, Morganti AG, Giordano A, others (2020) An analysis of clinical, surgical, pathological and molecular characteristics of endometrial cancer according to mismatch repair status. A multidisciplinary approach. Int J Mol Sci 21:7188.
- Dubey B, Jackson M, Zeigler-Johnson C, Devarajan K, Flores-Obando RE, McFarlane-Anderson N, Tulloch-Reid M, Aiken W, Kimbro K, Reed D, others (2020) Interactive effect of TLR SNPs and exposure to sexually transmitted infections on prostate cancer risk in Jamaican men. Prostate 80:1365–1372.
- Fioravanti A, Pirtoli L, Giordano A, Dotta F (2020) Crosstalk between MicroRNA and Oxidative Stress in Physiology and Pathology. Int J Mol Sci 21:1270.
- Forte IM, Indovina P, Costa A, Iannuzzi CA, Costanzo L, Marfella A, Montagnaro S, Botti G, Bucci E, Giordano A (2020) Blood screening for heavy metals and organic pollutants in cancer patients exposed to toxic waste in southern Italy: A pilot study. J Cell Physiol 235:5213–5222.
- Francese JA, Cooperband MF, Murman KM, Cannon SL, Booth EG, Devine SM, Wallace MS (2020) Developing traps for the spotted lanternfly, Lycorma delicatula (Hemiptera: Fulgoridae). Environ Entomol 49:269–276.
- Freestone AL, Carroll EW, Papacostas KJ, Ruiz GM, Torchin ME, Sewall BJ (2020) Predation shapes invertebrate diversity in tropical but not temperate seagrass communities. Journal of Animal Ecology 89:323–333.
- Gao, X., Yang, W., Xian, H., Tu, X., and Wang, Y. (2020). Numerical Simulation of Multi-Layer Penetration Process of Binder Droplet in 3DP Technique. C. Model. Eng. \& Sci. 124.
- Garcia D, Siegel JB, Mahvi DA, Zhang B, Mahvi DM, Camp ER, Graybill W, Savage SJ, Giordano A, Giordano S, others (2020) What is elective oncologic surgery in the time of COVID-19? A literature review of the impact of surgical delays on outcomes in patients with cancer. Clin Oncol Res 3:1.
- Ge, X., Zhang, Z., Zhang, S., Yuan, F., Zhang, F., Yan, X., et al. (2020). Immunotherapy beyond progression in patients with advanced non-small cell lung cancer. Transl. lung cancer Res. 9, 2391.
- Georgian SE, Kramer K, Saunders M, Shedd W, Roberts H, Lewis C, Fisher C, Cordes E (2020) Habitat suitability modelling to predict the spatial distribution of cold-water coral communities affected by the Deepwater Horizon oil spill. J Biogeogr 47:1455–1466.
- Glazier A, Herrera S, Weinnig A, Kurman M, Gómez CE, Cordes E (2020) Regulation of ion transport and energy metabolism enables certain coral genotypes to maintain calcification under experimental ocean acidification. Mol Ecol 29:1657–1673.
- Goffredi SK, Tilic E, Mullin SW, Dawson KS, Keller A, Lee RW, Wu F, Levin LA, Rouse GW, Cordes EE, others (2020) Methanotrophic bacterial symbionts fuel dense populations of deep-sea feather duster worms (Sabellida, Annelida) and extend the spatial influence of methane seepage. Sci Adv 6:eaay8562.
- Grattepanche J (2020) Ongoing speciation within the diatom Fragilariopsis kerguelensis in the Southern Ocean? Mol Ecol 29:4754–4756.
- Grattepanche J-D, Katz LA (2020) Top-down and bottom-up controls on microeukaryotic diversity (ie, amplicon analyses of SAR lineages) and function (ie, metatranscriptome analyses) assessed in microcosm experiments. Front Mar Sci 6:818.
- Gray, S. G., and Mutti, L. (2020). Immunotherapy for mesothelioma: a critical review of current clinical trials and future perspectives. Transl. Lung Cancer Res. 9, S100.
- Guadagnuolo M, Faella G, Giordano A (2020) Torsional Response of Unreinforced Masonry Buildings: Nonlinear Time-History and Pushover Analyses. International Journal of Advanced Research in Engineering and Technology 11.
- Hall KW, Percec S, Shinoda W, Klein ML (2020a) Property decoupling across the embryonic nucleus–melt interface during polymer crystal nucleation. J Phys Chem B 124:4793–4804.
- Hall KW, Sirk TW, Percec S, Klein ML, Shinoda W (2020b) Monodisperse polymer melts crystallize via structurally polydisperse nanoscale clusters: Insights from polyethylene. Polymers (Basel) 12:447.
- Hamsher SE, Ellis K, Holen D, Sanders RW (2020) Effects of light, dissolved nutrients and prey on ingestion and growth of a newly identified mixotrophic alga, Chrysolepidomonas dendrolepidota (Chrysophyceae). Hydrobiologia 847:2923–2932.
- Hayes KL, Mui J, Song B, Sani ES, Eisenman SW, Sheffield JB, Kim B (2020) Effects, uptake, and translocation of aluminum oxide nanoparticles in lettuce: A comparison study to phytotoxic aluminum ions. Science of the Total Environment 719:137393.
- He B, Gao P, Ding Y-Y, Chen C-H, Chen G, Chen C, Kim H, Tasian SK, Hunger SP, Tan K (2020) Diverse noncoding mutations contribute to deregulation of cis-regulatory landscape in pediatric cancers. Sci Adv 6:eaba3064.
- Helmus MR, Behm JE (2020) Island biogeography revisited. Encyclopedia of the World’s biomes:51–56.
- Howell KL, Hilário A, Allcock AL, Bailey DM, Baker M, Clark MR, Colaço A, Copley J, Cordes EE, Danovaro R, others (2020) A blueprint for an inclusive, global deep-sea ocean decade field program. Front Mar Sci:999.
- Huang J, Suma A, Cui M, Grundmeier G, Carnevale V, Zhang Y, Kielar C, Keller A (2020) Arranging small molecules with subnanometer precision on DNA origami substrates for the single-molecule investigation of protein–ligand interactions. Small Struct 1:2000038.
- Iannuzzi CA, Indovina P, Forte IM, di Somma S, Malfitano AM, Bruno M, Portella G, Pentimalli F, Giordano A (2020) Pharmacological Inhibition of WEE1 Potentiates the Antitumoral Effect of the dl922-947 Oncolytic Virus in Malignant Mesothelioma Cell Lines. Int J Mol Sci 21:7333.
- Ichino, N., Serres, M. R., Urban, R. M., Urban, M. D., Treichel, A. J., Schaefbauer, K. J., et al. (2020). Building the vertebrate codex using the gene breaking protein trap library. Elife 9, e54572.
- Indovina P, Forte IM, Pentimalli F, Giordano A (2020) Targeting SRC family kinases in mesothelioma: Time to upgrade. Cancers (Basel) 12:1866.
- Jennings RM, Golovan O, Brix S (2020) Integrative species delimitation of desmosomatid and nannoniscid isopods from the Kuril-Kamchatka trench, with description of a hadal species. Prog Oceanogr 182:102236.
- Jesse WAM, Molleman J, Franken O, Lammers M, Berg MP, Behm JE, Helmus MR, Ellers J (2020) Disentangling the effects of plant species invasion and urban development on arthropod community composition. Glob Chang Biol 26:3294–3306.
- Junod SL, Kelich JM, Ma J, Yang W (2020) Nucleocytoplasmic transport of intrinsically disordered proteins studied by high-speed super-resolution microscopy. Protein Science 29:1459–1472.
- Kasimova MA, Lynagh T, Sheikh ZP, Granata D, Borg CB, Carnevale V, Pless SA (2020) Evolutionarily conserved interactions within the pore domain of acid-sensing ion channels. Biophys J 118:861–872.
- Köhler G, Hedges SB (2020) A replacement name for the Hispaniolan anole formerly referred to as, Anolis chlorocyanus Duméril & Bibron, 1837. Caribb Herpetol:1–3.
- Kosakovsky Pond, S. L., Poon, A. F. Y., Velazquez, R., Weaver, S., Hepler, N. L., Murrell, B., et al. (2020). HyPhy 2.5—a customizable platform for evolutionary hypothesis testing using phylogenies. Mol. Biol. Evol. 37, 295–299.
- Krasniqi E, Pizzuti L, Barchiesi G, Sergi D, Carpano S, Botti C, Kayal R, Sanguineti G, Marchetti P, Botticelli A, others (2020) Impact of BMI on HER2+ metastatic breast cancer patients treated with pertuzumab and/or trastuzumab emtansine. Real-world evidence. J Cell Physiol 235:7900–7910.
- Kulathinal RJ, Yoo Y, Kumar S (2020) The bits and bytes of biology: digitalization fuels an emerging generative platform for biological innovation. In: Handbook of digital innovation. Edward Elgar Publishing, p 253–265
- Kumar S, Chroni A, Tamura K, Sanderford M, Oladeinde O, Aly V, Vu T, Miura S (2020) PathFinder: Bayesian inference of clone migration histories in cancer. Bioinformatics 36:i675–i683.
- la Montagna R, Canonico R, Alfano L, Bucci E, Boffo S, Staiano L, Fulco B, D’Andrea E, de Nicola A, Maiorano P, others (2020) Genomic analysis reveals association of specific SNPs with athletic performance and susceptibility to injuries in professional soccer players. J Cell Physiol 235:2139–2148.
- Leitner T, Kumar S (2020) Where did SARS-CoV-2 come from? Mol Biol Evol 37:2463–2464.
- Li D, Dinnage R, Nell LA, Helmus MR, Ives AR (2020a) Phyr: an R package for phylogenetic species-distribution modelling in ecological communities. Methods Ecol Evol 11:1455–1463.
- Li S, Xia B, Javed B, Hasley WD, Melendez-Davila A, Liu M, Kerzner M, Agarwal S, Xiao Q, Torre P, others (2020b) Direct visualization of vesicle disassembly and reassembly using photocleavable dendrimers elucidates cargo release mechanisms. ACS Nano 14:7398–7411.
- Liberles DA, Chang B, Geiler-Samerotte K, Goldman A, Hey J, Kaçar B, Meyer M, Murphy W, Posada D, Storfer A (2020) Emerging frontiers in the study of molecular evolution. J Mol Evol 88:211–226.
- Lilley TM, Wilson IW, Field KA, Reeder DM, Vodzak ME, Turner GG, Kurta A, Blomberg AS, Hoff S, Herzog CJ, others (2020) Genome-wide changes in genetic diversity in a population of Myotis lucifugus affected by white-nose syndrome. G3: Genes, Genomes, Genetics 10:2007–2020.
- Liu S, Yu T, Guan Y, Zhang K, Ding P, Chen L, Shan Y, Guo Q, Liu Q, Yao Y, others (2020) Resective epilepsy surgery in tuberous sclerosis complex: a nationwide multicentre retrospective study from China. Brain 143:570–581.
- Louzada J, de Almeida NCV, de Araujo JLP, Silva J, Carvalho TM, Escalante AA, Oliveira-Ferreira J (2020) The impact of imported malaria by gold miners in Roraima: characterizing the spatial dynamics of autochthonous and imported malaria in an urban region of Boa Vista. Mem Inst Oswaldo Cruz 115.
- MacDermaid CM, Hall KW, DeVane RH, Klein ML, Fiorin G (2020) Coexistence of lipid phases stabilizes interstitial water in the outer layer of mammalian skin. Biophys J 118:1588–1601.
- Macfarlane D, Nelson F, Hudson MB, Murphy H (2020) Using measures of water quality to narrow down the postmortem submersion interval (PMSI) in water. Environ Earth Sci 79:1–9.
- Mancarella C, Caldoni G, Ribolsi I, Parra A, Manara MC, Mercurio AM, Morrione A, Scotlandi K (2020) Insulin-like growth factor 2 mRNA-binding protein 3 modulates aggressiveness of Ewing sarcoma by regulating the CD164-CXCR4 axis. Front Oncol 10:994.
- Mannino, F., Wisotsky, S., Kosakovsky Pond, S. L., and Muse, S. V (2020). Equiprobable discrete models of site-specific substitution rates underestimate the extent of rate variability. PLoS One 15, e0229493.
- Marino FZ, Botti G, Aquino G, Ferrero S, Gaudioso G, Palleschi A, Rocco D, Salvi R, Micheli MC, Micheli P, others (2020) Unproductive effects of alk gene amplification and copy number gain in non-small-cell lung cancer. Alk gene amplification and copy gain in nsclc. Int J Mol Sci 21.
- Masciullo V, Valdivieso P, Amadio G, Santoro A, Angelico G, Sgambato A, Boffo S, Giordano A, Scambia G, Zannoni GF (2020) Role of retinoblastoma protein family (Rb/p105 and Rb2/p130) expression in the histopathological classification of borderline ovarian tumors. Front Med (Lausanne) 7:596226.
- Mavian, C., Pond, S. K., Marini, S., Magalis, B. R., Vandamme, A.-M., Dellicour, S., et al. (2020). Sampling bias and incorrect rooting make phylogenetic network tracing of SARS-COV-2 infections unreliable. Proc. Natl. Acad. Sci. 117, 12522–12523.
- Mccranie JR, Matthews AJ, Hedges SB (2020) A morphological and molecular revision of lizards of the genus Marisora Hedges & Conn (Squamata: Mabuyidae) from Central America and Mexico, with descriptions of four new species. Zootaxa 4763:301–353.
- Mijit M, Caracciolo V, Melillo A, Amicarelli F, Giordano A (2020) Role of p53 in the Regulation of Cellular Senescence. Biomolecules 10:420.
- Miura S, Tamura K, Tao Q, Huuki LA, Kosakovsky Pond SL, Priest J, Deng J, Kumar S (2020a) A new method for inferring timetrees from temporally sampled molecular sequences. PLoS Comput Biol 16:e1007046.
- Miura S, Vu T, Deng J, Buturla T, Oladeinde O, Choi J, Kumar S (2020b) Power and pitfalls of computational methods for inferring clone phylogenies and mutation orders from bulk sequencing data. Sci Rep 10:1–21.
- Morato T, González-Irusta J-M, Dominguez-Carrió C, Wei C-L, Davies A, Sweetman AK, Taranto GH, Beazley L, García-Alegre A, Grehan A, others (2020) Climate-induced changes in the suitable habitat of cold-water corals and commercially important deep-sea fishes in the North Atlantic. Glob Chang Biol 26:2181–2202.
- Mudumbi KC, Czapiewski R, Ruba A, Junod SL, Li Y, Luo W, Ngo C, Ospina V, Schirmer EC, Yang W (2020) Nucleoplasmic signals promote directed transmembrane protein import simultaneously via multiple channels of nuclear pores. Nat Commun 11:2184.
- Murman K, Setliff GP, Pugh CV, Toolan MJ, Canlas I, Cannon S, Abreu L, Fetchen M, Zhang L, Warden ML, others (2020) Distribution, survival, and development of spotted lanternfly on host plants found in North America. Environ Entomol 49:1270–1281.
- Mutti L, Pentimalli F, Baglio G, Maiorano P, Saladino RE, Correale P, Giordano A (2020) Coronavirus disease (COVID-19): what are we learning in a country with high mortality rate? Front Immunol 11:1208.
- Nakaya, M., Gudmundsson, K. O., Komiya, Y., Keller, J. R., Habas, R., Yamaguchi, T. P., et al. (2020). Placental defects lead to embryonic lethality in mice lacking the Formin and PCP proteins Daam1 and Daam2. PLoS One 15, e0232025.
- Niu, Z., Yang, W., Gao, X., and Tu, X. (2020). Multi-objective optimization based on NSGA-II algorithm for 3DP process. in Advances in Intelligent Systems and Interactive Applications: Proceedings of the 4th International Conference on Intelligent, Interactive Systems and Applications (IISA2019) 4, 757–765.
- Northover DE, Shank SD, Liberles DA (2020) Characterizing lineage-specific evolution and the processes driving genomic diversification in chordates. BMC Evol Biol 20:1–20.
- Pacheco MA, Ceríaco LMP, Matta NE, Vargas-Ramírez M, Bauer AM, Escalante AA (2020a) A phylogenetic study of Haemocystidium parasites and other Haemosporida using complete mitochondrial genome sequences. Infection, Genetics and Evolution 85:104576.
- Pacheco MA, Escalante AA (2020) Cophylogenetic patterns and speciation in avian haemosporidians. Avian malaria and related parasites in the tropics: ecology, evolution and systematics:401–427.
- Pacheco MA, Forero-Peña DA, Schneider KA, Chavero M, Gamardo A, Figuera L, Kadakia ER, Grillet ME, Oliveira-Ferreira J, Escalante AA (2020b) Malaria in Venezuela: changes in the complexity of infection reflects the increment in transmission intensity. Malar J 19:1–15.
- Pacheco MA, Parish CN, Hauck TJ, Aguilar RF, Escalante AA (2020c) The endangered California Condor (Gymnogyps californianus) population is exposed to local haemosporidian parasites. Sci Rep 10:1–8.
- Pacheco MA, Schneider KA, Cheng Q, Munde EO, Ndege C, Onyango C, Raballah E, Anyona SB, Ouma C, Perkins DJ, others (2020d) Changes in the frequencies of Plasmodium falciparum dhps and dhfr drug-resistant mutations in children from Western Kenya from 2005 to 2018: the rise of Pfdhps S436H. Malar J 19:1–9.
- Perella CD, Behm JE (2020) Understanding the spread and impact of exotic geckos in the greater Caribbean region. Biodivers Conserv 29:1109–1134.
- Peterson CH, Franklin KP, Cordes EE (2020) Connectivity corridor conservation: A conceptual model for the restoration of a changing Gulf of Mexico ecosystem. Elementa: Science of the Anthropocene 8.
- Phifer-Rixey M, Harr B, Hey J (2020) Further resolution of the house mouse (Mus musculus) phylogeny by integration over isolation-with-migration histories. BMC Evol Biol 20:1–9.
- Phillips P, Livieri TM, Swanson BJ (2020) Genetic signature of disease epizootic and reintroduction history in an endangered carnivore. J Mammal 101:779–789.
- Piontek SM, DelloStritto M, Mandal B, Marshall T, Klein ML, Borguet E (2020) Probing heterogeneous charge distributions at the α-Al2O3 (0001)/H2O interface. J Am Chem Soc 142:12096–12105.
- Pippa R, Boffo S, Odero MD, Giordano A (2020) Data mining analysis of the PP2A cell cycle axis in mesothelioma patients. J Cell Physiol 235:5284–5292.
- Pollock, D. D., Castoe, T. A., Perry, B. W., Lytras, S., Wade, K. J., Robertson, D. L., et al. (2020). Viral CpG deficiency provides no evidence that dogs were intermediate hosts for SARS-CoV-2. Mol. Biol. Evol. 37, 2706–2710.
- Pyott SJ, van Tuinen M, Screven LA, Schrode KM, Bai J-P, Barone CM, Price SD, Lysakowski A, Sanderford M, Kumar S, others (2020) Functional, morphological, and evolutionary characterization of hearing in subterranean, eusocial African mole-rats. Current Biology 30:4329–4341.
- Remsing RC, Klein ML (2020a) A new perspective on lone pair dynamics in halide perovskites. APL Mater 8:50902.
- Remsing RC, Klein ML (2020b) Lone pair rotational dynamics in solids. Phys Rev Lett 124:66001.
- Remsing RC, Klein ML (2020c) Molecular simulation of covalent bond dynamics in liquid silicon. J Phys Chem B 124:3180–3185.
- Richards SE v, Moore AR, Nam AY, Saxena S, Paradis S, van Hooser SD (2020) Experience-dependent development of dendritic arbors in mouse visual cortex. Journal of Neuroscience 40:6536–6556.
- RifeMagalis, B., Strickland, S. L., Shank, S. D., Autissier, P., Schuetz, A., Sithinamsuwan, P., et al. (2020). Phyloanatomic characterization of the distinct T cell and monocyte contributions to the peripheral blood HIV population within the host. Virus Evol. 6, veaa005.
- Rojas-Jimenez K, Grossart H-P, Cordes E, Cortés J (2020) Fungal communities in sediments along a depth gradient in the Eastern Tropical Pacific. Front Microbiol 11:575207.
- Ruggiero A, Grattepanche J-D, Weiner AKM, Katz LA (2020) High Diversity of Testate Amoebae (Amoebozoa, Arcellinida) Detected by HTS Analyses in a New England Fen using Newly Designed Taxon-specific Primers. Journal of Eukaryotic Microbiology 67:450–462.
- Santoro A, Bufo P, Russo G, Cagiano S, Papagerakis S, Bucci P, Aquino G, Longo F, Feola A, Giordano A, others (2020) Expression and clinical implication of cyclooxygenase-2 and e-cadherin in oral squamous cell carcinomas. Cancer Biol Ther 21:667–674.
- Scalia P, Giordano A, Martini C, Williams SJ (2020a) Isoform-and paralog-switching in IR-signaling: When diabetes opens the gates to cancer. Biomolecules 10:1617.
- Scalia P, Giordano A, Williams SJ (2020b) The IGF-II–Insulin Receptor Isoform-A Autocrine Signal in Cancer: Actionable Perspectives. Cancers (Basel) 12:366.
- Scalia P, Heart E, Doughty A, Giordano A, Williams SJ (2020c) Vitronectin Negatively Regulates IGF-II-Induced Mitogenic Signaling and Migration Mediated by The Insulin Receptor Isoform-A. Int J Appl Biol Pharm 11:229–244.
- Scalia P, Williams SJ, Luca R, Giordano A, Bucci E, others (2020d) Genetic and cell biology discriminants of Sars-CoV2 infection and susceptibility to Covid-19 pulmonary complication. COVID-19 Research.
- Scherpereel, A., Opitz, I., Berghmans, T., Psallidas, I., Glatzer, M., Rigau, D., et al. (2020). ERS/ESTS/EACTS/ESTRO guidelines for the management of malignant pleural mesothelioma. Eur. Respir. J. 55.
- Schwing PT, Montagna PA, Joye SB, Paris CB, Cordes EE, McClain CR, Kilborn JP, Murawski SA (2020) A synthesis of deep benthic faunal impacts and resilience following the Deepwater Horizon oil spill. Front Mar Sci 7:560012.
- Sharma, A., Kumar Sharma, S., Shi, Y., Bucci, E., Carafoli, E., Melino, G., et al. (2020). BCG vaccination policy and preventive chloroquine usage: do they have an impact on COVID-19 pandemic? Cell death \& Dis. 11, 516.
- Shi, Y., Wang, Y., Shao, C., Huang, J., Gan, J., Huang, X., et al. (2020). COVID-19 infection: the perspectives on immune responses. Cell Death \& Differ. 27, 1451–1454.
- Sigg D, Voelz VA, Carnevale V (2020) Microcanonical coarse-graining of the kinetic Ising model. J Chem Phys 152:84104.
- Sirangelo I, Sapio L, Ragone A, Naviglio S, Iannuzzi C, Barone D, Giordano A, Borriello M (2020) Vanillin prevents doxorubicin-induced apoptosis and oxidative stress in rat H9c2 cardiomyocytes. Nutrients 12:2317.
- Somarelli JA, Gardner H, Cannataro VL, Gunady EF, Boddy AM, Johnson NA, Fisk JN, Gaffney SG, Chuang JH, Li S, others (2020) Molecular biology and evolution of cancer: from discovery to action. Mol Biol Evol 37:320–326.
- Stecher G, Tamura K, Kumar S (2020) Molecular evolutionary genetics analysis (MEGA) for macOS. Mol Biol Evol 37:1237–1239.
- Sudsaward, S., Khunchai, S., Thepmalee, C., Othman, A., Limjindaporn, T., Yenchitsomanus, P.-T., et al. (2020). Endoplasmic reticulum stress, unfolded protein response and autophagy contribute to resistance to glucocorticoid treatment in human acute lymphoblastic leukaemia cells. Int. J. Oncol. 57, 835–844.
- Suma A, Gianti E, Nersesyan Y, Zakharian E, Carnevale V (2020a) Mechanism of TRPV1 Activation by Oxytocin. Biophys J 118:412a.
- Suma A, Granata D, Thomson AS, Carnevale V, Rothberg BS (2020b) Polyamine blockade and binding energetics in the MthK potassium channel. Journal of General Physiology 152.
- Suma A, Stopar A, Nicholson AW, Castronovo M, Carnevale V (2020c) Global and local mechanical properties control endonuclease reactivity of a DNA origami nanostructure. Nucleic Acids Res 48:4672–4680.
- Tagliamonte, M. S., Abid, N., Borocci, S., Sangiovanni, E., Ostrov, D. A., Kosakovsky Pond, S. L., et al. (2020). Multiple recombination events and strong purifying selection at the origin of SARS-CoV-2 spike glycoprotein increased correlated dynamic movements. Int. J. Mol. Sci. 22, 80.
- Tao Q, Barba-Montoya J, Huuki LA, Durnan MK, Kumar S (2020a) Relative efficiencies of simple and complex substitution models in estimating divergence times in phylogenomics. Mol Biol Evol 37:1819–1831.
- Tao Q, Tamura K, Kumar S (2020b) Efficient methods for dating evolutionary divergences. The Molecular Evolutionary Clock: Theory and Practice:197–219.
- Tao Q, Tamura K, Mello B, Kumar S (2020c) Reliable confidence intervals for RelTime estimates of evolutionary divergence times. Mol Biol Evol 37:280–290.
- Tingey M, Schnell SJ, Li Y, Junod S, Yu W, Yang W (2020) 2. IMAGING TRANSMEMBRANE PROTEIN TRANSPORT ACROSS THE NUCLEAR ENVELOPE.
- Torkzaban B, Ahooyi TM, Duggan M, Amini S, Khalili K (2020a) Cross-talk between lipid homeostasis and endoplasmic reticulum stress in neurodegeneration: Insights for HIV-1 associated neurocognitive disorders (HAND). Neurochem Int 141:104880.
- Torkzaban B, Natarajaseenivasan K, Mohseni Ahooyi T, Shekarabi M, Amini S, Langford TD, Khalili K (2020b) The lncRNA LOC102549805 (U1) modulates neurotoxicity of HIV-1 Tat protein. Cell Death Dis 11:835.
- Tran TJ, Helmus MR, Behm JE (2020) Green infrastructure space and traits (GIST) model: Integrating green infrastructure spatial placement and plant traits to maximize multifunctionality. Urban For Urban Green 49:126635.
- Tunnicliffe V, Cordes EE (2020) The tubeworm forests of hydrothermal vents and cold seeps. Perspectives on the Marine Animal Forests of the World:147–192.
- Tunnicliffe V, Gasbarro R, Juanes F, Qualley J, Soderberg N, Chu JWF (2020) An hypoxia-tolerant flatfish: consequences of sustained stress on the slender sole Lyopsetta exilis (Pleuronectidae) in the context of a changing ocean. J Fish Biol 96:394–407.
- Tzou, P. L., Kosakovsky Pond, S. L., Avila-Rios, S., Holmes, S. P., Kantor, R., and Shafer, R. W. (2020). Analysis of unusual and signature APOBEC-mutations in HIV-1 pol next-generation sequences. PLoS One 15, e0225352.
- Weinnig AM, Gómez CE, Hallaj A, Cordes EE (2020) Cold-water coral (Lophelia pertusa) response to multiple stressors: High temperature affects recovery from short-term pollution exposure. Sci Rep 10:1–13.
- Wierson, W. A., Welker, J. M., Almeida, M. P., Mann, C. M., Webster, D. A., Torrie, M. E., et al. (2020). Efficient targeted integration directed by short homology in zebrafish and mammalian cells. Elife 9, e53968.
- Wilson AE, Kosater WM, Liberles DA (2020) Evolutionary processes and biophysical mechanisms: revisiting why evolved proteins are marginally stable. J Mol Evol 88:415–417.
- Wisotsky, S. R., Kosakovsky Pond, S. L., Shank, S. D., and Muse, S. V (2020). Synonymous site-to-site substitution rate variation dramatically inflates false positive rates of selection analyses: ignore at your own peril. Mol. Biol. Evol. 37, 2430–2439.
- Xiao Q, Delbianco M, Sherman SE, Reveron Perez AM, Bharate P, Pardo-Vargas A, Rodriguez-Emmenegger C, Kostina NY, Rahimi K, Söder D, others (2020) Nanovesicles displaying functional linear and branched oligomannose self-assembled from sequence-defined Janus glycodendrimers. Proceedings of the National Academy of Sciences 117:11931–11939.
- Yang W, Hon M, Yao H, Tee BCK (2020) An Atlas for Large-Area Electronic Skins. Cambridge University Press.
- Yao H, Li P, Cheng W, Yang W, Yang Z, Ali HPA, Guo H, Tee BCK (2020a) Environment-resilient graphene vibrotactile sensitive sensors for machine intelligence. ACS Mater Lett 2:986–992.
- Yao H, Yang W, Cheng W, Tan YJ, See HH, Li S, Ali HPA, Lim BZH, Liu Z, Tee BCK (2020b) Near–hysteresis-free soft tactile electronic skins for wearables and reliable machine learning. Proceedings of the National Academy of Sciences 117:25352–25359.
- Yazici AT, Gianti E, Carnevale V, Rohacs T (2020) Dual Regulation of TRPV1 by Phosphatidylinositol via Functionally Distinct Binding Sites. Biophys J 118:411a.
- Yu J, Fiorin G, Peng H, Klein ML, Perdew JP (2020) Different bonding type along each crystallographic axis: Computational study of poly (p-phenylene terephthalamide). Phys Rev Mater 4:55601.
- Zhao S, Gianti E, Carnevale V, Rohacs T (2020) The Molecular Mechanisms of TRMP3 Channel Regulation by Gβγ and Phosphoinositides. Biophys J 118:21a.
- Zhou X, Dou Q, Fan G, Zhang Q, Sanderford M, Kaya A, Johnson J, Karlsson EK, Tian X, Mikhalchenko A, others (2020) Beaver and naked mole rat genomes reveal common paths to longevity. Cell Rep 32:107949.
- Zografou K, Swartz MT, Tilden VP, McKinney EN, Eckenrode JA, Sewall BJ (2020) Stable generalist species anchor a dynamic pollination network. Ecosphere 11:e03225.
2019
- Abrahams, M.-R., Joseph, S. B., Garrett, N., Tyers, L., Moeser, M., Archin, N., et al. (2019). The replication-competent HIV-1 latent reservoir is primarily established near the time of therapy initiation. Sci. Transl. Med. 11, eaaw5589.
- Adamidis, G. C., Swartz, M. T., Zografou, K., and Sewall, B. J. (2019). Prescribed fire maintains host plants of a rare grassland butterfly. Sci. Rep. 9, 1–12.
- Ahooyi, T. M., Masoud, S., Torkzaban, B., Langford, D., Burdo, T. H., Gordon, J., et al. (2019). RNA Deep Sequencing Reveals the Alteration of Neuronal Cholesterol Biosynthesis by HIV-1 Tat. in JOURNAL OF NEUROVIROLOGY, S31--S31.
- Ahooyi, T. M., Shekarabi, M., Tahrir, F. G., Decoppet, E. A., Torkzaban, B., Cotto, B., et al. (2019). Neuronal BAG3 Suppression Induced by HIV-1 Tat Disrupts the Synaptic Vesicles Homeostasis. in JOURNAL OF NEUROVIROLOGY, S30--S30.
- Albelazi, M. S., Martin, P. R., Mohammed, S., Mutti, L., Parsons, J. L., and Elder, R. H. (2019). The biochemical role of the human NEIL1 and NEIL3 DNA glycosylases on model DNA replication forks. Genes (Basel). 10, 315.
- Alfano, L., Caporaso, A., Altieri, A., Dell’Aquila, M., Landi, C., Bini, L., et al. (2019). Depletion of the RNA binding protein HNRNPD impairs homologous recombination by inhibiting DNA-end resection and inducing R-loop accumulation. Nucleic Acids Res. 47, 4068–4085.
- Assour, H. R., and Behm, J. E. (2019). First occurrence of Cheilomenes sexmaculata (Coleoptera: Coccinellidae) on the Caribbean island of Curaçao. Neotrop. Entomol. 48, 863–865.
- Avanzato, V. A., Oguntuyo, K. Y., Escalera-Zamudio, M., Gutierrez, B., Golden, M., Kosakovsky Pond, S. L., et al. (2019). A structural basis for antibody-mediated neutralization of Nipah virus reveals a site of vulnerability at the fusion glycoprotein apex. Proc. Natl. Acad. Sci. 116, 25057–25067.
- Babaian, C., and Kumar, S. (2019). Adventures in evolution: the narrative of Tardigrada, Trundlers in time. Am. Biol. Teach. 81, 543–552.
- Baird, A.-M., Easty, D., Jarzabek, M., Shiels, L., Soltermann, A., Klebe, S., et al. (2019). When RON MET TAM in mesothelioma: all druggable for one, and one drug for all? Front. Endocrinol. (Lausanne). 10, 89.
- Bakker, E., Guazzelli, A., Demonacos, C., Krstic-Demonacos, M., and Mutti, L. (2019). “The Treatment of Malignant Pleural Mesothelioma: From the Current Standard to Novel Possible Therapeutic Strategies,” in Malignant Pleural Mesothelioma (Elsevier), 117–136.
- Balciuniene, J., and Balciunas, D. (2019). A nuclear mtDNA concatemer (Mega-NUMT) could mimic paternal inheritance of mitochondrial genome. Front. Genet. 10, 518.
- Bassi, R., Bucci, E. M., Calogero, R. A., Carninci, P., Ciliberto, G., Conte, P., et al. (2019). Look for methods, not conclusions. Cell death \& Dis. 10, 931.
- Behm, J. E., van Buurt, G., DiMarco, B. M., Ellers, J., Irian, C. G., Langhans, K. E., et al. (2018). First records of the mourning gecko (Lepidodactylus lugubris Duméril and Bibron, 1836), common house gecko (Hemidactylus frenatus in Duméril, 1836), and Tokay gecko (Gekko gecko Linnaeus, 1758) on Curaçao, Dutch Antilles, and remarks on their Caribbean distributions. Open Access Publ. Fund.
- Bertinetto, F. E., Bongioanni, D., Garino, E., Giordano, A., Melchiorre, T., Rocchi, L., et al. (2019). NGS e mutazioni nel trapianto CSE: quali informazioni agli ematologi? in XXVI congresso nazionale AIBT, 35.
- Black, S. J., Ozdemir, A. Y., Kashkina, E., Kent, T., Rusanov, T., Ristic, D., et al. (2019). Molecular basis of microhomology-mediated end-joining by purified full-length Pol$θ$. Nat. Commun. 10, 4423.
- Błażewicz, M., Jóźwiak, P., Jennings, R. M., Studzian, M., and Frutos, I. (2019). Integrative systematics and ecology of a new deep-sea family of tanaidacean crustaceans. Sci. Rep. 9, 1–70.
- Boccellino, M., Pinto, F., Ieluzzi, V., Giovane, A., Quagliuolo, L., Fariello, C., et al. (2019). Proteomics analysis of human serum of patients with non-small-cell lung cancer reveals proteins as diagnostic biomarker candidates. J. Cell. Physiol. 234, 23798–23806.
- Bosque, C., and Pacheco, M. A. (2019). Skewed adult sex ratios in Columbina ground doves from Venezuela. J. F. Ornithol. 90, 1–6.
- Botti, G., Giordano, A., Feroce, F., De Chiara, A. R., and Cantile, M. (2019). Noncoding RNAs as circulating biomarkers in osteosarcoma patients. J. Cell. Physiol. 234, 19249–19255.
- Breedy, O., Rouse, G. W., Stabbins, A., Cortes, J., and Cordes, E. E. (2019). New records of Swiftia (Cnidaria, Anthozoa, Octocorallia) from off the Pacific Costa Rican margin, including a new species from methane seeps. Zootaxa 4671.
- Bucci, E. M. (2019). Effectiveness of the monitoring of X. fastidiosa subsp. pauca in the olive orchards of Southern Italy (Apulia). Rend. Lincei. Sci. Fis. e Nat. 30, 681–688.
- Bucci, E. M. (2019). On zombie papers. Cell death \& Dis. 10, 189.
- Camilli, R., Summa, L. L., Cordes, E. E., and Ayton, B. (2019). Cold Seeps of the Eastern Pacific: New Technologies Yield New Perspectives on the Biogeochemical Processes of a Well-Studied Subduction Margin I Posters. in AGU Fall Meeting 2019.
- Canzonieri, V., and Giordano, A. (2019). Gastric Cancer In The Precision Medicine Era. Springer.
- Canzonieri, V., Rao, F., Perin, T., Alessandrini, L., Buonadonna, A., Bertola, G., et al. (2019). Diagnostic, Prognostic, Predictive and Therapeutic Tissue Biomarkers in Gastric Cancer. Gastric Cancer Precis. Med. Era Diagnosis Ther., 83–106.
- Caraglia, M., Correale, P., Giannicola, R., Staropoli, N., Botta, C., Pastina, P., et al. (2019). Golfig chemo-immunotherapy in metastatic colorectal cancer patients. A critical review on A long-lasting follow-up. Front. Oncol. 9, 1102.
- Chapman, A. S. A., Beaulieu, S. E., Colaço, A., Gebruk, A. V, Hilario, A., Kihara, T. C., et al. (2019). sFDvent: A global trait database for deep-sea hydrothermal-vent fauna. Glob. Ecol. Biogeogr. 28, 1538–1551.
- Cheleschi, S., Gallo, I., Barbarino, M., Giannotti, S., Mondanelli, N., Giordano, A., et al. (2019). MicroRNA mediate visfatin and resistin induction of oxidative stress in human osteoarthritic synovial fibroblasts via NF-$κ$B pathway. Int. J. Mol. Sci. 20, 5200.
- Cheleschi, S., Tenti, S., Mondanelli, N., Corallo, C., Barbarino, M., Giannotti, S., et al. (2019). MicroRNA-34a and MicroRNA-181a mediate visfatin-induced apoptosis and oxidative stress via NF-$κ$B pathway in human osteoarthritic chondrocytes. Cells 8, 874.
- Chen, S., Yang, W., Song, J., and Guo, F. (2019). A new mechanism of energy dissipation in nanomechanical resonators due to the Casimir force. J. Appl. Phys. 126, 44502.
- Chernov-Rogan, T., Gianti, E., Liu, C., Villemure, E., Cridland, A. P., Hu, X., et al. (2019). TRPA1 modulation by piperidine carboxamides suggests an evolutionarily conserved binding site and gating mechanism. Proc. Natl. Acad. Sci. 116, 26008–26019.
- Chirico, A., Fegatelli, D., Galli, F., Mallia, L., Alivernini, F., Cordone, S., et al. (2019). A study of quiet eye’s phenomenon in the shooting section of “laser run” of modern pentathlon. J. Cell. Physiol. 234, 9247–9254.
- Chroni, A., Vu, T., Miura, S., and Kumar, S. (2019). Delineation of tumor migration paths by using a bayesian biogeographic approach. Cancers (Basel). 11, 1880.
- Cooperband, M., Murman, K., Cannon, S., Abreu, L., Wallace, M., Trepanowski, N., et al. (2019). Dispersal and host preference of marked and released spotted lanternfly. Otis Lab. 2018 Annu. Rep., 60–61.
- Cordes, E. E., Demopoulos, A. W. J., Boland, G., and Adams, C. (2018). DEEP SEARCH: Deep sea exploration to advance research on coral/canyon/cold seep habitats. Oceanography 31, 97–98.
- Correale, P., Staropoli, N., Pastina, P., Giannicola, R., Botta, C., Francini, E., et al. (2019). GOLFIG chemo-immunotherapy in metastatic colorectal cancer (mCRC) patients: A fifteen year retrospective analysis. Ann. Oncol. 30, v492--v493.
- Crous, P. W., Wingfield, M. J., Lombard, L., Roets, F., Swart, W. J., Alvarado, P., et al. (2019). Fungal Planet description sheets: 951--1041. Persoonia Mol. Phylogeny Evol. Fungi 43, 223.
- Damiano, S., Lombari, P., Salvi, E., Papale, M., Giordano, A., Amenta, M., et al. (2019). A red orange and lemon by-products extract rich in anthocyanins inhibits the progression of diabetic nephropathy. J. Cell. Physiol. 234, 23268–23278.
- Dash, P. K., Kaminski, R., Bella, R., Su, H., Mathews, S., Ahooyi, T. M., et al. (2019). Sequential LASER ART and CRISPR treatments eliminate HIV-1 in a subset of infected humanized mice. Nat. Commun. 10, 1–20.
- De Nigris, F., Crudele, V., Giovane, A., Casamassimi, A., Giordano, A., Garban, H. J., et al. (2010). CXCR4/YY1 inhibition impairs VEGF network and angiogenesis during malignancy. Proc. Natl. Acad. Sci. 107, 14484–14489.
- Deegan, D. F., Karbalaei, R., Madzo, J., Kulathinal, R. J., and Engel, N. (2019). The developmental origins of sex-biased expression in cardiac development. Biol. Sex Differ. 10, 1–20.
- DelloStritto, M. J., Piontek, S. M., Klein, M. L., and Borguet, E. (2019). Effect of functional and electron correlation on the structure and spectroscopy of the Al2O3 (001)--H2O interface. J. Phys. Chem. Lett. 10, 2031–2036.
- DelloStritto, M. J., Thenuwara, A. C., Klein, M. L., and Strongin, D. R. (2019). Effect of interlayer Co2+ on structure and charge transfer in NiFe layered double hydroxides. J. Phys. Chem. C 123, 13593–13599.
- DelloStritto, M., Klein, M. L., and Borguet, E. (2019). Bond-Dependent Thole Model for Polarizability and Spectroscopy. J. Phys. Chem. A 123, 5378–5387.
- Dellostritto, M., Wang, R., Klein, M., and Borguet, E. (2019). Volume-Dependent Atomic Polarizabilities for Vibrational Spectroscopy. in APS March Meeting Abstracts, P16--006.
- Di Cristo, F., Finicelli, M., Digilio, F. A., Paladino, S., Valentino, A., Scialò, F., et al. (2019). Meldonium improves Huntington’s disease mitochondrial dysfunction by restoring peroxisome proliferator-activated receptor $γ$ coactivator 1$α$ expression. J. Cell. Physiol. 234, 9233–9246.
- Di Domenico, M., Pozzi, D., Palchetti, S., Digiacomo, L., Iorio, R., Astarita, C., et al. (2019). Nanoparticle-biomolecular corona: A new approach for the early detection of non-small-cell lung cancer. J. Cell. Physiol. 234, 9378–9386.
- Di Somma, S., Iannuzzi, C. A., Passaro, C., Forte, I. M., Iannone, R., Gigantino, V., et al. (2019). The Oncolytic Virus dl 922-947 Triggers Immunogenic Cell Death in Mesothelioma and Reduces Xenograft Growth. Front. Oncol. 9, 564.
- Dong, H., Zhang, Y., Song, R., Xu, J., Yuan, Y., Liu, J., et al. (2019). Toward a model for activation of Orai channel. Iscience 16, 356–367.
- El Boustani, M., De Stefano, L., Caligiuri, I., Mouawad, N., Granchi, C., Canzonieri, V., et al. (2019). A guide to PIN1 function and mutations across cancers. Front. Pharmacol. 9, 1477.
- Escalante, A. A., and Pacheco, M. A. (2019). Malaria molecular epidemiology: an evolutionary genetics perspective. Microbiol. Spectr. 7, 4–7.
- Farias, T. da S. M. de, Cruz, M. M., Sa, R. C. da C. de, Severi, I., Perugini, J., Senzacqua, M., et al. (2019). Melatonin supplementation decreases hypertrophic obesity and inflammation induced by high-fat diet in mice. Front. Endocrinol. (Lausanne). 10, 750.
- Ferrari, L., Bragato, C., Brioschi, L., Spreafico, M., Esposito, S., Pezzotta, A., et al. (2019). HDAC8 regulates canonical Wnt pathway to promote differentiation in skeletal muscles. J. Cell. Physiol. 234, 6067–6076.
- Fiorin, G., MacDermaid, C., Devane, R., and Klein, M. (2019). Simulations at multiple scales reconcile lipid membrane structure with the barrier function of mammalian skin. in ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY.
- Forte, I. M., Giordano, A., and Pentimalli, F. (2019). “Insert: Molecular Markers of Mesothelioma Aiding in Diagnostic Challenges: The Combined Use of p16 and BAP1,” in Malignant Pleural Mesothelioma (Elsevier), 109–115.
- Forte, I. M., Indovina, P., Iannuzzi, C. A., Cirillo, D., Di Marzo, D., Barone, D., et al. (2019). Targeted therapy based on p53 reactivation reduces both glioblastoma cell growth and resistance to temozolomide. Int. J. Oncol. 54, 2189–2199.
- Fragata, I., Blanckaert, A., Louro, M. A. D., Liberles, D. A., and Bank, C. (2019). Evolution in the light of fitness landscape theory. Trends Ecol. \& Evol. 34, 69–82.
- Garva, R., Thepmalee, C., Yasamut, U., Sudsaward, S., Guazzelli, A., Rajendran, R., et al. (2019). Sirtuin family members selectively regulate autophagy in osteosarcoma and mesothelioma cells in response to cellular stress. Front. Oncol. 9, 949.
- Gasbarro, R., Chu, J. W. F., and Tunnicliffe, V. (2019). Disassembly of an epibenthic assemblage in a sustained severely hypoxic event in a northeast Pacific basin. J. Mar. Syst. 198, 103184.
- Gianti, E., Klein, M. L., Rohacs, T., and Carnevale, V. (2019). Activation of TRPV1 by Lipids: Can Lipid Tails Bridge the Gap between the Vanilloid Binding Site and the Peripheral Cavities? Biophys. J. 116, 536a.
- Gianti, E., Yazici, A., Kasimova, M., Rohacs, T., Klein, M., and Carnevale, V. (2019). On the many roles played by lipids in the activation TRPV1, the noxious heat and capsaicin receptor. in ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY.
- Giordano, A., and Franco, R. (2019). Malignant Pleural Mesothelioma: A Guide for Clinicians. Academic Press.
- Giordano, A., and Nisoli, E. (2019). Neuroendocrinology of Energy Balance 2. Paolo Sbraccia, 31.
- Giordano, A., and Tommonaro, G. (2019). Curcumin and cancer. Nutrients 11, 2376.
- Giordano, A., Giordano, C., Pugliese, N., Piccolo, G., Cappuccio, I., Calabrò, M., et al. (2019). PB2163 CARFILZOMIB, LENALIDOMIDE AND DEXAMETHASONE “ON DEMAND” IN RELAPSED/REFRACTORY MULTIPLE MYELOMA: REAL LIFE EXPERIENCE AND NEW PERSPECTIVES ON DOSE-DENSE CHEMOTHERAPY. HemaSphere 3, 971–972.
- Giordano, A., Giordano, C., Pugliese, N., Raimondo, M., Piccolo, G., Zacheo, I., et al. (2019). CARFILZOMIB, LENALIDOMIDE AND DEXAMETHASONE (KRD) IN RELAPSE/REFRACTORY MULTIPLE MYELOMA (MM): REAL LIFE EXPERIENCE AND NEW PERSPECTIVIES ON DOSE-DENSE CHEMOTHERAPY. in HAEMATOLOGICA, 118.
- Giordano, C., Giordano, A., Pugliese, N., Della Pepa, R., Rascato, M. G., Fatigati, C., et al. (2019). PB1801 PRIMARY EXTRA-NODAL DIFFUSE LARGE B-CELL LYMPHOMA: A RETROSPECTIVE SINGLE INSTITUTE ANALYSIS ON TREATMENT MODALITIES AND OUTCOME. HemaSphere 3, 826.
- González, L. P., Pacheco, M. A., Escalante, A. A., Maldonado, A. D. J., Cepeda, A. S., Rodr\’\iguez-Fandiño, O. A., et al. (2019). Haemocystidium spp., a species complex infecting ancient aquatic turtles of the family Podocnemididae: First report of these parasites in Podocnemis vogli from the Orinoquia. Int. J. Parasitol. Parasites Wildl. 10, 299–309.
- Guazzelli, A., Meysami, P., Bakker, E., Bonanni, E., Demonacos, C., Krstic-Demonacos, M., et al. (2019). What can independent research for mesothelioma achieve to treat this orphan disease? Expert Opin. Investig. Drugs 28, 719–732.
- Guazzelli, A., Meysami, P., Bakker, E., Demonacos, C., Giordano, A., Krstic-Demonacos, M., et al. (2019). BAP1 status determines the sensitivity of malignant mesothelioma cells to gemcitabine treatment. Int. J. Mol. Sci. 20, 429.
- Hall, K. W., Percec, S., and Klein, M. L. (2019). Polymer nucleation under high-driving force, long-chain conditions: Heat release and the separation of time scales. J. Chem. Phys. 150, 114901.
- Hall, K. W., Sirk, T. W., Klein, M. L., and Shinoda, W. (2019). A coarse-grain model for entangled polyethylene melts and polyethylene crystallization. J. Chem. Phys. 150, 244901.
- Hall, K. W., Sirk, T. W., Percec, S., Klein, M. L., and Shinoda, W. (2019). Divining the shape of nascent polymer crystal nuclei. J. Chem. Phys. 151, 144901.
- Han, E., Zhao, L., Van Ha, N., Hsieh, S. T., Szyld, D. B., and Jaeger, H. M. (2019). Dynamic jamming of dense suspensions under tilted impact. Phys. Rev. Fluids 4, 63304.
- Hauer, C., Powers, L., Mcnaughton, D., Paul, C., and Sewall, B. (2019). Changes in a summer bat community in southeastern Pennsylvania. J. Pa. Acad. Sci. 93, 47–62.
- Hedges, S. B., Cohen, W. B., Timyan, J., and Yang, Z. (2019). Reply to Wampler et al.: Deforestation and biodiversity loss should not be sugarcoated. Proc. Natl. Acad. Sci. 116, 5204.
- Hedges, S. B., Lorvelec, O., Barré, N., Vidal, N., and Pavis, C. (2019). On the taxonomic recognition of skinks from the Guadeloupe Archipelago (Squamata, Mabuyidae, Mabuya). Caribb. Herpetol 64, 1–7.
- Hedges, S. B., Powell, R., Henderson, R. W., Hanson, S., and Murphy, J. C. (2019). Definition of the Caribbean Islands biogeographic region, with checklist and recommendations for standardized common names of amphibians and reptiles. Caribb. Herpetol. 67, 1–53.
- Hey, J., and Wang, K. (2019). The effect of undetected recombination on genealogy sampling and inference under an isolation-with-migration model. Mol. Ecol. Resour. 19, 1593–1609.
- Hughes, T. E. T., Pumroy, R. A., Yazici, A. T., Kasimova, M. A., Fluck, E. C., Huynh, K. W., et al. (2018). Structural insights on TRPV5 gating by endogenous modulators. Nat. Commun. 9, 4198.
- Indovina, P., Pentimalli, F., Conti, D., and Giordano, A. (2019). Translating RB1 predictive value in clinical cancer therapy: Are we there yet? Biochem. Pharmacol. 166, 323–334.
- Jacobson, M. A., Jones, L. J., Colussi, D. J., and Tanaka, J. C. (2019). High-Throughput Ca2+ Flux Assay To Monitor Cyclic Nucleotide-Gated Channel Activity and Characterize Achromatopsia Mutant Channel Function. ACS Chem. Neurosci. 10, 3662–3670.
- Kacar, B., Battistuzzi, F. U. U., Garcia, A. K., and Hedges, S. B. (2019). Evolution of life’s complexity on a habitable planet II (1 Hour Session). in 2019 Astrobiology Science Conference.
- Kiick, K., Klein, M., Elokely, K., Gianti, E., and Carnevale, V. (2019). Designing biomacromolecular materials with tailored (poly) peptide conjugates. in ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY.
- Köhler, G., Zimmer, C., McGrath, K., Hedges, S. B., and others (2019). A revision of the genus Audantia of Hispaniola with description of four new species (Reptilia: Squamata: Dactyloidae). Novit. Caribaea, 1–104.
- Kostina, N. Y., Rahimi, K., Xiao, Q., Haraszti, T., Dedisch, S., Spatz, J. P., et al. (2019). Membrane-mimetic dendrimersomes engulf living bacteria via endocytosis. Nano Lett. 19, 5732–5738.
- Lapillo, M., Tuccinardi, T., Martinelli, A., Macchia, M., Giordano, A., and Poli, G. (2019). Extensive reliability evaluation of docking-based target-fishing strategies. Int. J. Mol. Sci. 20, 1023.
- Li, Y., Aksenova, V., Yu, J., Ma, P., Arnaoutov, A., Dasso, M., et al. (2019). Copy Number and Function of Individual Disordered Proteins in the Nuclear Pore Complex Revealed by Combining Auxin-Inducible Degron Strategy and High-Speed Single-Molecule Microscopy. Biophys. J. 116, 441a.
- Li, Y., Junod, S. L., Ruba, A., Kelich, J. M., and Yang, W. (2019). Nuclear export of mRNA molecules studied by SPEED microscopy. Methods 153, 46–62.
- Liberles, D. A. (2019). A new editorial beginning at journal of molecular evolution. J. Mol. Evol. 87, 69–71.
- Liberles, D. A., and Holland, B. R. (2019). Evolutionary Models.
- Liu, L., Sanderford, M. D., Patel, R., Chandrashekar, P., Gibson, G., and Kumar, S. (2019). Biological relevance of computationally predicted pathogenicity of noncoding variants. Nat. Commun. 10, 330.
- Liu, S., Lin, X., Behm, J. E., Yuan, H., Stiblik, P., Šobotn\’\ik, J., et al. (2019). Comparative responses of termite functional and taxonomic diversity to land-use change. Ecol. Entomol. 44, 762–770.
- Liu, X., Wang, B., Yao, L., Fei, Y., Mi, L., Ma, J., et al. (2019). 3D particle tracking using a dual-objective fluorescent reflection system with spherical aberration. J. Phys. D. Appl. Phys. 52, 385403.
- Liu, X., Yao, L., Yang, W., Fei, Y., Mi, L., and Ma, J. (2019). Spectroscopic fluorescent tracking of a single molecule in a live cell with a dual-objective fluorescent reflection microscope. Appl. Phys. Express 12, 112007.
- Lotta, I. A., Valki\=unas, G., Pacheco, M. A., Escalante, A. A., Hernández, S. R., and Matta, N. E. (2019). Disentangling Leucocytozoon parasite diversity in the neotropics: descriptions of two new species and shortcomings of molecular diagnostics for leucocytozoids. Int. J. Parasitol. Parasites Wildl. 9, 159–173.
- Ludwig, A.-K., Michalak, M., Xiao, Q., Gilles, U., Medrano, F. J., Ma, H., et al. (2019). Design--functionality relationships for adhesion/growth-regulatory galectins. Proc. Natl. Acad. Sci. 116, 2837–2842.
- Mancuso, P., Tricarico, R., Bhattacharjee, V., Cosentino, L., Kadariya, Y., Jelinek, J., et al. (2019). Thymine DNA glycosylase as a novel target for melanoma. Oncogene 38, 3710–3728.
- Manrique, P., Miranda-Alban, J., Alarcon-Baldeon, J., Ramirez, R., Carrasco-Escobar, G., Herrera, H., et al. (2019). Microsatellite analysis reveals connectivity among geographically distant transmission zones of Plasmodium vivax in the Peruvian Amazon: A critical barrier to regional malaria elimination. PLoS Negl. Trop. Dis. 13, e0007876.
- Mantilla, D. C., Tucker, E. L., and Hsieh, S. T. (2019). Kinematics of Specialist and Generalist Lizards Running on Level and Incline Granular Media. in INTEGRATIVE AND COMPARATIVE BIOLOGY, E147--E147.
- Mogurampelly, S., MacDermaid, C. M., Percec, S., Klein, M. L., and Fiorin, G. (2019). Aggregation of poly (p-phenylene terephthalamide) chains: Emergence of fiber defects. Phys. Rev. Mater. 3, 15602.
- Mohseni Ahooyi, T., Torkzaban, B., Shekarabi, M., Tahrir, F. G., Decoppet, E. A., Cotto, B., et al. (2019). Perturbation of synapsins homeostasis through HIV-1 Tat-mediated suppression of BAG3 in primary neuronal cells. Cell death \& Dis. 10, 473.
- Montagnaro, S., Damiano, S., Ciarcia, R., Puzio, M. V., Ferrara, G., Iovane, V., et al. (2019). Caprine herpesvirus 1 (CpHV-1) as a potential candidate for oncolytic virotherapy. Cancer Biol. \& Ther. 20, 42–51.
- Mullin, S. W., Dan, M., Dawson, K., Goffredi, S., Levin, L. A., Rouse, G. W., et al. (2019). Comparing the response of endolithic and sediment microorganisms at a dynamic cold seep on the Costa Rica Pacific Margin. in AGU Fall Meeting Abstracts, OS23C--1788.
- Mutti, L. (2019). Insert: An Overview on Current Clinical Trials. Malig. Pleural Mesothelioma, 143–145.
- Nardone, V., Nanni, S., Pastina, P., Vinciguerra, C., Cerase, A., Correale, P., et al. (2019). Role of perilesional edema and tumor volume in the prognosis of non-small cell lung cancer (NSCLC) undergoing radiosurgery (SRS) for brain metastases. Strahlentherapie und Onkol. 195, 734–744.
- Ning, J., Furness, J. W., Zhang, Y., Thenuwara, A. C., Remsing, R. C., Klein, M. L., et al. (2019). Tunable catalytic activity of cobalt-intercalated layered MnO2 for water oxidation through confinement and local ordering. J. Catal. 374, 143–149.
- Ning, J., Furness, J., Zhang, Y., Thenuwara, A., Remsing, R., Klein, M., et al. (2019). Mechanism of water oxidation catalyzed by cobalt-intercalated layered MnO 2: confinement and intercalant local ordering. in APS March Meeting Abstracts, B47--001.
- Nsonwu-Anyanwu, A. C., Osuoha, U. O., Nsonwu, M. C., and Usoro, C. A. O. (2019). Antimalaria therapy and changes in oxidative stress indices in falciparum malaria infection in Calabar metropolis, Nigeria. Trop. J. Pharm. Res. 18, 2431–2437.
- Nunes, J. L. S., Sousa Costa, M., Rêgo Ribeiro, M. F., Costa, M. S., and Bonfim, M. (2019). Length--weight relationship for freshwater fish species from Brazilian Cerrado. J. Appl. Ichthyol. 35, 1047–1049.
- Orejas, C., Taviani, M., Ambroso, S., Andreou, V., Bilan, M., Bo, M., et al. (2019). 38 Cold-Water Coral in Aquaria: Advances and Challenges. A Focus on the Mediterranean. Mediterr. Cold-Water Corals Past, Present Futur. Underst. Deep. Realms Coral, 435–471.
- Pacheco, M. A., Garc\’\ia-Amado, M. A., Manzano, J., Matta, N. E., and Escalante, A. A. (2019). Blood parasites infecting the Hoatzin (Opisthocomus hoazin), a unique neotropical folivorous bird. PeerJ 7, e6361.
- Pacheco, M. A., Kadakia, E. R., Chaudhary, Z., Perkins, D. J., Kelley, J., Ravishankar, S., et al. (2019). Evolution and genetic diversity of the k13 gene associated with artemisinin delayed parasite clearance in Plasmodium falciparum. Antimicrob. Agents Chemother. 63, e02550--18.
- Pacheco, M. A., Schneider, K. A., Céspedes, N., Herrera, S., Arévalo-Herrera, M., and Escalante, A. A. (2019). Limited differentiation among Plasmodium vivax populations from the northwest and to the south Pacific Coast of Colombia: A malaria corridor? PLoS Negl. Trop. Dis. 13, e0007310.
- Papacostas, K. J., and Freestone, A. L. (2019). Multi-trophic native and non-native prey naïveté shape marine invasion success. PLoS One 14, e0221969.
- Papacostas, K. J., and Freestone, A. L. (2019). Stronger predation in a subtropical community dampens an invasive species-induced trophic cascade. Biol. Invasions 21, 203–215.
- Patel, R., and Kumar, S. (2019). On estimating evolutionary probabilities of population variants. BMC Evol. Biol. 19, 1–14.
- Perrone, A. M., Bovicelli, A., D’Andrilli, G., Borghese, G., Giordano, A., and De Iaco, P. (2019). Cervical cancer in pregnancy: Analysis of the literature and innovative approaches. J. Cell. Physiol. 234, 14975–14990.
- Picardi, M., Della Pepa, R., Giordano, C., Zacheo, I., Pugliese, N., Mortaruolo, C., et al. (2019). Tenofovir vs lamivudine for the prevention of hepatitis B virus reactivation in advanced-stage DLBCL. Blood, J. Am. Soc. Hematol. 133, 498–501.
- Pinho, C., Cardoso, V., and Hey, J. (2019). A population genetic assessment of taxonomic species: the case of Lake Malawi cichlid fishes. Mol. Ecol. Resour. 19, 1164–1180.
- Pizzuti, L., Giordano, A., Michelotti, A., Mazzotta, M., Natoli, C., Gamucci, T., et al. (2019). Palbociclib plus endocrine therapy in HER2 negative, hormonal receptor-positive, advanced breast cancer: A real-world experience. J. Cell. Physiol. 234, 7708–7717.
- Platt, A., Pivirotto, A., Knoblauch, J., and Hey, J. (2019). An estimator of first coalescent time reveals selection on young variants and large heterogeneity in rare allele ages among human populations. PLoS Genet. 15, e1008340.
- Pravin, S., Han, E., Jaeger, H., and Hsieh, S. (2019). Intruder spacing induces particle jamming during intrusion into granular media. in APS March Meeting Abstracts, X58--011.
- Pugliese, N., Leone, A., Vitiello, S., Cappuccio, I., Cimmino, C., Delle Cave, G., et al. (2019). YOUNG MPNS PATIENTS: CLINICAL CHARACTERISTIC AND OUTCOMES. in HAEMATOLOGICA, 124.
- Pugliese, N., Vitiello, S., Leone, A., Piccolo, G., Marafioti, V., Giordano, A., et al. (2019). REVIEW MPNS ACCORDING TO THE 2016 WHO CRITERIA: CLINICAL/LABORATORY PARAMETERS AND OUTCOME. in HAEMATOLOGICA, 76–77.
- Raimondo, M., Viscovo, M., Cimmino, C., Delle Cave, G., Calabro, M., Caprioli, V., et al. (2019). CLINICAL PROFILE OF MULTIPLE MYELOMA PATIENTS WITH LONG TERM SURVIVAL. in HAEMATOLOGICA, 116.
- Rapacciuolo, G., Graham, C. H., Marin, J., Behm, J. E., Costa, G. C., Hedges, S. B., et al. (2019). Species diversity as a surrogate for conservation of phylogenetic and functional diversity in terrestrial vertebrates across the Americas. Nat. Ecol. \& Evol. 3, 53–61.
- Remsing, R. C., and Klein, M. L. (2019). Exponential scaling of water exchange rates with ion interaction strength from the perspective of dynamic facilitation theory. J. Phys. Chem. A 123, 1077–1084.
- Remsing, R. C., and Klein, M. L. (2019). Halogen bond structure and dynamics from molecular simulations. J. Phys. Chem. B 123, 6266–6273.
- Rhee, S.-Y., Clutter, D., Fessel, W. J., Klein, D., Slome, S., Pinsky, B. A., et al. (2019). Trends in the molecular epidemiology and genetic mechanisms of transmitted human immunodeficiency virus type 1 drug resistance in a large US clinic population. Clin. Infect. Dis. 68, 213–221.
- Rhee, S.-Y., Magalis, B. R., Hurley, L., Silverberg, M. J., Marcus, J. L., Slome, S., et al. (2019). National and international dimensions of human immunodeficiency virus-1 sequence clusters in a Northern California clinical cohort. in Open Forum Infectious Diseases, ofz135.
- Rodriguez-Emmenegger, C., Xiao, Q., Kostina, N. Y., Sherman, S. E., Rahimi, K., Partridge, B. E., et al. (2019). Encoding biological recognition in a bicomponent cell-membrane mimic. Proc. Natl. Acad. Sci. 116, 5376–5382.
- Roman, C., Cordes, E. E., and Orphan, V. J. (2019). Mapping the potential far field influence of methane seeps on the water column with the Wire Flyer towed vehicle. in AGU Fall Meeting Abstracts, OS23C--1800.
- Roman, C., Warren, J., Cordes, E., and Seibel, B. A. (2019). Midwater Acoustic Echosounding with the Wire Flyer Towed Profiling Vehicle. Oceanography 32, 126.
- Roose, B. W., Zemerov, S. D., Wang, Y., Kasimova, M. A., Carnevale, V., and Dmochowski, I. J. (2019). A Structural Basis for 129Xe Hyper-CEST Signal in TEM-1 $β$-Lactamase. ChemPhysChem 20, 260–267.
- Rotondo, R., Rizzolio, F., Perin, T., Berretta, M., Zanconati, F., Giordano, A., et al. (2019). Pathological diagnosis and classification of gastric epithelial tumours. Gastric Cancer Precis. Med. Era Diagnosis Ther., 53–82.
- Ruba, A., Luo, W., Kelich, J., and Yang, W. (2019). 3D Microscopy-Independent Approach for Obtaining 3D Super-Resolution Information in Rotationally Symmetric Bio-Structures. Biophys. J. 116, 284a.
- Ruba, A., Luo, W., Kelich, J., Tingey, M., and Yang, W. (2019). 3D tracking-free approach for obtaining 3D super-resolution information in rotationally symmetric biostructures. J. Phys. Chem. B 123, 5107–5120.
- Russo Spena, C., De Stefano, L., Poli, G., Granchi, C., El Boustani, M., Ecca, F., et al. (2019). Virtual screening identifies a PIN1 inhibitor with possible antiovarian cancer effects. J. Cell. Physiol. 234, 15708–15716.
- Russo, A., Novo, G., Lancellotti, P., Giordano, A., Pinto, F. J., and others (2019). Cardiovascular Complications in Cancer Therapy. Springer.
- Sariyer, I. K., Gordon, J., Burdo, T. H., Wollebo, H. S., Gianti, E., Donadoni, M., et al. (2019). Suppression of zika virus infection in the brain by the antiretroviral drug rilpivirine. Mol. Ther. 27, 2067–2079.
- Scalia, P., Pandini, G., Carnevale, V., Giordano, A., and Williams, S. J. (2019). Identification of a novel EphB4 phosphodegron regulated by the autocrine IGFII/IRA axis in malignant mesothelioma. Oncogene 38, 5987–6001.
- Scalia, P., Williams, S. J., and Giordano, A. (2019). Core element cloning, cis-element mapping and serum regulation of the human EphB4 promoter: A novel TATA-less Inr/MTE/DPE-like regulated gene. Genes (Basel). 10, 997.
- Schettini, F., Giuliano, M., Rognoni, C., De Placido, S., Arpino, G., Milani, M., et al. (2019). Abstract P1-16-01: efficacy of endocrine-versus chemotherapy-based treatments in hormone receptor-positive (HR+ ve), HER2-negative (HER2-ve) postmenopausal metastatic breast cancer (mBC): a network meta-analysis (NMA). Cancer Res. 79, P1--16.
- Sferruzza, G., Schwarz, G., Vabanesi, M., Giordano, A., Giacalone, G., Panni, P., et al. (2019). The prognostic value of collaterals vessels status in large vessel ischemic stroke treated within the therapeutic window. in EUROPEAN JOURNAL OF NEUROLOGY, 277.
- Smith, G., Swartz, M. T., and Spigler, R. (2019). The promiscuous partnering of plants and pollinators: Intra-annual variation across high resolution plant-pollinator interaction networks. in 2019 ESA Annual Meeting (August 11--16).
- Soroush, F., Tang, Y., Zaidi, H. M., Sheffield, J. B., and Kiani, M. F. (2019). fj. 201701099 (1). pdf.
- Spielman, S. J., Weaver, S., Shank, S. D., Magalis, B. R., Li, M., and Kosakovsky Pond, S. L. (2019). Evolution of viral genomes: Interplay between selection, recombination, and other forces. Evol. Genomics Stat. Comput. Methods, 427–468.
- Spigler, R. B., and Woodard, A. J. (2019). Context-dependency of resource allocation trade-offs highlights constraints to the evolution of floral longevity in a monocarpic herb. New Phytol. 221, 2298–2307.
- Spigler, R., Smith-Ramesh, L. M., and Kalisz, S. (2019). Persistent pollinators restrict the evolution of complete selfing. in 2019 ESA Annual Meeting (August 11--16).
- Stopar, A., Nicholson, R., Castronovo, M., and Nicholson, A. W. (2019). Expanding RNA-DNA Hybrid Affinity by Multimerization of a Conserved Fold. Biophys. J. 116, 215a.
- Suma, A., Stopar, A., Adedeji, A., Nicholson, A. W., Castronovo, M., and Carnevale, V. (2019). DNA Origami-Protein Interactions and the Role of Steric Hindrance. Biophys. J. 116, 319a.
- Tahrir, F. G., Langford, D., Amini, S., Mohseni Ahooyi, T., and Khalili, K. (2019). Mitochondrial quality control in cardiac cells: Mechanisms and role in cardiac cell injury and disease. J. Cell. Physiol. 234, 8122–8133.
- Tanaka, J., Almonte, C., McDuffie, E., Jones, L., Colussi, D., and Jacobson, M. (2019). Development of a High-Throughput Ca2+ Flux Screening Assay to Monitor Cyclic Nucleotide-Gated Channel Activity and Evaluate Achromatopsia Disease Mutant Channel Function. Biophys. J. 116, 107a--108a.
- Tao, Q., Tamura, K., U. Battistuzzi, F., and Kumar, S. (2019). A machine learning method for detecting autocorrelation of evolutionary rates in large phylogenies. Mol. Biol. Evol. 36, 811–824.
- Tingey, M., Mudumbi, K. C., Schirmer, E. C., and Yang, W. (2019). Casting a wider net: differentiating between inner nuclear envelope and outer nuclear envelope transmembrane proteins. Int. J. Mol. Sci. 20, 5248.
- Tomar, D., Jaña, F., Dong, Z., Quinn III, W. J., Jadiya, P., Breves, S. L., et al. (2019). Blockade of MCU-mediated Ca2+ uptake perturbs lipid metabolism via PP4-dependent AMPK dephosphorylation. Cell Rep. 26, 3709–3725.
- Torkzaban, B., Amini, S., and Khalili, K. (2019). HIV-1 Tat protein perturb lipid homeostasis in neurons through lncRNA U1 (LOC102549805) over-expression. in JOURNAL OF NEUROVIROLOGY, S43--S43.
- Torkzaban, B., Natarajaseenivasan, K., Mohseni Ahooyi, T., Shekarabi, M., Amini, S., Langford, T. D., et al. (2020). The lncRNA LOC102549805 (U1) modulates neurotoxicity of HIV-1 Tat protein. Cell Death Dis. 11, 835.
- Torre, P., Xiao, Q., Buzzacchera, I., Sherman, S. E., Rahimi, K., Kostina, N. Y., et al. (2019). Encapsulation of hydrophobic components in dendrimersomes and decoration of their surface with proteins and nucleic acids. Proc. Natl. Acad. Sci. 116, 15378–15385.
- Valette-Silver, N., Cantelas, F., Beaverson, C., Netburn, A. N., Murphy, J., Elliott, K., et al. (2019). Sponsored Projects. Oceanography 32, 118–127.
- Vella, V., Malaguarnera, R., Nicolosi, M. L., Morrione, A., and Belfiore, A. (2019). Insulin/IGF signaling and discoidin domain receptors: An emerging functional connection. Biochim. Biophys. Acta (BBA)-Molecular Cell Res. 1866, 118522.
- Vella, V., Nicolosi, M. L., Cantafio, P., Massimino, M., Lappano, R., Vigneri, P., et al. (2019). DDR1 regulates thyroid cancer cell differentiation via IGF-2/IR-A autocrine signaling loop. Endocr. Relat. Cancer 26, 197–214.
- Vella, V., Nicolosi, M. L., Giuliano, M., Morrione, A., Malaguarnera, R., and Belfiore, A. (2019). Insulin receptor isoform A modulates metabolic reprogramming of breast cancer cells in response to IGF2 and insulin stimulation. Cells 8, 1017.
- WANG, H., WHITE, M. K., KAMINSKI, R., DARBINIAN, N., AMINI, S., JOHNSON, E. M., et al. (2019). Experimental Studies. Seism. Acoust. Veloc. Reserv. Rocks Vol 1.
- Wang, R., Carnevale, V., Klein, M. L., and Borguet, E. (2019). First-Principles Calculation of Water p K a Using the Newly Developed SCAN Functional. J. Phys. Chem. Lett. 11, 54–59.
- Wang, R., DelloStritto, M., Remsing, R. C., Carnevale, V., Klein, M. L., and Borguet, E. (2019). Sodium halide adsorption and water structure at the $α$-alumina (0001)/water interface. J. Phys. Chem. C 123, 15618–15628.
- Wiese, D., Escalante, A. A., Murphy, H., Henry, K. A., and Gutierrez-Velez, V. H. (2019). Integrating environmental and neighborhood factors in MaxEnt modeling to predict species distributions: A case study of Aedes albopictus in southeastern Pennsylvania. PLoS One 14, e0223821.
- Yadav, V. K., Chakraborty, H., Klein, M. L., Waghmare, U. V, and Rao, C. N. R. (2019). Defect-enriched tunability of electronic and charge-carrier transport characteristics of 2D borocarbonitride (BCN) monolayers from ab initio calculations. Nanoscale 11, 19398–19407.
- Yadavalli, S. S., Xiao, Q., Sherman, S. E., Hasley, W. D., Klein, M. L., Goulian, M., et al. (2019). Bioactive cell-like hybrids from dendrimersomes with a human cell membrane and its components. Proc. Natl. Acad. Sci. 116, 744–752.
- Yan, Y., Maurer-Alcalá, X. X., Knight, R., Kosakovsky Pond, S. L., and Katz, L. A. (2019). Single-cell transcriptomics reveal a correlation between genome architecture and gene family evolution in ciliates. MBio 10, e02524--19.
- Yang, J., Luo, S., Zhou, X., Li, J., Fu, J., Yang, W., et al. (2019). Flexible, tunable, and ultrasensitive capacitive pressure sensor with microconformal graphene electrodes. ACS Appl. Mater. \& interfaces 11, 14997–15006.
- Yarandi, S., Robinson, J., Donadoni, M., Vakili, S., Amini, S., Burdo, T., et al. (2019). Extracellular vesicles carrying HIV Nef may contribute to the development of HIV CNS dysfunction. in JOURNAL OF NEUROVIROLOGY, S46--S46.
- Yazici, A. T., Gianti, E., Kasimova, M. A., Carnevale, V., and Rohacs, T. (2019). Phosphatidylinositol Inhibits TRPV1 via its Vanilloid Binding Site. Biophys. J. 116, 536a.
- Yohe, L. R., Liu, L., Davalos, L. M., and Liberles, D. A. (2019). Protocols for the molecular evolutionary analysis of membrane protein gene duplicates. Comput. methods protein Evol., 49–62.
- Young, M., Rodriguez-Emmenegger, C., Xiao, Q., Kostina, N. Y., Klein, M., and Percec, V. (2019). Diffraction-like methodologies discover encoded biological recognition in bicomponent cell membrane mimics. in ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY.
- Zhao, Y., Yang, W., Tan, Y. J., Li, S., Zeng, X., Liu, Z., et al. (2019). Highly conductive 3D metal-rubber composites for stretchable electronic applications. APL Mater. 7, 31508.