Publications

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Structural and energetic profiling of SARS-CoV-2 receptor binding domain antibody recognition and the impact of circulating variants.
Yin R, Guest JD, Taherzadeh G, Gowthaman R, Mittra I, Quackenbush J, Pierce BG. 2021. Structural and energetic profiling of SARS-CoV-2 receptor binding domain antibody recognition and the impact of circulating variants. PLoS computational biology 17(9): e1009380. DOI: 10.1371/journal.pcbi.1009380
Modeling SARS-CoV-2 proteins in the CASP-commons experiment.
Kryshtafovych A, Moult J, Billings WM, Della Corte D, Fidelis K, Kwon S, Olechnovič K, Seok C, Venclovas Č, Won J, et al. 2021. Modeling SARS-CoV-2 proteins in the CASP-commons experiment. Proteins 89(12): 1987-1996. DOI: 10.1002/prot.26231
Quantitative proteomic analysis for evaluating affinity isolation of extracellular vesicles.
Nguyen A, Wang T, Turko IV. 2021. Quantitative proteomic analysis for evaluating affinity isolation of extracellular vesicles. Journal of proteomics 249: 104359. DOI: 10.1016/j.jprot.2021.104359
Prediction of protein assemblies, the next frontier: The CASP14-CAPRI experiment.
Lensink MF, Brysbaert G, Mauri T, Nadzirin N, Velankar S, Chaleil RAG, Clarence T, Bates PA, Kong R, Liu B, et al. 2021. Prediction of protein assemblies, the next frontier: The CASP14-CAPRI experiment. Proteins 89(12): 1800-1823. DOI: 10.1002/prot.26222
The Structural Biology of Eastern Equine Encephalitis Virus, an Emerging Viral Threat.
Hasan SS, Dey D, Singh S, Martin M. 2021. The Structural Biology of Eastern Equine Encephalitis Virus, an Emerging Viral Threat. Pathogens (Basel, Switzerland) 10(8): . DOI: 10.3390/pathogens10080973
Computational models in the service of X-ray and cryo-electron microscopy structure determination.
Kryshtafovych A, Moult J, Albrecht R, Chang GA, Chao K, Fraser A, Greenfield J, Hartmann MD, Herzberg O, Josts I, et al. 2021. Computational models in the service of X-ray and cryo-electron microscopy structure determination. Proteins 89(12): 1633-1646. DOI: 10.1002/prot.26223
Genome Sequence Resource for Erysiphe necator NAFU1, a Grapevine Powdery Mildew Isolate Identified in Shaanxi Province of China.
Zhang X, Mu B, Cui K, Liu M, Ke G, Han Y, Wu Y, Xiao S, Wen YQ. 2021. Genome Sequence Resource for <i>Erysiphe necator</i> NAFU1, a Grapevine Powdery Mildew Isolate Identified in Shaanxi Province of China. Molecular plant-microbe interactions : MPMI : MPMI03210061A. DOI: 10.1094/MPMI-03-21-0061-A
The calcium-binding protein S100B reduces IL6 production in malignant melanoma via inhibition of RSK cellular signaling.
Alasady MJ, Terry AR, Pierce AD, Cavalier MC, Blaha CS, Adipietro KA, Wilder PT, Weber DJ, Hay N. 2021. The calcium-binding protein S100B reduces IL6 production in malignant melanoma via inhibition of RSK cellular signaling. PloS one 16(8): e0256238. DOI: 10.1371/journal.pone.0256238
Ionization and structural properties of mRNA lipid nanoparticles influence expression in intramuscular and intravascular administration.
Carrasco MJ, Alishetty S, Alameh MG, Said H, Wright L, Paige M, Soliman O, Weissman D, Cleveland TE, Grishaev A, et al. 2021. Ionization and structural properties of mRNA lipid nanoparticles influence expression in intramuscular and intravascular administration. Communications biology 4(1): 956. DOI: 10.1038/s42003-021-02441-2
An Extract of Taro (Colocasia esculenta) Mediates Potent Inhibitory Actions on Metastatic and Cancer Stem Cells by Tumor Cell-Autonomous and Immune-Dependent Mechanisms.
Kundu N, Ma X, Hoag S, Wang F, Ibrahim A, Godoy-Ruiz R, Weber DJ, Fulton AM. 2021. An Extract of Taro (<i>Colocasia esculenta</i>) Mediates Potent Inhibitory Actions on Metastatic and Cancer Stem Cells by Tumor Cell-Autonomous and Immune-Dependent Mechanisms. Breast cancer : basic and clinical research 15: 11782234211034937. DOI: 10.1177/11782234211034937
Mediated electrochemistry for redox-based biological targeting: entangling sensing and actuation for maximizing information transfer.
Motabar D, Li J, Payne GF, Bentley WE. 2021. Mediated electrochemistry for redox-based biological targeting: entangling sensing and actuation for maximizing information transfer. Current opinion in biotechnology 71: 137-144. DOI: 10.1016/j.copbio.2021.07.017
Pre-vaccination and early B cell signatures predict antibody response to SARS-CoV-2 mRNA vaccine.
Kardava L, Rachmaninoff N, Lau WW, Buckner CM, Trihemasava K, de Assis FL, Wang W, Zhang X, Wang Y, Chiang CI, et al. 2021. Pre-vaccination and early B cell signatures predict antibody response to SARS-CoV-2 mRNA vaccine. medRxiv : the preprint server for health sciences : . DOI: 10.1101/2021.07.06.21259528
Drug Delivery Systems: A Few Examples of Applications, Drug Cargoes, and Administration Routes.
Muro S. 2021. Drug Delivery Systems: A Few Examples of Applications, Drug Cargoes, and Administration Routes. Current pharmaceutical design 27(17): 1975-1976. DOI: 10.2174/138161282717210524161745
Rapid and accurate estimation of protein-ligand relative binding affinities using site-identification by ligand competitive saturation.
Goel H, Hazel A, Ustach VD, Jo S, Yu W, MacKerell AD. 2021. Rapid and accurate estimation of protein-ligand relative binding affinities using site-identification by ligand competitive saturation. Chemical science 12(25): 8844-8858. DOI: 10.1039/d1sc01781k
A Redox-Based Autoinduction Strategy to Facilitate Expression of 5xCys-Tagged Proteins for Electrobiofabrication.
Wang S, Tsao CY, Motabar D, Li J, Payne GF, Bentley WE. 2021. A Redox-Based Autoinduction Strategy to Facilitate Expression of 5xCys-Tagged Proteins for Electrobiofabrication. Frontiers in microbiology 12: 675729. DOI: 10.3389/fmicb.2021.675729