Publications

Sulforaphane covalently interacts with the transglutaminase 2 cancer maintenance protein to alter its structure and suppress its activity.
Rorke EA, Adhikary G, Szmacinski H, Lakowicz JR, Weber DJ, Godoy-Ruiz R, Puranik P, Keillor JW, Gates EWJ, Eckert RL, Rorke EA, Adhikary G, Szmacinski H, Lakowicz JR, Weber DJ, Godoy-Ruiz R, Puranik P, Keillor JW, Gates EWJ, Eckert RL. 2022. Sulforaphane covalently interacts with the transglutaminase 2 cancer maintenance protein to alter its structure and suppress its activity. Molecular carcinogenesis 61(1): 19-32. DOI: 10.1002/mc.23356
Physiologically Relevant Free Ca2+ Ion Concentrations Regulate STRA6-Calmodulin Complex Formation via the BP2 Region of STRA6.
Young BD, Varney KM, Wilder PT, Costabile BK, Pozharski E, Cook ME, Godoy-Ruiz R, Clarke OB, Mancia F, Weber DJ, Young BD, Varney KM, Wilder PT, Costabile BK, Pozharski E, Cook ME, Godoy-Ruiz R, Clarke OB, Mancia F, Weber DJ. 2021. Physiologically Relevant Free Ca2+ Ion Concentrations Regulate STRA6-Calmodulin Complex Formation via the BP2 Region of STRA6. Journal of molecular biology 433(22): 167272. DOI: 10.1016/j.jmb.2021.167272
3D-Printed electrochemical sensor-integrated transwell systems.
Ramiah Rajasekaran P, Chapin AA, Quan DN, Herberholz J, Bentley WE, Ghodssi R, Ramiah Rajasekaran P, Chapin AA, Quan DN, Herberholz J, Bentley WE, Ghodssi R. 2020. 3D-Printed electrochemical sensor-integrated transwell systems. Microsystems & nanoengineering 6: 100. DOI: 10.1038/s41378-020-00208-z
Electrochemical measurement of serotonin by Au-CNT electrodes fabricated on microporous cell culture membranes.
Chapin AA, Rajasekaran PR, Quan DN, Hu L, Herberholz J, Bentley WE, Ghodssi R, Chapin AA, Rajasekaran PR, Quan DN, Hu L, Herberholz J, Bentley WE, Ghodssi R. 2020. Electrochemical measurement of serotonin by Au-CNT electrodes fabricated on microporous cell culture membranes. Microsystems & nanoengineering 6: 90. DOI: 10.1038/s41378-020-00184-4
Editorial overview: Bioanalytical tools, techniques, and trailblazers offer insight to drive bioprocess development.
Rosenberg JN, Bentley WE, Betenbaugh MJ, Rosenberg JN, Bentley WE, Betenbaugh MJ. 2021. Editorial overview: Bioanalytical tools, techniques, and trailblazers offer insight to drive bioprocess development. Current opinion in biotechnology 71: iii-vi. DOI: 10.1016/j.copbio.2021.09.001
Target highlights in CASP14: Analysis of models by structure providers.
Alexander LT, Lepore R, Kryshtafovych A, Adamopoulos A, Alahuhta M, Arvin AM, Bomble YJ, Böttcher B, Breyton C, Chiarini V, et al. 2021. Target highlights in CASP14: Analysis of models by structure providers. Proteins 89(12): 1647-1672. DOI: 10.1002/prot.26247
Association of acute psychosocial stress with oxidative stress: Evidence from serum analysis.
Kim E, Zhao Z, Rzasa JR, Glassman M, Bentley WE, Chen S, Kelly DL, Payne GF, Kim E, Zhao Z, Rzasa JR, Glassman M, Bentley WE, Chen S, Kelly DL, Payne GF. 2021. Association of acute psychosocial stress with oxidative stress: Evidence from serum analysis. Redox biology 47: 102138. DOI: 10.1016/j.redox.2021.102138
Critical assessment of methods of protein structure prediction (CASP)-Round XIV.
Kryshtafovych A, Schwede T, Topf M, Fidelis K, Moult J, Kryshtafovych A, Schwede T, Topf M, Fidelis K, Moult J. 2021. Critical assessment of methods of protein structure prediction (CASP)-Round XIV. Proteins 89(12): 1607-1617. DOI: 10.1002/prot.26237
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, 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, 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, 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, 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, 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, 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, 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