Publications

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de novo Fabrication of Dense Collagen Matrices with Patterned Hierarchical Structures for Corneal Stromal Tissue Repair.
Lei M, Hou B, Zhang S, Chang R, Ji Y, Chen K, Sun J, Liu C, Payne GF, Qu X. 2025. de novo Fabrication of Dense Collagen Matrices with Patterned Hierarchical Structures for Corneal Stromal Tissue Repair. Advanced materials (Deerfield Beach, Fla.) : e2502279. DOI: 10.1002/adma.202502279
Top-Down Scoring of Spectral Fitness by Image Analysis for Protein Structure Validation.
Harding BD, DeZonia B, Garg R, Hu Z, Delaglio F, Grant T, Rienstra CM. 2025. Top-Down Scoring of Spectral Fitness by Image Analysis for Protein Structure Validation. bioRxiv : the preprint server for biology : . DOI: 10.1101/2025.05.05.652267
Measuring oxidative stress by the iridium reducing capacity assay (Ir-RCA).
Falk LN, Bentley WE, Kelly DL, Payne GF, Kim E. 2025. Measuring oxidative stress by the iridium reducing capacity assay (Ir-RCA). Advances in redox research 15: . DOI: 10.1016/j.arres.2025.100129
Yersinia pseudotuberculosis growth arrest during type-III secretion system expression is associated with altered ribosomal protein expression and decreased gentamicin susceptibility.
Greene J, Cotten KL, Snyder RA, Huiszoon RC, Chu S, Braza RED, Chapin AA, Stine JM, Bentley WE, Ghodssi R, et al. 2025. Yersinia pseudotuberculosis growth arrest during type-III secretion system expression is associated with altered ribosomal protein expression and decreased gentamicin susceptibility. PLoS pathogens 21(7): e1012548. DOI: 10.1371/journal.ppat.1012548
Qualitative Methods: Centering Patient Voices in Developmental and Behavioral Pediatrics Research.
Underwood Carrasco VI, Culver JN, Junqua J, Zuckerman KE, Martin-Herz SP, Peterson JW. 2025. Qualitative Methods: Centering Patient Voices in Developmental and Behavioral Pediatrics Research. Journal of developmental and behavioral pediatrics : JDBP : . DOI: 10.1097/DBP.0000000000001379
Harnessing computational technologies to facilitate antibody-drug conjugate development.
Croitoru A, Orr AA, MacKerell AD. 2025. Harnessing computational technologies to facilitate antibody-drug conjugate development. Nature chemical biology : . DOI: 10.1038/s41589-025-01950-z
Functional relevance of CASP16 nucleic acid predictions as evaluated by structure providers.
Kretsch RC, Albrecht R, Andersen ES, Chen HA, Chiu W, Das R, Gezelle JG, Hartmann MD, Höbartner C, Hu Y, et al. 2025. Functional relevance of CASP16 nucleic acid predictions as evaluated by structure providers. bioRxiv : the preprint server for biology : . DOI: 10.1101/2025.04.15.649049
Conformational dynamics and multimodal interaction of Paxillin with the focal adhesion targeting domain.
Bhattacharya S, He Y, Chen Y, Mohanty A, Grishaev A, Kulkarni P, Salgia R, Orban J. 2025. Conformational dynamics and multimodal interaction of Paxillin with the focal adhesion targeting domain. Science advances 11(25): eadt9936. DOI: 10.1126/sciadv.adt9936
Advancing Pharmaceutical Security: Noninvasive Detection of Falsified Vaccines and Drugs Using wNMR.
Taraban MB, Briggs KT, Karki P, Grunin L, Yu YB. 2025. Advancing Pharmaceutical Security: Noninvasive Detection of Falsified Vaccines and Drugs Using wNMR. Pharmaceutical research : . DOI: 10.1007/s11095-025-03880-w
Glycoengineering of the hepatitis C virus E2 glycoprotein improves biochemical properties and enhances immunogenicity.
Kulakova L, Li KH, Chiang AWT, Schwoerer MP, Suzuki S, Schoffelen S, Elkholy KH, Chao KL, Shahid S, Kumar B, et al. 2025. Glycoengineering of the hepatitis C virus E2 glycoprotein improves biochemical properties and enhances immunogenicity. NPJ vaccines 10(1): 121. DOI: 10.1038/s41541-025-01161-6
Pore formation by the CDTb component of the Clostridioides difficile binary toxin is Ca2+-dependent.
Abeyawardhane DL, Sevdalis SE, Adipietro KA, Godoy-Ruiz R, Varney KM, Nawaz IF, Spittel AX, Hunter D, Rustandi RR, Silin VI, et al. 2025. Pore formation by the CDTb component of the Clostridioides difficile binary toxin is Ca2+-dependent. Communications biology 8(1): 901. DOI: 10.1038/s42003-025-08343-x
Enhanced Production of HCV E1E2 Subunit Vaccine Candidates via Protein-Protein Interaction Identification in Glycoengineered CHO cells.
Min Wu MY, Rocamora F, Robinson CM, Shin S, Toth EA, Fuerst TR, Maurya S, Lewis NE. 2025. Enhanced Production of HCV E1E2 Subunit Vaccine Candidates via Protein-Protein Interaction Identification in Glycoengineered CHO cells. bioRxiv : the preprint server for biology : . DOI: 10.1101/2025.05.20.655202
Native-like soluble E1E2 glycoprotein heterodimers on self-assembling protein nanoparticles for hepatitis C virus vaccine design.
He L, Lee YZ, Zhang YN, Newby ML, Janus BM, Gonzalez FG, Ward G, DesRoberts C, Hung SH, Giang E, et al. 2025. Native-like soluble E1E2 glycoprotein heterodimers on self-assembling protein nanoparticles for hepatitis C virus vaccine design. bioRxiv : the preprint server for biology : . DOI: 10.1101/2025.05.16.654559
Cryo-EM structures of HCV E2 glycoprotein bound to neutralizing and non-neutralizing antibodies determined using bivalent Fabs as fiducial markers.
Shahid S, Karade SS, Hasan SS, Yin R, Jiang L, Liu Y, Felbinger N, Kulakova L, Toth EA, Keck ZY, et al. 2025. Cryo-EM structures of HCV E2 glycoprotein bound to neutralizing and non-neutralizing antibodies determined using bivalent Fabs as fiducial markers. Communications biology 8(1): 825. DOI: 10.1038/s42003-025-08239-w
Evaluation of Alphafold modeling for elucidation of nanobody-peptide epitope interactions.
Sachdev S, Roy S, Saha SJ, Zhao G, Kumariya R, Creemer BA, Yin R, Pierce BG, Bewley CA, Cheloha RW. 2025. Evaluation of Alphafold modeling for elucidation of nanobody-peptide epitope interactions. The Journal of biological chemistry : 110268. DOI: 10.1016/j.jbc.2025.110268