Publications

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Prediction of homoprotein and heteroprotein complexes by protein docking and template-based modeling: A CASP-CAPRI experiment.
Lensink MF, Velankar S, Kryshtafovych A, Huang SY, Schneidman-Duhovny D, Sali A, Segura J, Fernandez-Fuentes N, Viswanath S, Elber R, et al. 2016. Prediction of homoprotein and heteroprotein complexes by protein docking and template-based modeling: A CASP-CAPRI experiment. Proteins 84 Suppl 1: 323-48. DOI: 10.1002/prot.25007
Tobacco mosaic virus-directed reprogramming of auxin/indole acetic acid protein transcriptional responses enhances virus phloem loading.
Collum TD, Padmanabhan MS, Hsieh YC, Culver JN. 2016. Tobacco mosaic virus-directed reprogramming of auxin/indole acetic acid protein transcriptional responses enhances virus phloem loading. Proceedings of the National Academy of Sciences of the United States of America 113(19): E2740-9. DOI: 10.1073/pnas.1524390113
Biodegradable Polyphosphazene Based Peptide-Polymer Hybrids.
Linhardt A, König M, Schöfberger W, Brüggemann O, Andrianov AK, Teasdale I. 2016. Biodegradable Polyphosphazene Based Peptide-Polymer Hybrids. Polymers 8(4): . DOI: 10.3390/polym8040161
Computational Modeling of T Cell Receptor Complexes.
Riley TP, Singh NK, Pierce BG, Weng Z, Baker BM. 2016. Computational Modeling of T Cell Receptor Complexes. Methods in molecular biology (Clifton, N.J.) 1414: 319-40. DOI: 10.1007/978-1-4939-3569-7_19
Computational Reprogramming of T Cell Antigen Receptor Binding Properties.
Riley TP, Singh NK, Pierce BG, Baker BM, Weng Z. 2016. Computational Reprogramming of T Cell Antigen Receptor Binding Properties. Methods in molecular biology (Clifton, N.J.) 1414: 305-18. DOI: 10.1007/978-1-4939-3569-7_18
Evaluation of microbial qPCR workflows using engineered Saccharomyces cerevisiae.
Da Silva SM, Vang LK, Olson ND, Lund SP, Downey AS, Kelman Z, Salit ML, Lin NJ, Morrow JB. 2016. Evaluation of microbial qPCR workflows using engineered Saccharomyces cerevisiae. Biomolecular detection and quantification 7: 27-33. DOI: 10.1016/j.bdq.2016.01.001
Key gp120 Glycans Pose Roadblocks to the Rapid Development of VRC01-Class Antibodies in an HIV-1-Infected Chinese Donor.
Kong L, Ju B, Chen Y, He L, Ren L, Liu J, Hong K, Su B, Wang Z, Ozorowski G, et al. 2016. Key gp120 Glycans Pose Roadblocks to the Rapid Development of VRC01-Class Antibodies in an HIV-1-Infected Chinese Donor. Immunity 44(4): 939-50. DOI: 10.1016/j.immuni.2016.03.006
Quorum Sensing Desynchronization Leads to Bimodality and Patterned Behaviors.
Quan DN, Tsao CY, Wu HC, Bentley WE. 2016. Quorum Sensing Desynchronization Leads to Bimodality and Patterned Behaviors. PLoS computational biology 12(4): e1004781. DOI: 10.1371/journal.pcbi.1004781
Mapping of the Allosteric Site in Cholesterol Hydroxylase CYP46A1 for Efavirenz, a Drug That Stimulates Enzyme Activity.
Anderson KW, Mast N, Hudgens JW, Lin JB, Turko IV, Pikuleva IA. 2016. Mapping of the Allosteric Site in Cholesterol Hydroxylase CYP46A1 for Efavirenz, a Drug That Stimulates Enzyme Activity. The Journal of biological chemistry 291(22): 11876-86. DOI: 10.1074/jbc.M116.723577
Optimization of the Solubility of HIV-1-Neutralizing Antibody 10E8 through Somatic Variation and Structure-Based Design.
Kwon YD, Georgiev IS, Ofek G, Zhang B, Asokan M, Bailer RT, Bao A, Caruso W, Chen X, Choe M, et al. 2016. Optimization of the Solubility of HIV-1-Neutralizing Antibody 10E8 through Somatic Variation and Structure-Based Design. Journal of virology 90(13): 5899-5914. DOI: 10.1128/JVI.03246-15
High-Resolution Longitudinal Study of HIV-1 Env Vaccine-Elicited B Cell Responses to the Virus Primary Receptor Binding Site Reveals Affinity Maturation and Clonal Persistence.
Wang Y, Sundling C, Wilson R, O'Dell S, Chen Y, Dai K, Phad GE, Zhu J, Xiao Y, Mascola JR, et al. 2016. High-Resolution Longitudinal Study of HIV-1 Env Vaccine-Elicited B Cell Responses to the Virus Primary Receptor Binding Site Reveals Affinity Maturation and Clonal Persistence. Journal of immunology (Baltimore, Md. : 1950) 196(9): 3729-43. DOI: 10.4049/jimmunol.1502543
Real-time monitoring of macromolecular biosensing probe self-assembly and on-chip ELISA using impedimetric microsensors.
Zang F, Gerasopoulos K, Fan XZ, Brown AD, Culver JN, Ghodssi R. 2016. Real-time monitoring of macromolecular biosensing probe self-assembly and on-chip ELISA using impedimetric microsensors. Biosensors & bioelectronics 81: 401-407. DOI: 10.1016/j.bios.2016.03.019
Structure-based design of N-substituted 1-hydroxy-4-sulfamoyl-2-naphthoates as selective inhibitors of the Mcl-1 oncoprotein.
Lanning ME, Yu W, Yap JL, Chauhan J, Chen L, Whiting E, Pidugu LS, Atkinson T, Bailey H, Li W, et al. 2016. Structure-based design of N-substituted 1-hydroxy-4-sulfamoyl-2-naphthoates as selective inhibitors of the Mcl-1 oncoprotein. European journal of medicinal chemistry 113: 273-92. DOI: 10.1016/j.ejmech.2016.02.006
A bacteriophage endolysin that eliminates intracellular streptococci.
Shen Y, Barros M, Vennemann T, Gallagher DT, Yin Y, Linden SB, Heselpoth RD, Spencer DJ, Donovan DM, Moult J, et al. 2016. A bacteriophage endolysin that eliminates intracellular streptococci. eLife 5: . DOI: 10.7554/eLife.13152
Quantitative Characterization of Configurational Space Sampled by HIV-1 Nucleocapsid Using Solution NMR, X-ray Scattering and Protein Engineering.
Deshmukh L, Schwieters CD, Grishaev A, Clore GM. 2016. Quantitative Characterization of Configurational Space Sampled by HIV-1 Nucleocapsid Using Solution NMR, X-ray Scattering and Protein Engineering. Chemphyschem : a European journal of chemical physics and physical chemistry 17(11): 1548-52. DOI: 10.1002/cphc.201600212