Pierce, Brian G.

Macromolecular modeling and design in Rosetta: recent methods and frameworks

Leman, J. K., Weitzner, B. D., Lewis, S. M., Adolf-Bryfogle, J., Alam, N., Alford, R. F., Aprahamian, M., Baker, D., Barlow, K. A., Barth, P., et al. (2020) · Nature Methods

Protein Structure and DynamicsComputational Drug Discovery Methods

Cited by 888

Updates to the integrated protein-protein interaction benchmarks: docking benchmark version 5 and affinity benchmark version 2

Vreven, T., Moal, I. H., Vangone, A., Pierce, B. G., Kastritis, P. L., Torchala, M., Chaleil, R., Jiménez-García, B., Bates, P. A., Fernandez-Recio, J., et al. (2015) · Journal of Molecular Biology

Protein Structure and DynamicsComputational Drug Discovery Methods

Cited by 424

Benchmarking AlphaFold for protein complex modeling reveals accuracy determinants

Yin, R., Feng, B. Y., Varshney, A., & Pierce, B. G. (2022) · Protein Science

Protein Structure and DynamicsMachine Learning in Bioinformatics

Cited by 335

Benchmarking AlphaFold for protein complex modeling reveals accuracy determinants

Yin, R., Feng, B. Y., Varshney, A., & Pierce, B. G. (2021) · Protein Science

Protein Structure and DynamicsMachine Learning in Bioinformatics

Cited by 335

Evaluation of AlphaFold antibody–antigen modeling with implications for improving predictive accuracy

Yin, R., & Pierce, B. G. (2024) · Protein Science

Protein Structure and Dynamicsvaccines and immunoinformatics approaches

Cited by 145

Blind prediction of homo- and hetero-protein complexes: the CASP13-CAPRI experiment

Lensink, M. F., Brysbaert, G., Nadzirin, N., Velankar, S., Chaleil, R. A. G., Gerguri, T., Bates, P. A., Laine, E., Carbone, A., Grudinin, S., et al. (2019) · Proteins Structure Function and Bioinformatics

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 122

Cellular origins and genetic landscape of cutaneous gamma delta T cell lymphomas

Daniels, J., Doukas, P. G., Escala, M. E. M., Ringbloom, K. G., Shih, D. J. H., Yang, J., Tegtmeyer, K., Park, J., Thomas, J. J., Selli, M. E., et al. (2020) · Nature Communications

Cutaneous lymphoproliferative disorders researchLymphoma Diagnosis and Treatment

Cited by 105

Preexisting Skin-Resident CD8 and γδ T-cell Circuits Mediate Immune Response in Merkel Cell Carcinoma and Predict Immunotherapy Efficacy

Reinstein, Z. Z., Zhang, Y., Ospina, O. E., Nichols, M. D., Chu, V. A., Pulido, A. D. M., Prieto, K., Nguyen, J. V., Yin, R., Moran Segura, C., et al. (2024) · Cancer Discovery

Polyomavirus and related diseasesCancer Immunotherapy and Biomarkers

Cited by 33

Structural characterization and AlphaFold modeling of human T cell receptor recognition of NRAS cancer neoantigens

Wu, D., Yin, R., Chen, G., Ribeiro-Filho, H. V., Cheung, M., Robbins, P. F., Mariuzza, R. A., & Pierce, B. G. (2024) · Science Advances

vaccines and immunoinformatics approachesT-cell and B-cell Immunology

Cited by 27

Evaluation of Alphafold modeling for elucidation of nanobody-peptide epitope interactions

Sachdev, S., Roy, S., Saha, S., Zhao, G., Kumariya, R., Creemer, B. A., Yin, R., Pierce, B. G., Bewley, C. A., & Cheloha, R. W. (2025) · Journal of Biological Chemistry

Protein Structure and DynamicsMonoclonal and Polyclonal Antibodies Research

Cited by 8

Evaluation of AlphaFold modeling for elucidation of nanobody–peptide epitope interactions

Sachdev, S., Roy, S., Saha, S. J., Zhao, G., Kumariya, R., Creemer, B. A., Yin, R., Pierce, B. G., Bewley, C. A., & Cheloha, R. W. (2025) · Journal of Biological Chemistry

Protein Structure and DynamicsMonoclonal and Polyclonal Antibodies Research

Cited by 8