Author

Colby J. Agostino

The Wistar InstituteORCID 0000-0002-1864-1848Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Approach:experimental assay· 2 Research Focus:host-pathogen & immune response· 2 Assay:proteomics· 2 Research Focus:drug response / drug discovery· 1 Organism:human· 1 Approach:machine learning (classical)· 1 Organism:plant (other)· 1

Frequent Co-Authors

Daniel W. KulpiD· 3 shared Amber KimiD· 2 shared Ashwin N. SkellyiD· 2 shared Beatrice H. HahniD· 2 shared George M. ShawiD· 2 shared Jesper PalleseniD· 2 shared John W. CareyiD· 2 shared Kasirajan AyyanathaniD· 2 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersImmunology

Daniel W. KulpORCID

Mutual co-authors in cluster

Author profile →

3 papers

Recent·Most cited

Deep Mining of the Human Antibody Repertoire Identifies Frequent and Genetically Diverse CDRH3 Topologies Targetable by Vaccination

Rumi Habib, Shahlo O. Solieva, Zi Jie Lin, Sukanya Ghosh, Kelly Bayruns, Maya Singh, Colby J. Agostino, Nicholas J. Tursi, Kirsten J. Sowers, Jinwei Huang, Ryan S. Roark, Mansi Purwar, Younghoon Park, Kasirajan Ayyanathan, Hui Li, , Daniel W. Kulp

The paper identifies frequent and genetically diverse CDRH3 topologies in the human antibody repertoire that can be targeted by vaccination to elicit broadly neutralizing antibodies.

Proceedings of the National Academy of Sciences · Apr 29, 2026Peer-reviewedImmunology

Machine learning enables de novo multi-epitope design of plasmodium falciparum circumsporozoite protein to target trimeric L9 antibody

Andrew Nelson, Samuel E. Garfinkle, Zi Jie Lin, Joyce H. Park, Amber Kim, Kelly Bayruns, Madison E. McCanna, Kylie M. Konrath, Colby J. Agostino, Daniel W. Kulp, Audrey R. Odom John, Jesper Pallesen

The paper designs a multi-epitope immunogen for malaria using machine learning, demonstrating its ability to bind and orient three copies of the L9 antibody.

Proceedings of the National Academy of Sciences · Dec 3, 2025Peer-reviewedBiophysics

Env-antibody coevolution identifies B cell priming as the principal bottleneck to HIV-1 V2 apex broadly neutralizing antibody development

Rumi Habib, Ryan S. Roark, Hui Li, Andrew Jesse Connell, Michael P. Hogarty, Kshitij Wagh, Shuyi Wang, Lorie Marchitto, Ashwin N. Skelly, John W. Carey, Kirsten J. Sowers, Kasirajan Ayyanathan, Samantha J. Plante, Frédéric Bibollet‐Ruche, Young-Hoon Park, , George M. Shaw

The paper identifies B cell priming as the main obstacle to developing HIV-1 V2 apex broadly neutralizing antibodies in SHIV-infected macaques.

bioRxiv · May 3, 2025 · PreprintImmunology