Sai Pooja Mahajan

Also affiliated with Johns Hopkins Medicine

MedicineBiochemistry, Genetics and Molecular BiologyComputer Science

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 100%percentile

0Author DataRank

Indexed papers

0in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Papers

Driven by 16 papers. Top paper: “Lab-in-the-loop therapeutic antibody design with deep learning”.

Lab-in-the-loop therapeutic antibody design with deep learning

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.02.19.639050

N/A

0.416DataRank · unranked

15 citations

Isidro Hötzel, Samuel D. Stanton, Ryan L. Kelly, Robert G. Alberstein, Emily K. Makowski +68 more

Deep Learning in Protein Structural Modeling and Design

Patterns(2020)10.1016/j.patter.2020.100142

N/A

0DataRank · unranked

227 citations

Sai Pooja Mahajan, Jeremias Sulam, Jeffrey J. Gray, Wenhao Gao

Geometric potentials from deep learning improve prediction of CDR H3 loop structures

Bioinformatics(2020)10.1093/bioinformatics/btaa457

N/A

0DataRank · unranked

83 citations

Carlos Guerra, Sai Pooja Mahajan, Jeremias Sulam, Jeffrey J. Gray, Jeffrey A. Ruffolo

Geometric Potentials from Deep Learning Improve Prediction of CDR H3 Loop Structures

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.02.09.940254

N/A

0DataRank · unranked

8 citations

Carlos Guerra, Sai Pooja Mahajan, Jeremias Sulam, Jeffrey J. Gray, Jeffrey A. Ruffolo

Structural basis for peptide substrate specificities of glycosyltransferase GalNAc-T2

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.06.25.171371

N/A

0DataRank · unranked

1 citations

Yashes Srinivasan, Jason W. Labonte, Matthew P. DeLisa, Jeffrey J. Gray, Sai Pooja Mahajan

Improved antibody structure prediction by deep learning of side chain conformations

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.09.22.461349

N/A

0DataRank · unranked

4 citations

Jeffrey A. Ruffolo, Sai Pooja Mahajan, Jeffrey J. Gray, Deniz Akpinaroglu

Hallucinating structure-conditioned antibody libraries for target-specific binders

Frontiers in Immunology(2022)10.3389/fimmu.2022.999034

N/A

0DataRank · unranked

21 citations

Jeffrey A. Ruffolo, Rahel Frick, Jeffrey J. Gray, Sai Pooja Mahajan

Induced fit with replica exchange improves protein complex structure prediction

PLoS Computational Biology(2022)10.1371/journal.pcbi.1010124

N/A

0DataRank · unranked

16 citations

Sai Pooja Mahajan, Jeffrey J. Gray, Ameya Harmalkar

Simultaneous prediction of antibody backbone and side-chain conformations with deep learning

PLoS ONE(2022)10.1371/journal.pone.0258173

N/A

0DataRank · unranked

16 citations

Jeffrey A. Ruffolo, Sai Pooja Mahajan, Jeffrey J. Gray, Deniz Akpinaroglu

Fast, accurate antibody structure prediction from deep learning on massive set of natural antibodies

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.04.20.488972

N/A

0DataRank · unranked

35 citations

Lee‐Shin Chu, Sai Pooja Mahajan, Jeffrey J. Gray, Jeffrey A. Ruffolo

Hallucinating structure-conditioned antibody libraries for target-specific binders

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.06.06.494991

N/A

0DataRank · unranked

1 citations

Jeffrey A. Ruffolo, Rahel Frick, Jeffrey J. Gray, Sai Pooja Mahajan

Fast, accurate antibody structure prediction from deep learning on massive set of natural antibodies

Nature Communications(2023)10.1038/s41467-023-38063-x

N/A

0DataRank · unranked

317 citations

Lee‐Shin Chu, Sai Pooja Mahajan, Jeffrey J. Gray, Jeffrey A. Ruffolo

Contextual protein and antibody encodings from equivariant graph transformers

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.07.15.549154

N/A

0DataRank · unranked

4 citations

Jeffrey A. Ruffolo, Jeffrey J. Gray, Sai Pooja Mahajan

Discovery of a single-subunit oligosaccharyltransferase that enables glycosylation of full-length IgG antibodies in Escherichia coli

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.08.12.607630

N/A

0DataRank · unranked

1 citations

Thomas C. Donahue, Sai Pooja Mahajan, May N. Taw, Sophia W. Hulbert, Erik J. Bidstrup +11 more

Discovery of a single-subunit oligosaccharyltransferase that enables glycosylation of full-length IgG antibodies in bacteria

Nature Communications(2025)10.1038/s41467-025-61440-7

N/A

0DataRank · unranked

6 citations

Thomas C. Donahue, Sai Pooja Mahajan, May N. Taw, Sophia W. Hulbert, Erik J. Bidstrup +11 more

How well do contextual protein encodings learn structure, function, and evolutionary context?

Cell Systems(2025)10.1016/j.cels.2025.101201

N/A

0DataRank · unranked

0 citations

Fátima A. Dávila-Hernández, Jeffrey A. Ruffolo, Jeffrey J. Gray, Sai Pooja Mahajan