Philip Bradley

Immunology and MicrobiologyBiochemistry, Genetics and Molecular Biology

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

1in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Why this DataRank?

An author's DataRank is the sum of the DataRanks of all 1 indexed paper attributed to them. A prolific author with many moderate-impact papers can outrank one with a single high-impact paper.

Author scores recompute whenever paper DataRanks are refreshed, so this number lags the underlying paper scores by at most one batch run.

Read the full methodology →

Papers

Driven by 34 papers. Top paper: “Advances in protein structure prediction and design”.

Advances in protein structure prediction and design

Nature Reviews Molecular Cell Biology(2019)10.1038/s41580-019-0163-x

N/A

8.3DataRank · unranked

816 citations

Philip Bradley, Brian Kuhlman

Combining genotypes and T cell receptor distributions to infer genetic loci determining V(D)J recombination probabilities

eLife(2022)10.7554/elife.73475

N/A

1.0DataRank · unranked

26 citations

Aisha Souquette, David M Levine, Stefan A Schattgen, E Kaitlynn Allen, Guillermina Kuan +7 more

TCR meta-clonotypes for biomarker discovery with tcrdist3 enabled identification of public, HLA-restricted clusters of SARS-CoV-2 TCRs

eLife(2021)10.7554/elife.68605

N/A

0.803DataRank · unranked

210 citations

Stefan Schattgen, Liel Cohen-Lavi, Jeremy C Crawford, Aisha Souquette, Jessica A Gaevert +5 more

Rosetta3: An Object-Oriented Software Suite for the Simulation and Design of Macromolecules

UNC Libraries(2020)10.17615/8ga2-9t05

N/A

0.752DataRank · unranked

149 citations

Monica Berrondo, Andrew Leaver-Fay, James Thompson, S. I. Cooper, Daniel J. Mandell +27 more

Peptide-binding specificity prediction using fine-tuned protein structure prediction networks

Proceedings of the National Academy of Sciences(2023)10.1073/pnas.2216697120

N/A

0.722DataRank · unranked

122 citations

Justas Dauparas, Minkyung Baek, Mohamad H. Abedi, David Baker, Philip Bradley +1 more

Exploring the role of T cells in Alzheimer's and other neurodegenerative diseases: Emerging therapeutic insights from the T Cells in the Brain symposium

Alzheimer s & Dementia(2025)10.1002/alz.14548

N/A

0.425DataRank · unranked

16 citations

Lawrence J. Stern, Ning Jiang, Dallin Dressman, Philip Bradley, David Klatzmann +14 more

A Sitewise Model of Natural Selection on Individual Antibodies via a Transformer–Encoder

Molecular Biology and Evolution(2025)10.1093/molbev/msaf186

N/A

0.312DataRank · unranked

7 citations

Kevin Sung, Mackenzie M. Johnson, Will Dumm, David Rich, Tyler N. Starr +5 more

Statistical inference reveals the role of length, GC content, and local sequence in V(D)J nucleotide trimming

eLife(2023)10.7554/elife.85145

N/A

0.269DataRank · unranked

5 citations

Noah Simon, Philip Bradley, Frederick A. Matsen, Magdalena L Russell

Neural Network Models for Sequence-Based TCR and HLA Association Prediction

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.05.25.542327

N/A

0.241DataRank · unranked

4 citations

Philip Bradley, Wei Sun, Si Liu

Convergent clonal selection of donor- and recipient-derived CMV-specific T cells in hematopoietic stem cell transplant patients

Proceedings of the National Academy of Sciences(2022)10.1073/pnas.2117031119

N/A

0.241DataRank · unranked

4 citations

Terry Stevens‐Ayers, Florian Mair, Bradley Edmison, Michael Boeckh, Philip Bradley +2 more

Computational design of nanoscale rotational mechanics in de novo protein assemblies

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.11.11.468255

N/A

0.165DataRank · unranked

2 citations

Jesse M. Hansen, Yang Hsia, Neville P. Bethel, YJ. Park, Chunfu Xu +14 more

MR1-restricted T cell clonotypes are associated with ‘resistance’ to M.tuberculosis infection

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.10.12.511825

N/A

0DataRank · unranked

3 citations

Erik D. Layton, Krystle K. Q. Yu, Malisa T. Smith, Melissa S. Aguilar, Shamin Li +8 more

Structure-based prediction of T cell receptor:peptide-MHC interactions

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.08.05.503004

N/A

0DataRank · unranked

2 citations

Philip Bradley

Statistical inference reveals the role of length, breathing, and nucleotide identity in V(D)J nucleotide trimming

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.12.08.519635

N/A

0DataRank · unranked

0 citations

Noah Simon, Philip Bradley, Frederick A. Matsen, Magdalena L Russell

Structure-based prediction of T cell receptor:peptide-MHC interactions

eLife(2023)10.7554/elife.82813

N/A

0DataRank · unranked

173 citations

Philip Bradley

De novo design of knotted tandem repeat proteins

Nature Communications(2023)10.1038/s41467-023-42388-y

N/A

0DataRank · unranked

25 citations

Brittany Takushi, Ryan D. Kibler, Lukas F. Milles, Carolina T. Orozco, Jonathan D. Jones +4 more

MR1-restricted T cell clonotypes are associated with “resistance” to Mycobacterium tuberculosis infection

JCI Insight(2024)10.1172/jci.insight.166505

N/A

0DataRank · unranked

20 citations

Erik D. Layton, Krystle K. Q. Yu, Malisa T. Smith, Melissa S. Aguilar, Shamin Li +10 more

Microbiota dictate T cell clonal selection to augment graft-versus-host disease after stem cell transplantation

Immunity(2024)10.1016/j.immuni.2024.05.018

N/A

0DataRank · unranked

8 citations

Motoko Koyama, Olivia G. Waltner, Simone A. Minnie, Julie R. Boiko, Tamer B. Shabaneh +18 more

Overcoming immune evasion from post-translational modification of a mutant KRAS epitope to achieve TCR-T cell-mediated antitumor activity

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.09.18.612965

N/A

0DataRank · unranked

0 citations

Emily Y. Chen, Taylor Hu, Rachel Perret, Mary E. Chaffee, Tijana Martinov +11 more

Statistical analysis of repertoire data demonstrates the influence of microhomology in V(D)J recombination

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.10.16.618753

N/A

0DataRank · unranked

0 citations

Assya Trofimov, Philip Bradley, Frederick A. Matsen, Magdalena L Russell

T cell receptor specificity landscape revealed through de novo peptide design

Proceedings of the National Academy of Sciences(2025)10.1073/pnas.2504783122

N/A

0DataRank · unranked

12 citations

Michael N. Pun, Anastasia A. Minervina, Philip Bradley, Paul G. Thomas, Armita Nourmohammad +1 more

Diverse modes of T cell receptor sequence convergence define unique functional and cellular phenotypes

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.05.31.657155

N/A

0DataRank · unranked

2 citations

Kasi Vegesana, William D. Hazelton, Anastasia A. Minervina, Sebastiaan Valkiers, Kamil Slowikowski +6 more

Statistical analysis of repertoire data demonstrates the influence of microhomology in V(D)J recombination

Nucleic Acids Research(2025)10.1093/nar/gkaf250

N/A

0DataRank · unranked

0 citations

Assya Trofimov, Philip Bradley, Frederick A. Matsen, Magdalena L Russell

TCR2HLA: calibrated inference of HLA genotypes from TCR repertoires enables identification of immunologically relevant metaclonotypes

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.07.18.665436

N/A

0DataRank · unranked

0 citations

Anastasia A. Minervina, Mikhail V. Pogorelyy, Puneet Rawat, Melanie R. Shapiro, Leeana D. Peters +11 more

Better together: Elements of successful scientific software development in a distributed collaborative community

PLoS Computational Biology(2020)10.1371/journal.pcbi.1007507

N/A

0DataRank · unranked

44 citations

Brian D. Weitzner, P. Douglas Renfrew, Steven M. Lewis, Rocco Moretti, Andrew M. Watkins +20 more

Linking T cell receptor sequence to transcriptional profiles with clonotype neighbor graph analysis (CoNGA)

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.06.04.134536

N/A

0DataRank · unranked

13 citations

Kate Manley, Jeremy Chase Crawford, Aisha Souquette, Álvaro Martínez Barrio, Michael J. T. Stubbington +3 more

TCR meta-clonotypes for biomarker discovery with tcrdist3: identification of public, HLA-restricted SARS-CoV-2 associated TCR features

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.12.24.424260

N/A

0DataRank · unranked

10 citations

Stefan Schattgen, Liel Cohen-Lavi, Jeremy Chase Crawford, Aisha Souquette, Jessica A. Gaevert +5 more

The Rosetta All-Atom Energy Function for Macromolecular Modeling and Design

UNC Libraries(2020)10.17615/6sk2-v510

N/A

0DataRank · unranked

0 citations

Matthew J. O’Meara, Philip Bradley, Maxim V. Shapovalov, Rhiju Das, Hahnbeom Park +15 more

Adding Diverse Noncanonical Backbones to Rosetta: Enabling Peptidomimetic Design

UNC Libraries(2020)10.17615/xrww-m716

N/A

0DataRank · unranked

0 citations

Brooke N. Bullock, Richard Bonneau, Paramjit S. Arora, Kent Kirshenbaum, Timothy W. Craven +14 more

Integrating T cell receptor sequences and transcriptional profiles by clonotype neighbor graph analysis (CoNGA)

Nature Biotechnology(2021)10.1038/s41587-021-00989-2

N/A

0DataRank · unranked

136 citations

Kate Manley, Jeremy Chase Crawford, Aisha Souquette, Álvaro Martínez Barrio, Michael J. T. Stubbington +3 more

Design of functionalised circular tandem repeat proteins with longer repeat topologies and enhanced subunit contact surfaces

Communications Biology(2021)10.1038/s42003-021-02766-y

N/A

0DataRank · unranked

10 citations

Lindsey Doyle, Betty Shen, Mesfin Gewe, Brittany Takushi, Madison Kennedy +5 more

Convergent clonal selection of donor- and recipient-derived CMV-specific T cells in hematopoietic stem cell transplant patients

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.09.14.458942

N/A

0DataRank · unranked

0 citations

Terry Stevens‐Ayers, Florian Mair, Bradley Edmison, Michael Boeckh, Philip Bradley +2 more

Computational design of mechanically coupled axle-rotor protein assemblies

Science(2022)10.1126/science.abm1183

N/A

0DataRank · unranked

56 citations

Jesse M. Hansen, Yang Hsia, Neville P. Bethel, Young‐Jun Park, Chunfu Xu +15 more

Comparing T cell receptor repertoires using optimal transport

PLoS Computational Biology(2022)10.1371/journal.pcbi.1010681

N/A

0DataRank · unranked

9 citations

Stefan Schattgen, Paul G. Thomas, Philip Bradley, Frederick A. Matsen, Branden J Olson