Author

James A. Lederer

Brigham and Women's Hospital

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 1 Genomics· 1 Immunology· 1

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 3 Organism:human· 3 Assay:bulk RNA-seq· 2 Research Focus:differential expression· 2 Approach:experimental assay· 2 Assay:scRNA-seq· 2 Approach:statistical model· 2 Research Focus:benchmarking· 1

Frequent Co-Authors

Deepak A. RaoiD· 3 shared Michael B. BrenneriD· 3 shared Ilya KorsunskyiD· 2 shared Jennifer H. AnolikiD· 2 shared Kamil SlowikowskiiD· 2 shared Laura T. DonliniD· 2 shared Soumya RaychaudhuriiD· 2 shared Vivian P. BykerkiD· 2 shared

Activity by Year

2018-2022 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 39 mutual co-author links

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3 shared papersGenomics

Deepak A. RaoORCID

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Author profile →

3 papers

Recent·Most cited

Cellular deconstruction of inflamed synovium defines diverse inflammatory phenotypes in rheumatoid arthritis

Fan Zhang, Anna Helena Jonsson, Aparna Nathan, Kevin Wei, Nghia Millard, Qian Xiao, María Gutiérrez‐Arcelus, William A. Apruzzese, Gerald F. M. Watts, Dana Weisenfeld, Joyce B. Kang, Laurie Rumker, Joseph Mears, Kamil Slowikowski, Kathryn Weinand, , Zhu Zhu

The paper deconstructs RA synovium using single-cell data to identify six cell type abundance phenotypes associated with distinct inflammatory states.

bioRxiv · Feb 25, 2022 · PreprintGenomics

Mixed Effects Association of Single Cells Identifies an Expanded Th1-Skewed Cytotoxic Effector CD4+ T Cell Subset in Rheumatoid Arthritis

Chamith Y. Fonseka, Deepak A. Rao, Nikola C. Teslovich, Ilya Korsunsky, Susan K. Hannes, Kamil Slowikowski, Michael F. Gurish, Laura T. Donlin, James A. Lederer, Michael E. Weinblatt, Elena M. Massarotti, Jonathan S. Coblyn, Simon M. Helfgott, Derrick J. Todd, Vivian P. Bykerk, , Soumya Raychaudhuri

The paper introduces MASC, a method to identify disease-associated cell subsets in single-cell data, and finds an expanded Th1-skewed cytotoxic CD4+ T cell subset in rheumatoid arthritis.

Science Translational Medicine · Oct 17, 2018Peer-reviewedBioinformatics

A protocol for single-cell transcriptomics from cryopreserved renal tissue and urine for the Accelerating Medicine Partnership (AMP) RA/SLE network

Deepak A. Rao, Celine C. Berthier, Arnon Arazi, Anne Davidson, Yanyan Liu, Edward P. Browne, Thomas M. Eisenhaure, Adam Chicoine, David J. Lieb, Dawn E. Smilek, Patti Tosta, James A. Lederer, Michael B. Brenner, David Hildeman, E. Steve Woodle, , Betty Diamond

This paper establishes a protocol for preserving and analyzing single-cell transcriptomes from cryopreserved renal tissue and urine samples in lupus nephritis studies.

bioRxiv · Mar 5, 2018 · PreprintImmunology