Change-O: a toolkit for analyzing large-scale B cell immunoglobulin repertoire sequencing data

Namita T. Gupta, Jason A. Vander Heiden, Mohamed Uduman, +3

Bioinformatics

pRESTO: a toolkit for processing high-throughput sequencing raw reads of lymphocyte receptor repertoires

Jason A. Vander Heiden, Gur Yaari, Mohamed Uduman, +5

Bioinformatics

Germinal Center B Cell and T Follicular Helper Cell Development Initiates in the Interfollicular Zone

Steven M. Kerfoot, Gur Yaari, Jaymin R. Patel, +4

Immunity

Cell LineageDevelopmental BiologyGerm CellLymphocyte DevelopmentImmune Cell Development +9

B cells populating the multiple sclerosis brain mature in the draining cervical lymph nodes

Joel N. H. Stern, Gur Yaari, Jason A. Vander Heiden, +14

Science Translational Medicine

Quantitative set analysis for gene expression: a method to quantify gene set differential expression including gene-gene correlations

Gur Yaari, Christopher R. Bolen, Juilee Thakar, +1

Nucleic Acids Research

Models of Somatic Hypermutation Targeting and Substitution Based on Synonymous Mutations from High-Throughput Immunoglobulin Sequencing Data

Gur Yaari, Jason A. Vander Heiden, Mohamed Uduman, +8

Frontiers in Immunology

Automated analysis of high-throughput B-cell sequencing data reveals a high frequency of novel immunoglobulin V gene segment alleles

Daniel Gadala-Maria, Gur Yaari, Mohamed Uduman, +1

Proceedings of the National Academy of Sciences

Quantifying selection in high-throughput Immunoglobulin sequencing data sets

Gur Yaari, Mohamed Uduman, Steven H. Kleinstein

Nucleic Acids Research

Antigen-driven SelectionGeneticsImmunologyGenomicsHigh Throughput Sequencing +16

High-resolution antibody dynamics of vaccine-induced immune responses

Uri Laserson, François Vigneault, Daniel Gadala-Maria, +18

Proceedings of the National Academy of Sciences

Hepatitis C virus leaves an epigenetic signature post cure of infection by direct-acting antivirals

Shira Perez, Antony Kaspi, Tom Domovitz, +14

PLoS Genetics

Histone ModificationsHepatologyHepatitis CHepatitis C VirusViral Hepatitis +13