Gur Yaari
Associate Professor of PathologyDownloadHi-Res Photo
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Associate Professor of Pathology
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Gur Yaari is an Associate Professor in the Department of Pathology, Yale School of Medicine. He received his B.Sc. degree in physics and math, M.Sc. in high energy physics, and Ph.D. in interdisciplinary physics, all from HUJI. He was a postdoctoral fellow at Yale University, and served as an assistant, associate and full professor at Bar Ilan Univerrsity from 2013 till 2025. His current research interest focuses on the development of computational and statistical tools to process and analyze high-throughput biological data, with a special spotlight on the adaptive immune system.
Last Updated on February 24, 2025.
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Overview
Our lab develops computational and statistical tools to process and analyze high-throughput biological data. The research is multidisciplinary and involves elements from mathematics, statistics, physics, computer science, biology and medicine. Our main focus is studying the adaptive immune system from a system/repertoire perspective. In particular, we are interested in understanding lymphocyte (T and B cells) repertoire dynamics in healthy individuals as well as in illness states such as infections, autoimmune diseases, aging and cancer. We apply advanced molecular biology methods to produce large sequencing data sets of human lymphocyte receptors, and analyze them using dedicated computational pipelines, in order to obtain meaningful biological insights into the adaptive immune system.
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0000-0001-9311-9884- View Lab Website
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Research at a Glance
Yale Co-Authors
Frequent collaborators of Gur Yaari's published research.
Publications Timeline
A big-picture view of Gur Yaari's research output by year.
Steven Kleinstein, PhD
Ayelet Peres
Hailong Meng, PhD
Kevin C O'Connor, PhD
Anita Huttner, MD
Ann Haberman, PhD
109Publications
5,641Citations
Publications
2025
The gremlin in the works: why T cell receptor researchers need to pay more attention to germline reference sequences
Heather J, Peres A, Yaari G, Lees W. The gremlin in the works: why T cell receptor researchers need to pay more attention to germline reference sequences. ImmunoInformatics 2025, 20: 100058. DOI: 10.1016/j.immuno.2025.100058.Peer-Reviewed Original ResearchCitationsAltmetricGermline polymorphisms in the immunoglobulin kappa and lambda loci underpinning antibody light chain repertoire variability
Engelbrecht E, Rodriguez O, Lees W, Vanwinkle Z, Shields K, Schultze S, Gibson W, Smith D, Jana U, Saha S, Peres A, Yaari G, Smith M, Watson C. Germline polymorphisms in the immunoglobulin kappa and lambda loci underpinning antibody light chain repertoire variability. Nature Communications 2025, 16: 11707. PMID: 41315391, PMCID: PMC12753720, DOI: 10.1038/s41467-025-66759-9.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsGenetic co-regulationGenomic locationsLong-read genome sequencingSingle nucleotide variantsAmino acidsLight chain locusIg kappaLight chain transcriptsLight chain genesGenome sequenceIGS polymorphismNucleotide variantsLinkage disequilibriumGenetic dataCoding regionGenetic variationGermline variationLambda locusStructural variantsVariable disease outcomesChain locusPair biasV(D)J recombinationGene allelesGene usageThe current landscape of adaptive immune receptor genomic and repertoire data: OGRDB and VDJbase
Lees W, Peres A, Klein V, Amos N, Jana U, Engelbrecht E, Vanwinkle Z, Malach Y, Konstantinovsky T, Polak P, Watson C, Yaari G. The current landscape of adaptive immune receptor genomic and repertoire data: OGRDB and VDJbase. Nucleic Acids Research 2025, gkaf1094. PMID: 41206474, DOI: 10.1093/nar/gkaf1094.Peer-Reviewed Original ResearchAltmetricnf-core/airrflow: an adaptive immune receptor repertoire analysis workflow employing the Immcantation framework 9075
Gabernet G, Marquez S, Bjornson R, Peltzer A, Meng H, Aron E, Lee N, Jensen C, Ladd D, Polster M, Hanssen F, Heumos S, Yaari G, Kowarik M, Nahnsen S, Kleinstein S. nf-core/airrflow: an adaptive immune receptor repertoire analysis workflow employing the Immcantation framework 9075. The Journal Of Immunology 2025, 214 DOI: 10.1093/jimmun/vkaf283.2527.Peer-Reviewed Original ResearchAdaptive immune receptor repertoire knowledge commons: large-scale knowledge for research and innovation (https://airr-knowledgeorg) 3765
Christley S, Breden F, Burns K, Corrie B, Lees W, Overton J, Peres A, Peters B, Richardson E, Roskin K, Scheffer L, Vita R, Watson C, Yaari G, Cowell L. Adaptive immune receptor repertoire knowledge commons: large-scale knowledge for research and innovation (https://airr-knowledgeorg) 3765. The Journal Of Immunology 2025, 214 DOI: 10.1093/jimmun/vkaf283.1530.Peer-Reviewed Original ResearchThe human IG heavy chain constant gene locus is enriched for large structural variants and coding polymorphisms that vary among human populations
Jana U, Rodriguez O, Lees W, Engelbrecht E, Vanwinkle Z, Peres A, Gibson W, Shields K, Schultze S, Dorgham A, Emery M, Deikus G, Sebra R, Eichler E, Yaari G, Smith M, Watson C. The human IG heavy chain constant gene locus is enriched for large structural variants and coding polymorphisms that vary among human populations. Cell Genomics 2025, 101058. PMID: 41151584, DOI: 10.1016/j.xgen.2025.101058.Peer-Reviewed Original ResearchCitationsAltmetricConceptsSingle-nucleotide variantsStructural variantsIndividuals of diverse ancestryLong-read sequencingNon-synonymous substitutionsHeavy chain constantPotential functional effectsPopulation differentiationEast Asian populationsGenomic diversityFixation indexDiverse ancestryCoding variantsGene locusGermline variationChain constantCoding polymorphismsGenesAsian populationsLociAllele/genotype frequenciesAllelesFunctional effectsHuman populationVariantsBuilding immunoglobulin and T cell receptor gene databases for the future
Watson C, Collins A, Ohlin M, Heather J, Peres A, Lees W, Yaari G. Building immunoglobulin and T cell receptor gene databases for the future. ImmunoInformatics 2025, 19: 100059. DOI: 10.1016/j.immuno.2025.100059.Peer-Reviewed Original ResearchCitationsAltmetricConceptsLong-read genomeAccurate annotationT cell receptorGene databaseExpression dataGermline variationGenetic databasesNomenclatural frameworkClonal relationshipLineage developmentGenomeRepertoire sequencingSomatic hypermutationImmunogenetic researchDiversityAnnotationPopulation diversityRepertoire diversityLineagesGermlineClinical translationSpeciesDiscoverySequenceHypermutationThe Adaptive Immune Receptor Repertoire Knowledge Commons: An invitation to the community
Cowell L, Christley S, Breden F, Burns K, Corrie B, Lees W, Overton J, Peters B, Richardson E, Roskin K, Scheffer L, Vita R, Watson C, Yaari G. The Adaptive Immune Receptor Repertoire Knowledge Commons: An invitation to the community. Cell Systems 2025, 16: 101401. PMID: 40967183, DOI: 10.1016/j.cels.2025.101401.Peer-Reviewed Original ResearchCitationsMeSH Keywords and ConceptsBLIMP1 controls GC B cell expansion and exit through regulating cell cycle progression and key transcription factors BCL6 and IRF4
Conter L, Smita S, Callahan D, Wu S, Brown A, Nickerson K, Elsner R, Meng W, Peres A, Yaari G, Kleinstein S, Luning Prak E, Luo W, Shlomchik M. BLIMP1 controls GC B cell expansion and exit through regulating cell cycle progression and key transcription factors BCL6 and IRF4. Cell Reports 2025, 44: 115977. PMID: 40650910, PMCID: PMC12356087, DOI: 10.1016/j.celrep.2025.115977.Peer-Reviewed Original ResearchCitationsAltmetricMeSH Keywords and ConceptsConceptsCell-intrinsic functionFunction of Blimp1Germinal centersBone marrowB cellsMemory B cell generationCell cycle progressionB cell generationB cell expansionPlasma cell differentiationTranscription factor Bcl6Positive selectionGC B cell expansionChimeric miceAntigen levelsImmune compartmentRegulate cell cycle progressionWild-type cellsClass switchingBlimp1BCL6Cell differentiationTranscription factorsCycle progressionIRF4Enhancing sequence alignment of adaptive immune receptors through multi-task deep learning
. Enhancing sequence alignment of adaptive immune receptors through multi-task deep learning. Nucleic Acids Research 2025, 53: gkaf651. PMID: 40650972, PMCID: PMC12255302, DOI: 10.1093/nar/gkaf651.Peer-Reviewed Original ResearchAltmetric
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