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List of works by Mikhail Shugay

A Framework for Annotation of Antigen Specificities in High-Throughput T-Cell Repertoire Sequencing Studies

scientific article published on 26 September 2019

A high-throughput assay for quantitative measurement of PCR errors

scientific article

A mechanism for expansion of regulatory T-cell repertoire and its role in self-tolerance

scientific article published on 25 November 2015

Age-related decrease in TCR repertoire diversity measured with deep and normalized sequence profiling

scientific article published on 07 February 2014

An overview of immunoinformatics approaches and databases linking T cell receptor repertoires to their antigen specificity

scientific article published on 18 November 2019

Antigen receptor repertoire profiling from RNA-seq data.

scientific article published in October 2017

Application of nonsense-mediated primer exclusion (NOPE) for preparation of unique molecular barcoded libraries

scientific article

Benchmarking immunoinformatic tools for the analysis of antibody repertoire sequences

scientific article published on 01 March 2020

Benchmarking of T cell receptor repertoire profiling methods reveals large systematic biases

scientific article published on 07 September 2020

CD4+ T Cells Recognize Conserved Influenza A Epitopes through Shared Patterns of V-Gene Usage and Complementary Biochemical Features

scientific article published on 01 July 2020

CD8+ T cells with characteristic T cell receptor beta motif are detected in blood and expanded in synovial fluid of ankylosing spondylitis patients.

scientific article published on 22 February 2018

Comparative Analysis of B-Cell Receptor Repertoires Induced by Live Yellow Fever Vaccine in Young and Middle-Age Donors

scientific article published on 09 October 2018

Comparative analysis of murine T-cell receptor repertoires.

scientific article

Comprehensive analysis of structural and sequencing data reveals almost unconstrained chain pairing in TCRαβ complex

scientific article published on 12 March 2020

Detecting T cell receptors involved in immune responses from single repertoire snapshots

scientific article published on 13 June 2019

Distinctive properties of identical twins' TCR repertoires revealed by high-throughput sequencing.

scientific article

Diversity in immunogenomics: the value and the challenge

scientific article

Dynamics of Individual T Cell Repertoires: From Cord Blood to Centenarians

scientific article published on 13 May 2016

Exploring the pre-immune landscape of antigen-specific T cells

scientific article published on 25 August 2018

Genomic hallmarks of genes involved in chromosomal translocations in hematological cancer

scientific article

High-quality full-length immunoglobulin profiling with unique molecular barcoding.

scientific article

High-resolution repertoire analysis reveals a major bystander activation of Tfh and Tfr cells

article published in the Proceedings of the National Academy of Sciences of the United States of America

Huge Overlap of Individual TCR Beta Repertoires.

scientific article published on 25 December 2013

LIF, a Novel STAT5-Regulated Gene, Is Aberrantly Expressed in Myeloproliferative Neoplasms

scientific article

MAGERI: Computational pipeline for molecular-barcoded targeted resequencing.

scientific article

MHC-II alleles shape the CDR3 repertoires of conventional and regulatory naïve CD4+ T cells

scientific article published on 01 June 2020

MiTCR: software for T-cell receptor sequencing data analysis.

scientific article

MiXCR: software for comprehensive adaptive immunity profiling.

scientific article published in May 2015

Mother and child T cell receptor repertoires: deep profiling study.

scientific article published on 25 December 2013

Oncofuse: a computational framework for the prediction of the oncogenic potential of gene fusions

scientific article

P2RX7 purinoceptor: a therapeutic target for ameliorating the symptoms of duchenne muscular dystrophy

scientific article (publication date: October 2015)

Pairing of T-cell receptor chains via emulsion PCR.

scientific article

Quantitative profiling of immune repertoires for minor lymphocyte counts using unique molecular identifiers.

scientific article published on 08 May 2015

SARS-CoV-2 Epitopes Are Recognized by a Public and Diverse Repertoire of Human T Cell Receptors

scientific article published on 13 November 2020

SARS-CoV-2 epitopes are recognized by a public and diverse repertoire of human T-cell receptors

scientific article published on 25 May 2020

Sequencing rare T-cell populations

scientific article published on 18 November 2015

Single-cell analysis of glandular T cell receptors in Sjögren's syndrome.

scientific article published on June 2016

T-cell tracking, safety, and effect of low-dose donor memory T-cell infusions after αβ T cell-depleted hematopoietic stem cell transplantation

scientific article published on 17 November 2020

TCR usage, gene expression and function of two distinct FOXP3(+)Treg subsets within CD4(+)CD25(hi) T cells identified by expression of CD39 and CD45RO.

scientific article published on 15 October 2015

The Changing Landscape of Naive T Cell Receptor Repertoire With Human Aging

scientific article published on 24 July 2018

The Interplay between CD27dull and CD27bright B Cells Ensures the Flexibility, Stability, and Resilience of Human B Cell Memory

scientific article published on 01 March 2020

The evidence for increased L1 activity in the site of human adult brain neurogenesis.

scientific article

Towards error-free profiling of immune repertoires.

scientific article published on 04 May 2014

Tracking T-cell immune reconstitution after TCRαβ/CD19-depleted hematopoietic cells transplantation in children.

scientific article published on 4 November 2016

VDJdb in 2019: database extension, new analysis infrastructure and a T-cell receptor motif compendium

scientific article published on 01 January 2020

VDJdb: a curated database of T-cell receptor sequences with known antigen specificity

scientific article published on September 2017

VDJtools: Unifying Post-analysis of T Cell Receptor Repertoires.

scientific article published on 25 November 2015

VDJviz: a versatile browser for immunogenomics data.

scientific article

sumrep: A Summary Statistic Framework for Immune Receptor Repertoire Comparison and Model Validation

scientific article published on 01 November 2019

tcR: an R package for T cell receptor repertoire advanced data analysis.

scientific article

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