Literature DB >> 23892897

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

Dmitriy A Bolotin, Mikhail Shugay, Ilgar Z Mamedov, Ekaterina V Putintseva, Maria A Turchaninova, Ivan V Zvyagin, Olga V Britanova, Dmitriy M Chudakov.   

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Year:  2013        PMID: 23892897     DOI: 10.1038/nmeth.2555

Source DB:  PubMed          Journal:  Nat Methods        ISSN: 1548-7091            Impact factor:   28.547


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  6 in total

1.  First autologous hematopoietic SCT for ankylosing spondylitis: a case report and clues to understanding the therapy.

Authors:  O V Britanova; A G Bochkova; D B Staroverov; D A Fedorenko; D A Bolotin; I Z Mamedov; M A Turchaninova; E V Putintseva; A A Kotlobay; S Lukyanov; A A Novik; Y B Lebedev; D M Chudakov
Journal:  Bone Marrow Transplant       Date:  2012-03-12       Impact factor: 5.483

2.  Comprehensive assessment of T-cell receptor beta-chain diversity in alphabeta T cells.

Authors:  Harlan S Robins; Paulo V Campregher; Santosh K Srivastava; Abigail Wacher; Cameron J Turtle; Orsalem Kahsai; Stanley R Riddell; Edus H Warren; Christopher S Carlson
Journal:  Blood       Date:  2009-08-25       Impact factor: 22.113

3.  Next generation sequencing for TCR repertoire profiling: platform-specific features and correction algorithms.

Authors:  Dmitry A Bolotin; Ilgar Z Mamedov; Olga V Britanova; Ivan V Zvyagin; Dmitriy Shagin; Svetlana V Ustyugova; Maria A Turchaninova; Sergey Lukyanov; Yury B Lebedev; Dmitriy M Chudakov
Journal:  Eur J Immunol       Date:  2012-09-24       Impact factor: 5.532

4.  Exhaustive T-cell repertoire sequencing of human peripheral blood samples reveals signatures of antigen selection and a directly measured repertoire size of at least 1 million clonotypes.

Authors:  René L Warren; J Douglas Freeman; Thomas Zeng; Gina Choe; Sarah Munro; Richard Moore; John R Webb; Robert A Holt
Journal:  Genome Res       Date:  2011-02-24       Impact factor: 9.043

5.  A mechanism for TCR sharing between T cell subsets and individuals revealed by pyrosequencing.

Authors:  Vanessa Venturi; Máire F Quigley; Hui Yee Greenaway; Pauline C Ng; Zachary S Ende; Tina McIntosh; Tedi E Asher; Jorge R Almeida; Samuel Levy; David A Price; Miles P Davenport; Daniel C Douek
Journal:  J Immunol       Date:  2011-03-07       Impact factor: 5.422

6.  Identification of errors introduced during high throughput sequencing of the T cell receptor repertoire.

Authors:  Phuong Nguyen; Jing Ma; Deqing Pei; Caroline Obert; Cheng Cheng; Terrence L Geiger
Journal:  BMC Genomics       Date:  2011-02-11       Impact factor: 3.969

  6 in total
  95 in total

1.  IMonitor: A Robust Pipeline for TCR and BCR Repertoire Analysis.

Authors:  Wei Zhang; Yuanping Du; Zheng Su; Changxi Wang; Xiaojing Zeng; Ruifang Zhang; Xueyu Hong; Chao Nie; Jinghua Wu; Hongzhi Cao; Xun Xu; Xiao Liu
Journal:  Genetics       Date:  2015-08-21       Impact factor: 4.562

2.  Quantifiable predictive features define epitope-specific T cell receptor repertoires.

Authors:  Pradyot Dash; Andrew J Fiore-Gartland; Tomer Hertz; George C Wang; Shalini Sharma; Aisha Souquette; Jeremy Chase Crawford; E Bridie Clemens; Thi H O Nguyen; Katherine Kedzierska; Nicole L La Gruta; Philip Bradley; Paul G Thomas
Journal:  Nature       Date:  2017-06-21       Impact factor: 49.962

3.  CapTCR-seq: hybrid capture for T-cell receptor repertoire profiling.

Authors:  David T Mulder; Etienne R Mahé; Mark Dowar; Youstina Hanna; Tiantian Li; Linh T Nguyen; Marcus O Butler; Naoto Hirano; Jan Delabie; Pamela S Ohashi; Trevor J Pugh
Journal:  Blood Adv       Date:  2018-12-11

4.  MiXCR: software for comprehensive adaptive immunity profiling.

Authors:  Dmitriy A Bolotin; Stanislav Poslavsky; Igor Mitrophanov; Mikhail Shugay; Ilgar Z Mamedov; Ekaterina V Putintseva; Dmitriy M Chudakov
Journal:  Nat Methods       Date:  2015-05       Impact factor: 28.547

5.  PD-1+CD8+ T cells are clonally expanding effectors in human chronic inflammation.

Authors:  Alessandra Petrelli; Gerdien Mijnheer; David P Hoytema van Konijnenburg; Maria M van der Wal; Barbara Giovannone; Enric Mocholi; Nadia Vazirpanah; Jasper C Broen; Dirkjan Hijnen; Bas Oldenburg; Paul J Coffer; Sebastian J Vastert; Berent J Prakken; Eric Spierings; Aridaman Pandit; Michal Mokry; Femke van Wijk
Journal:  J Clin Invest       Date:  2018-08-02       Impact factor: 14.808

6.  DCLRE1C (ARTEMIS) mutations causing phenotypes ranging from atypical severe combined immunodeficiency to mere antibody deficiency.

Authors:  Timo Volk; Ulrich Pannicke; Ismail Reisli; Alla Bulashevska; Julia Ritter; Andrea Björkman; Alejandro A Schäffer; Manfred Fliegauf; Esra H Sayar; Ulrich Salzer; Paul Fisch; Dietmar Pfeifer; Michela Di Virgilio; Hongzhi Cao; Fang Yang; Karin Zimmermann; Sevgi Keles; Zafer Caliskaner; S Ükrü Güner; Detlev Schindler; Lennart Hammarström; Marta Rizzi; Michael Hummel; Qiang Pan-Hammarström; Klaus Schwarz; Bodo Grimbacher
Journal:  Hum Mol Genet       Date:  2015-10-16       Impact factor: 6.150

7.  Towards error-free profiling of immune repertoires.

Authors:  Mikhail Shugay; Olga V Britanova; Ekaterina M Merzlyak; Maria A Turchaninova; Ilgar Z Mamedov; Timur R Tuganbaev; Dmitriy A Bolotin; Dmitry B Staroverov; Ekaterina V Putintseva; Karla Plevova; Carsten Linnemann; Dmitriy Shagin; Sarka Pospisilova; Sergey Lukyanov; Ton N Schumacher; Dmitriy M Chudakov
Journal:  Nat Methods       Date:  2014-05-04       Impact factor: 28.547

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

Authors:  Ivan V Zvyagin; Mikhail V Pogorelyy; Marina E Ivanova; Ekaterina A Komech; Mikhail Shugay; Dmitry A Bolotin; Andrey A Shelenkov; Alexey A Kurnosov; Dmitriy B Staroverov; Dmitriy M Chudakov; Yuri B Lebedev; Ilgar Z Mamedov
Journal:  Proc Natl Acad Sci U S A       Date:  2014-04-07       Impact factor: 11.205

9.  Proinflammatory Dual Receptor T Cells in Chronic Graft-versus-Host Disease.

Authors:  Amritha Balakrishnan; Nicholas Gloude; Roman Sasik; Edward D Ball; Gerald P Morris
Journal:  Biol Blood Marrow Transplant       Date:  2017-07-24       Impact factor: 5.742

Review 10.  Current status and recent advances of next generation sequencing techniques in immunological repertoire.

Authors:  X-L Hou; L Wang; Y-L Ding; Q Xie; H-Y Diao
Journal:  Genes Immun       Date:  2016-03-10       Impact factor: 2.676

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