VDJPipe: a pipelined tool for pre-processing immune repertoire sequencing data

by Scott Christley, Mikhail K. Levin, Inimary T. Toby, John M. Fonner, Nancy L. Monson, William H. Rounds, Florian Rubelt, Walter Scarborough, Richard H. Scheuermann, Lindsay G. Cowell
Published 2017-10-01

Clustering based approach for population level identification of condition-associated T-cell receptor β-chain CDR3 sequences

by Dawit A. Yohannes, Katri Kaukinen, Kalle Kurppa, Päivi Saavalainen, Dario Greco
Published 2021-03-01

The ADC API: A Web API for the Programmatic Query of the AIRR Data Commons

by Scott Christley, Ademar Aguiar, Ademar Aguiar, George Blanck, Felix Breden, Syed Ahmad Chan Bukhari, Christian E. Busse, Jerome Jaglale, Srilakshmy L. Harikrishnan, Uri Laserson, Bjoern Peters, Bjoern Peters, Artur Rocha, Chaim A. Schramm, Sarah Taylor, Jason Anthony Vander Heiden, Bojan Zimonja, Corey T. Watson, Brian Corrie, Lindsay G. Cowell
Published 2020-06-01

Immune repertoire fingerprinting by principal component analysis reveals shared features in subject groups with common exposures

by Alexander M. Sevy, Cinque Soto, Robin G. Bombardi, Jens Meiler, James E. Crowe
Published 2019-12-01

Detection of Enriched T Cell Epitope Specificity in Full T Cell Receptor Sequence Repertoires

by Sofie Gielis, Sofie Gielis, Sofie Gielis, Pieter Moris, Pieter Moris, Wout Bittremieux, Wout Bittremieux, Wout Bittremieux, Nicolas De Neuter, Nicolas De Neuter, Nicolas De Neuter, Benson Ogunjimi, Benson Ogunjimi, Benson Ogunjimi, Benson Ogunjimi, Kris Laukens, Kris Laukens, Kris Laukens, Pieter Meysman, Pieter Meysman, Pieter Meysman
Published 2019-11-01

ImmuneDB, a Novel Tool for the Analysis, Storage, and Dissemination of Immune Repertoire Sequencing Data

by Aaron M. Rosenfeld, Wenzhao Meng, Eline T. Luning Prak, Uri Hershberg, Uri Hershberg, Uri Hershberg
Published 2018-09-01

Quantitative Characterization of the T Cell Receptor Repertoire of Naïve and Memory Subsets Using an Integrated Experimental and Computational Pipeline Which Is Robust, Economical,...

by Theres Oakes, James M. Heather, Katharine Best, Rachel Byng-Maddick, Connor Husovsky, Mazlina Ismail, Kroopa Joshi, Gavin Maxwell, Mahdad Noursadeghi, Natalie Riddell, Tabea Ruehl, Carolin T. Turner, Imran Uddin, Benny Chain
Published 2017-10-01

Addressing intrinsic challenges for next generation sequencing of immunoglobulin repertoires.

by Chrysostomou, Constantine
Published 2015

TCRMatch: Predicting T-Cell Receptor Specificity Based on Sequence Similarity to Previously Characterized Receptors

by William D. Chronister, Austin Crinklaw, Swapnil Mahajan, Randi Vita, Zeynep Koşaloğlu-Yalçın, Zhen Yan, Jason A. Greenbaum, Leon E. Jessen, Morten Nielsen, Morten Nielsen, Scott Christley, Lindsay G. Cowell, Alessandro Sette, Alessandro Sette, Bjoern Peters, Bjoern Peters
Published 2021-03-01

TCR Convergence in Individuals Treated With Immune Checkpoint Inhibition for Cancer

by Timothy John Looney, Denise Topacio-Hall, Geoffrey Lowman, Jeffrey Conroy, Jeffrey Conroy, Carl Morrison, Carl Morrison, David Oh, Lawrence Fong, Li Zhang
Published 2020-01-01

Combined Influence of B-Cell Receptor Rearrangement and Somatic Hypermutation on B-Cell Class-Switch Fate in Health and in Chronic Lymphocytic Leukemia

by Velislava N. Petrova, Luke Muir, Paul F. McKay, George S. Vassiliou, Kenneth G. C. Smith, Paul A. Lyons, Colin A. Russell, Carl A. Anderson, Paul Kellam, Rachael J. M. Bashford-Rogers
Published 2018-08-01

Can We Improve Vaccine Efficacy by Targeting T and B Cell Repertoire Convergence?

by Katja Fink
Published 2019-02-01

Machine Learning Detects Anti-DENV Signatures in Antibody Repertoire Sequences

by Alexander Horst, Erand Smakaj, Eriberto Noel Natali, Deniz Tosoni, Lmar Marie Babrak, Patrick Meier, Enkelejda Miho, Enkelejda Miho, Enkelejda Miho
Published 2021-10-01

Contribution of T Cell Receptor Alpha and Beta CDR3, MHC Typing, V and J Genes to Peptide Binding Prediction

by Ido Springer, Nili Tickotsky, Yoram Louzoun
Published 2021-04-01

Prediction of Specific TCR-Peptide Binding From Large Dictionaries of TCR-Peptide Pairs

by Ido Springer, Hanan Besser, Nili Tickotsky-Moskovitz, Shirit Dvorkin, Yoram Louzoun
Published 2020-08-01

Dataset of antibody variable region sequence features inferred from a respiratory syncytial virus fusion protein-specific B cell receptor repertoire induced by natural infection of...

by Gerald Schneikart, Simona Tavarini, Chiara Sammicheli, Giulia Torricelli, Silvia Guidotti, Ugo D'Oro, Oretta Finco, Monia Bardelli
Published 2020-12-01

Validation of a Combined Transcriptome and T Cell Receptor Alpha/Beta (TRA/TRB) Repertoire Assay at the Single Cell Level for Paucicellular Samples

by Nicolle H. R. Litjens, Anton W. Langerak, Amy C. J. van der List, Mariska Klepper, Maaike de Bie, Zakia Azmani, Zakia Azmani, Alexander T. den Dekker, Alexander T. den Dekker, Rutger W. W. Brouwer, Rutger W. W. Brouwer, Michiel G. H. Betjes, Wilfred F. J. Van IJcken, Wilfred F. J. Van IJcken
Published 2020-08-01