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Diversity in immunogenomics: the value and the challenge.
Peng K, Safonova Y, Shugay M, Popejoy AB, Rodriguez OL, Breden F, Brodin P, Burkhardt AM, Bustamante C, Cao-Lormeau VM, Corcoran MM, Duffy D, Fuentes-Guajardo M, Fujita R, Greiff V, Jönsson VD, Liu X, Quintana-Murci L, Rossetti M, Xie J, Yaari G, Zhang W, Abedalthagafi MS, Adekoya KO, Ahmed RA, Chang WC, Gray C, Nakamura Y, Lees WD, Khatri P, Alachkar H, Scheepers C, Watson CT, Karlsson Hedestam GB, Mangul S. Peng K, et al. Among authors: greiff v. Nat Methods. 2021 Jun;18(6):588-591. doi: 10.1038/s41592-021-01169-5. Nat Methods. 2021. PMID: 34002093 Free PMC article.
Inferred Allelic Variants of Immunoglobulin Receptor Genes: A System for Their Evaluation, Documentation, and Naming.
Ohlin M, Scheepers C, Corcoran M, Lees WD, Busse CE, Bagnara D, Thörnqvist L, Bürckert JP, Jackson KJL, Ralph D, Schramm CA, Marthandan N, Breden F, Scott J, Matsen Iv FA, Greiff V, Yaari G, Kleinstein SH, Christley S, Sherkow JS, Kossida S, Lefranc MP, van Zelm MC, Watson CT, Collins AM. Ohlin M, et al. Among authors: greiff v. Front Immunol. 2019 Mar 18;10:435. doi: 10.3389/fimmu.2019.00435. eCollection 2019. Front Immunol. 2019. PMID: 30936866 Free PMC article. Review.
Editorial: Methods and Applications of Computational Immunology.
Chain B, Greiff V, Textor J, Yaari G. Chain B, et al. Among authors: greiff v. Front Immunol. 2019 Nov 29;10:2818. doi: 10.3389/fimmu.2019.02818. eCollection 2019. Front Immunol. 2019. PMID: 31849986 Free PMC article. No abstract available.
Benchmarking immunoinformatic tools for the analysis of antibody repertoire sequences.
Smakaj E, Babrak L, Ohlin M, Shugay M, Briney B, Tosoni D, Galli C, Grobelsek V, D'Angelo I, Olson B, Reddy S, Greiff V, Trück J, Marquez S, Lees W, Miho E. Smakaj E, et al. Among authors: greiff v. Bioinformatics. 2020 Mar 1;36(6):1731-1739. doi: 10.1093/bioinformatics/btz845. Bioinformatics. 2020. PMID: 31873728 Free PMC article.
The Future of Blood Testing Is the Immunome.
Arnaout RA, Prak ETL, Schwab N, Rubelt F; Adaptive Immune Receptor Repertoire Community. Arnaout RA, et al. Front Immunol. 2021 Mar 15;12:626793. doi: 10.3389/fimmu.2021.626793. eCollection 2021. Front Immunol. 2021. PMID: 33790897 Free PMC article.
Ancestral diversity is limited in published T cell receptor sequencing studies.
Huang YN, Peng K, Popejoy AB, Hu J, Nowicki TS, Gold SM, Quintana-Murci L, Fuentes-Guajardo M, Shugay M, Greiff V, Burkhardt AM, Alachkar H, Mangul S. Huang YN, et al. Among authors: greiff v. Immunity. 2021 Oct 12;54(10):2177-2179. doi: 10.1016/j.immuni.2021.09.015. Immunity. 2021. PMID: 34644550 Free article. No abstract available.
Adaptive Immune Receptor Repertoire (AIRR) Community Guide to Repertoire Analysis.
Marquez S, Babrak L, Greiff V, Hoehn KB, Lees WD, Luning Prak ET, Miho E, Rosenfeld AM, Schramm CA, Stervbo U; AIRR Community. Marquez S, et al. Among authors: greiff v. Methods Mol Biol. 2022;2453:297-316. doi: 10.1007/978-1-0716-2115-8_17. Methods Mol Biol. 2022. PMID: 35622333 Free PMC article.
The immuneML ecosystem for machine learning analysis of adaptive immune receptor repertoires.
Pavlović M, Scheffer L, Motwani K, Kanduri C, Kompova R, Vazov N, Waagan K, Bernal FLM, Costa AA, Corrie B, Akbar R, Al Hajj GS, Balaban G, Brusko TM, Chernigovskaya M, Christley S, Cowell LG, Frank R, Grytten I, Gundersen S, Haff IH, Hovig E, Hsieh PH, Klambauer G, Kuijjer ML, Lund-Andersen C, Martini A, Minotto T, Pensar J, Rand K, Riccardi E, Robert PA, Rocha A, Slabodkin A, Snapkov I, Sollid LM, Titov D, Weber CR, Widrich M, Yaari G, Greiff V, Sandve GK. Pavlović M, et al. Among authors: greiff v. Nat Mach Intell. 2021 Nov;3(11):936-944. doi: 10.1038/s42256-021-00413-z. Epub 2021 Nov 16. Nat Mach Intell. 2021. PMID: 37396030 Free PMC article.
87 results