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AIRR-C IG Reference...
AIRR-C IG Reference Sets : curated sets of immunoglobulin heavy and light chain germline genes
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- Collins, Andrew M. (författare)
- University of New South Wales
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- Ohlin, Mats (författare)
- Lund University,Lunds universitet,Institutionen för immunteknologi,Institutioner vid LTH,Lunds Tekniska Högskola,LUCC: Lunds universitets cancercentrum,Övriga starka forskningsmiljöer,LTH profilområde: Teknik för hälsa,LTH profilområden,SciLifeLab Site@Lund,Forskargrupper vid Lunds universitet,Department of Immunotechnology,Departments at LTH,Faculty of Engineering, LTH,LUCC: Lund University Cancer Centre,Other Strong Research Environments,LTH Profile Area: Engineering Health,LTH Profile areas,Faculty of Engineering, LTH,Lund University Research Groups
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- Corcoran, Martin (författare)
- Karolinska Institutet,Karolinska Institute
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- Heather, James M. (författare)
- Harvard Medical School,Massachusetts General Hospital
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- Ralph, Duncan (författare)
- Fred Hutchinson Cancer Research Center
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- Law, Mansun (författare)
- Scripps Research Institute
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- Martínez-Barnetche, Jesus (författare)
- National Institute of Public Health, Mexico
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Ye, Jian (författare)
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- Richardson, Eve (författare)
- La Jolla Institute for Allergy and Immunology
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Gibson, William S. (författare)
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Rodriguez, Oscar L. (författare)
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- Peres, Ayelet (författare)
- Bar-Ilan University
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- Yaari, Gur (författare)
- Bar-Ilan University
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Watson, Corey T. (författare)
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- Lees, William D. (författare)
- Birkbeck, University of London,Institute for Systems and Computer Engineering, Technology and Science (INESC TEC)
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(creator_code:org_t)
- 2023
- 2023
- Engelska.
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Ingår i: Frontiers in Immunology. - 1664-3224. ; 14
- Relaterad länk:
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http://dx.doi.org/10... (free)
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https://lup.lub.lu.s...
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https://doi.org/10.3...
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http://kipublication...
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Abstract
Ämnesord
Stäng
- Introduction: Analysis of an individual’s immunoglobulin (IG) gene repertoire requires the use of high-quality germline gene reference sets. When sets only contain alleles supported by strong evidence, AIRR sequencing (AIRR-seq) data analysis is more accurate and studies of the evolution of IG genes, their allelic variants and the expressed immune repertoire is therefore facilitated. Methods: The Adaptive Immune Receptor Repertoire Community (AIRR-C) IG Reference Sets have been developed by including only human IG heavy and light chain alleles that have been confirmed by evidence from multiple high-quality sources. To further improve AIRR-seq analysis, some alleles have been extended to deal with short 3’ or 5’ truncations that can lead them to be overlooked by alignment utilities. To avoid other challenges for analysis programs, exact paralogs (e.g. IGHV1-69*01 and IGHV1-69D*01) are only represented once in each set, though alternative sequence names are noted in accompanying metadata. Results and discussion: The Reference Sets include less than half the previously recognised IG alleles (e.g. just 198 IGHV sequences), and also include a number of novel alleles: 8 IGHV alleles, 2 IGKV alleles and 5 IGLV alleles. Despite their smaller sizes, erroneous calls were eliminated, and excellent coverage was achieved when a set of repertoires comprising over 4 million V(D)J rearrangements from 99 individuals were analyzed using the Sets. The version-tracked AIRR-C IG Reference Sets are freely available at the OGRDB website (https://ogrdb.airr-community.org/germline_sets/Human) and will be regularly updated to include newly observed and previously reported sequences that can be confirmed by new high-quality data.
Ämnesord
- MEDICIN OCH HÄLSOVETENSKAP -- Medicinska och farmaceutiska grundvetenskaper -- Immunologi inom det medicinska området (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Basic Medicine -- Immunology in the medical area (hsv//eng)
Nyckelord
- heavy chain
- IGHD
- IGHJ
- IGHV genes
- immunoglobulin
- light chain
Publikations- och innehållstyp
- art (ämneskategori)
- ref (ämneskategori)
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Till lärosätets databas
- Av författaren/redakt...
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Collins, Andrew ...
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Ohlin, Mats
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Corcoran, Martin
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Heather, James M ...
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Ralph, Duncan
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Law, Mansun
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visa fler...
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Martínez-Barnetc ...
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Ye, Jian
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Richardson, Eve
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Gibson, William ...
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Rodriguez, Oscar ...
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Peres, Ayelet
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Yaari, Gur
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Watson, Corey T.
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Lees, William D.
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visa färre...
- Om ämnet
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- MEDICIN OCH HÄLSOVETENSKAP
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MEDICIN OCH HÄLS ...
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och Medicinska och f ...
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och Immunologi inom ...
- Artiklar i publikationen
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Frontiers in Imm ...
- Av lärosätet
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Lunds universitet
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Karolinska Institutet