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Nucleic Acids Res. 2017 Jan 4;45(D1):D860-D864. doi: 10.1093/nar/gkw1050. Epub 2016 Nov 28.

IPD-MHC 2.0: an improved inter-species database for the study of the major histocompatibility complex.

Author information

1
The Pirbright Institute, Pirbright, Woking, Surrey, GU24 0NF, UK.
2
Anthony Nolan Research Institute (ANRI), Royal Free Hospital, London, NW3 2QG, UK.
3
UCL Cancer Institute, Royal Free Campus, London, NW3 2QG, UK.
4
Moredun Research Institute, Pentlands Science Park, Midlothian, EH26 0PZ, UK.
5
Stanford University, Stanford, CA, 94305, USA.
6
Norwegian Veterinary Institute, Oslo, 0454, Norway.
7
University of Cambridge, Cambridge, CB2 1QP, UK.
8
Gift of Life Michigan, Ann Arbor, MI, 48108, USA.
9
Biomedical Primate Research Centre, Rijswijk, 2288 GJ Rijswijk, Netherlands.
10
European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, CB10 1SD, UK.
11
Anthony Nolan Research Institute (ANRI), Royal Free Hospital, London, NW3 2QG, UK steven.marsh@ucl.ac.uk.

Abstract

The IPD-MHC Database project (http://www.ebi.ac.uk/ipd/mhc/) collects and expertly curates sequences of the major histocompatibility complex from non-human species and provides the infrastructure and tools to enable accurate analysis. Since the first release of the database in 2003, IPD-MHC has grown and currently hosts a number of specific sections, with more than 7000 alleles from 70 species, including non-human primates, canines, felines, equids, ovids, suids, bovins, salmonids and murids. These sequences are expertly curated and made publicly available through an open access website. The IPD-MHC Database is a key resource in its field, and this has led to an average of 1500 unique visitors and more than 5000 viewed pages per month. As the database has grown in size and complexity, it has created a number of challenges in maintaining and organizing information, particularly the need to standardize nomenclature and taxonomic classification, while incorporating new allele submissions. Here, we describe the latest database release, the IPD-MHC 2.0 and discuss planned developments. This release incorporates sequence updates and new tools that enhance database queries and improve the submission procedure by utilizing common tools that are able to handle the varied requirements of each MHC-group.

PMID:
27899604
PMCID:
PMC5210539
DOI:
10.1093/nar/gkw1050
[Indexed for MEDLINE]
Free PMC Article

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