HATK: HLA analysis toolkit

SUMMARY: Fine-mapping human leukocyte antigen (HLA) genes involved in disease susceptibility to individual alleles or amino acid residues has been challenging. Using information regarding HLA alleles obtained from HLA typing, HLA imputation or HLA inference, our software expands the alleles to amino...

Descripción completa

Detalles Bibliográficos
Autores principales: Choi, Wanson, Luo, Yang, Raychaudhuri, Soumya, Han, Buhm
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2020
Materias:
Applications Notes
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8058762/
https://www.ncbi.nlm.nih.gov/pubmed/32735319
http://dx.doi.org/10.1093/bioinformatics/btaa684
_version_ 1783681076153024512
author Choi, Wanson
Luo, Yang
Raychaudhuri, Soumya
Han, Buhm
author_facet Choi, Wanson
Luo, Yang
Raychaudhuri, Soumya
Han, Buhm
author_sort Choi, Wanson
collection PubMed
description SUMMARY: Fine-mapping human leukocyte antigen (HLA) genes involved in disease susceptibility to individual alleles or amino acid residues has been challenging. Using information regarding HLA alleles obtained from HLA typing, HLA imputation or HLA inference, our software expands the alleles to amino acid sequences using the most recent IMGT/HLA database and prepares a dataset suitable for fine-mapping analysis. Our software also provides useful functionalities, such as various association tests, visualization tools and nomenclature conversion. AVAILABILITY AND IMPLEMENTATION: https://github.com/WansonChoi/HATK.
format Online
Article
Text
id pubmed-8058762
institution National Center for Biotechnology Information
language English
publishDate 2020
publisher Oxford University Press
record_format MEDLINE/PubMed
spelling pubmed-80587622021-04-28 HATK: HLA analysis toolkit Choi, Wanson Luo, Yang Raychaudhuri, Soumya Han, Buhm Bioinformatics Applications Notes SUMMARY: Fine-mapping human leukocyte antigen (HLA) genes involved in disease susceptibility to individual alleles or amino acid residues has been challenging. Using information regarding HLA alleles obtained from HLA typing, HLA imputation or HLA inference, our software expands the alleles to amino acid sequences using the most recent IMGT/HLA database and prepares a dataset suitable for fine-mapping analysis. Our software also provides useful functionalities, such as various association tests, visualization tools and nomenclature conversion. AVAILABILITY AND IMPLEMENTATION: https://github.com/WansonChoi/HATK. Oxford University Press 2020-07-31 /pmc/articles/PMC8058762/ /pubmed/32735319 http://dx.doi.org/10.1093/bioinformatics/btaa684 Text en © The Author(s) 2020. Published by Oxford University Press. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/ (https://creativecommons.org/licenses/by-nc/4.0/) ), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Applications Notes
Choi, Wanson
Luo, Yang
Raychaudhuri, Soumya
Han, Buhm
HATK: HLA analysis toolkit
title HATK: HLA analysis toolkit
title_full HATK: HLA analysis toolkit
title_fullStr HATK: HLA analysis toolkit
title_full_unstemmed HATK: HLA analysis toolkit
title_short HATK: HLA analysis toolkit
title_sort hatk: hla analysis toolkit
topic Applications Notes
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8058762/
https://www.ncbi.nlm.nih.gov/pubmed/32735319
http://dx.doi.org/10.1093/bioinformatics/btaa684
work_keys_str_mv AT choiwanson hatkhlaanalysistoolkit
AT luoyang hatkhlaanalysistoolkit
AT raychaudhurisoumya hatkhlaanalysistoolkit
AT hanbuhm hatkhlaanalysistoolkit

Ejemplares similares