HLA Completion statistics

Tool stats & trends

Looking to identify usage trends or leading experts?

Protocols

HLA Completion specifications

Information


Unique identifier OMICS_15044
Name HLA Completion
Interface Web user interface
Restrictions to use None
Input data HLA class I (loci A,B,C) typing data, ethnicity.
Output data The completed HLA class I (loci A,B,C) typing data.
Computer skills Basic
Stability No
Maintained No

Maintainer


This tool is not available anymore.

Additional information


A registration is needed to access to tools.

Information


Unique identifier OMICS_15044
Name HLA Completion
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Input data HLA class I (loci A,B,C) typing data, ethnicity.
Output data The completed HLA class I (loci A,B,C) typing data.
Operating system Windows
Computer skills Medium
Version 2.0
Stability No
Maintained No

Versioning


No version available

Maintainer


This tool is not available anymore.

Additional information


A registration is needed to access to tools.

Publication for HLA Completion

HLA Completion citations

 (5)
call_split

Novel HLA class I associations with HIV 1 control in a unique genetically admixed population

2018
Sci Rep
PMCID: 5904102
PMID: 29666450
DOI: 10.1038/s41598-018-23849-7
call_split See protocol

[…] using HLA allele frequency (AF) and linkage disequilibrium (LD) data from the same cohorts. All HLA haplotypes were confirmed using the same published probabilistic method used for the HOMER cohort (HLA Completion web tool, http://boson.research.microsoft.com/hla/). Only 72 (of 6392, 1.12%) missing HLA-A or HLA-C types were imputed due to PCR/sequencing failure at these loci or lack of sample ava […]

call_split

Weaker HLA Footprints on HIV in the Unique and Highly Genetically Admixed Host Population of Mexico

2018
J Virol
PMCID: 5752930
PMID: 29093100
DOI: 10.1128/JVI.01128-17
call_split See protocol

[…] 1G (C*17:01 in the analysis, encompassing C*17:01/C*17:02/C*17:03), and C*04:01:01G (C*04:01 in the analysis, encompassing C*04:01/C*04:09N), among others. All HLA haplotypes were confirmed using the HLA completion web tool (available at http://boson.research.microsoft.com/hla/) (). Additionally, a total of 33 HLA-A or HLA-C types that failed amplification or sequencing were imputed using the same […]

library_books

Identification of Immunogenic Cytotoxic T Lymphocyte Epitopes Containing Drug Resistance Mutations in Antiretroviral Treatment Naïve HIV Infected Individuals

2016
PLoS One
PMCID: 4725752
PMID: 26808823
DOI: 10.1371/journal.pone.0147571

[…] al kits (SeCore A, B and Cw Locus Sequencing Kits, Thermo Fisher Scientific, Waltham, MA). Allele assignments were made with uTYPE v6.0 (Thermo Fisher Scientific). Ambiguities were resolved using the HLA Completion tool available on-line []. […]

call_split

Early immune adaptation in HIV 1 revealed by population level approaches

2014
Retrovirology
PMCID: 4190299
PMID: 25212686
DOI: 10.1186/s12977-014-0064-1
call_split See protocol

[…] I typing was performed using sequence-based methods [] and imputed where necessary to high resolution using a machine learning algorithm ([]; http://research.microsoft.com/en-us/projects/bio/mbt.aspx#HLA-Completion). HIV-1 sequences from cohorts where REBs allow public sequence deposition have been deposited in GenBank: accession numbers are Gag (KJ869442 - KJ869609), Protease-RT (KJ869900 - KJ870 […]

library_books

Genotypic and Functional Impact of HIV 1 Adaptation to Its Host Population during the North American Epidemic

2014
PLoS Genet
PMCID: 3998893
PMID: 24762668
DOI: 10.1371/journal.pgen.1004295

[…] ine learning algorithm trained on a dataset of complete high resolution HLA-A, B and C types from >13,000 individuals with known ethnicity (; http://research.microsoft.com/en-us/projects/bio/mbt.aspx#HLA-Completion) and assigned the highest-probability allele combination. HLA types could not be imputed when data were missing from more than one locus. […]

Citations

Looking to check out a full list of citations?

HLA Completion institution(s)
Microsoft Research, Redmond, WA, USA; Partners AIDS Research Center, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA; SAIC-Frederick, National Cancer Institute, Frederick, MD, USA; Howard Hughes Medical Institute, Frederick, MD, USA; Department of Paediatrics, University of Oxford, Oxford, UK
HLA Completion funding source(s)
This work was supported by the Intramural Research Program of NIH, National Cancer Institute, Center for Cancer Research.

HLA Completion reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review HLA Completion