HLA Completion statistics

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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

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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

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Publication for HLA Completion

HLA Completion in publications

 (5)
PMCID: 5904102
PMID: 29666450
DOI: 10.1038/s41598-018-23849-7

[…] 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 […]

PMCID: 5752930
PMID: 29093100
DOI: 10.1128/JVI.01128-17

[…] (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 […]

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

[…] 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 []., we performed mann-whitney u tests (stata/se v12, statacorp, college station, tx) to look for associations between the presence/absence of all hla class […]

PMCID: 4190299
PMID: 25212686
DOI: 10.1186/s12977-014-0064-1

[…] 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 - […]

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

[…] 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., gag and nef sequences were annotated […]


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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.

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