HLA Completion statistics
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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
Additional information
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
Additional information
Publication for HLA Completion
Statistical Resolution of Ambiguous HLA Typing Data
HLA Completion citations
(5)Novel HLA class I associations with HIV 1 control in a unique genetically admixed population
[…] 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 […]
Weaker HLA Footprints on HIV in the Unique and Highly Genetically Admixed Host Population of Mexico
[…] 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 […]
Identification of Immunogenic Cytotoxic T Lymphocyte Epitopes Containing Drug Resistance Mutations in Antiretroviral Treatment Naïve HIV Infected Individuals
[…] 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 []. […]
Early immune adaptation in HIV 1 revealed by population level approaches
[…] 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 […]
Genotypic and Functional Impact of HIV 1 Adaptation to Its Host Population during the North American Epidemic
[…] 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
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