The HLA Allele Cataloguing Project
Project leaders: Faviel Gonzalez, Derek Middleton, Kazutoyo Osoegawa & Medhat Askar
Detailed project description:
In this project participants are invited to submit data of samples of HLA alleles that are novel, classified as rare or with no enough information in the Allele Frequency Net Database (AFND, http://www.allelefrequencies.net). The project has 2 components:
- Submission of data to AFND confirming alleles that fulfil the criteria set above. These data will also be shared with the CWD alleles working group to be considered in generating future CWD alleles are equivalent/alternate lists.
- Submitters of alleles not tested by NGS but otherwise meet the above criteria may be invited to submit DNA samples to be confirmed by NGS based HLA typing in the Baylor University Medical Center Transplant Immunology Lab in Dallas, TX, USA.
Milestones in years:
2019: Submission of sample profiles and other pertinent data and preliminary analysis
2020 (Jan – July): Testing of samples that need confirmatory NGS testing and further analysis
2020 (Aug – Dec): Re-analyze HLA genotypes using organizer defined IPD-IMGT database version
2021: Final analysis and preparation of final report for presenting during the workshop
Patient/sample description (if applicable, details, inclusion/exclusion criteria):
HLA typing results of samples deemed by submitter to meet the project criteria
Data required (number, type of data, inclusion/exclusion criteria):
DNA testing results
Fastq files of samples tested by NGS
Any pertinent information to the subject carrying the allele of interest such as ethnic background, haplotype association determined by a family study
No max or min number of samples required
Samples required (if applicable, number, type of samples, inclusion/exclusion criteria):
If needed 2 ug DNA of high quality suitable for. Long range PCR amplification.
Reagents/additional assays required:
Data infrastructure required:
A database that house the collected typing results and fastq files similar to the database provided by the Stanford group during the 17th IHIW.