Data Submission and Query

Data Submission Guides for AIRR-seq studies

There are multiple data repositories that accept submission of AIRR-seq datasets. Each provides different capabilities but all comply with the MiAIRR standard.

National Center for Biotechnology Information (NCBI)

VDJServer Community Data Portal

iReceptor Turnkey Repository

Data Submission for Inferred Genes and Alleles

In 2017, The AIRR Community established the Inferred Allele Review Committee (IARC) to evaluate inferred alleles for inclusion in relevant germline databases. IARC has worked, together with colleagues at IMGT and the US National Institutes of Health, to establish a systematic submission and review process. OGRDB was created and designed to support that process, and provide a real-time record of affirmed sequences.

Inferred Immune Receptor Genes

Data Query and Download

Submission of AIRR-seq datasets to public data repositories means that other researchers can query, download and reuse that data for novel analyses.

AIRR Data Commons

These data repositories all implement the AIRR Data Commons (ADC) API programmatic access to query and download AIRR-seq data.

  • iReceptor Public Archive
  • VDJServer Community Data Portal

Querying the AIRR Data Commons

Each of the repositories above can be queried directly using the ADC API <../../adc-api>. In addition, the following tools and platforms implement web based user interfaces that use the ADC API to query repositories in the AIRR Data Commons:

  • iReceptor Gateway <../miairr/ireceptor>

Other Public AIRR-Seq Repositories

There are additional data repositories that provide access to AIRR-seq data but which did not implement the ADC API for programmatic access. Information about some of these repositories are provided in a B-T.CR forum post.

Germline Gene Inference and Usage

  • OGRDB provides a list of alleles affirmed by the AIRR Community’s Inferred Allele Review Committee, together with supporting information.
  • VDJbase provides gene usage information derived from a growing base of AIRR-seq repertoires, including inferred genotypes and haplotypes.