We’re pleased to publish the first version of a human IGHC germline set on OGRDB. The set is based on the work of Jana et al., 2025, and contains 105 full-length IGH constant region sequences, derived from long-read genomic sequencing. This work substantially increased the number of published sequences and revealed significant polymorphism and population… Continue reading Human IGHC set released
Explanation of germline set formats
This article gives a brief explanation of the different germline set formats available from OGRDB. Recommended for AIRR-seq Analysis The sets available from the Download pages are tuned for AIRR-seq analysis. In particular, duplicate sequences are removed and sequences inferred from transcripts are extended to their likely full length, as inferred from other alleles of… Continue reading Explanation of germline set formats
New publication
Please read our update article in Nucleic Acids Research to learn about new features in OGRDB and VDJbase, and plans for the future. William D Lees, Ayelet Peres, Vered Klein, Naama Amos, Uddalok Jana, Eric Engelbrecht, Zachary Vanwinkle, Yaniv Malach, Thomas Konstantinovsky, Pazit Polak, Corey T Watson, Gur Yaari, The current landscape of adaptive immune… Continue reading New publication
OGRDB Outage
OGRDB has been down since Saturday 25th October. I am very sorry for the outage, which has been caused by an issue with the Domain Naming System (DNS) record for the site. The issue is under investigation by administrators at the AIRR Community and The Antibody Society. Please be assured that we are doing everything… Continue reading OGRDB Outage
Uploading germline sets to OGRDB
Germline sets, or additional data for existing sets, is provided in two CSV files which are uploaded to the site. This repo documents file formats and the process to follow in creating them. It also provides a number of utilities which are designed to simplify data creation and to check the data before upload.
Contributing germline sets to OGRB
We welcome submissions of germline sets for new species, and new sequences for existing species. Under our overall policy, expressed in the name of the site, contributions must be free for anyone to use. OGRDB is structured to allow individuals or groups to manage the sets that they provide, and we hope that they will… Continue reading Contributing germline sets to OGRB
Gene Tables and Alignments!
This month we’ve added gene tables and alignments to OGRDB. Both can be reached from the Sequences dropdown at the top of every page. Gene Tables list all the sequences in a locus, organised by gene. You can click on the sequence name to see full details of the sequence, including the support we have… Continue reading Gene Tables and Alignments!
Website updated
We have redesigned the front page and added a new help page which brings together all information on how to use OGRDB. Other pages have been restyled to make them simpler and easier to use. We hope you will enjoy the new site. If there are any problems, please let us know by using the… Continue reading Website updated
OGRDB API v2
The OGRDB API has been upgraded to provide new features: This guide describes the new API. The old API is still available for compatibility with existing scripts.
Genomic Data Upgraded
We have added additional annotated human loci, taking the overall total to 867. The new annotations are described in two studies: – Jana et al., “The human immunoglobulin heavy chain constant gene locus is enriched for large complex structural variants and coding polymorphisms that vary in frequency among human populations” (preprint). IGHC is represented in… Continue reading Genomic Data Upgraded