Online registry and support for Immunoglobulin gene sequence interpretation

  • Online support and troubleshooting for interpretation of IGHV sequences
    A review board of experts is available online to discuss general queries on IGHV gene interpretation or analyze actual IGHV sequences that can be difficult to interpret in everyone’s daily activity; to submit queries and/or sequences please go to the » submission form.

  • Collection of problematic cases and database creation
    "Problematic cases" exist that defy a clear-cut classification and include those showing any of the following features:

    • Double in-frame rearrangements

    • Double in-frame rearrangements with discordant mutation status

    • Unmutated in-frame rearrangement coexisting with a mutated out-of-frame rearrangement

    • Unmutated heavy chain rearrangement associated with a mutated light chain rearrangement

    • Single transcribed out-of-frame rearrangements

    • Single transcribed rearrangements carrying stop codons

    • Rearrangements carrying any kind of deletions or insertions/duplications

    • In-frame rearrangements carrying a mutation either at IMGT codon C-104 (end of HFR3) or at W-118 (start of HFR4)

    • Rearrangements without a clearly defined junction

    Though these cases are probably known to anyone working in IGHV analysis in CLL, they are limited in frequency, hampering a meaningful analysis at a single-institution level. Therefore, we propose to collect in a dedicated database all problematic cases in order to reach a significant number of them. Everyone in the CLL community is welcome to participate to this joint effort; to submit problematic IGHV sequences and participate to the project please go to the » submission form

 

Review Board

Chrysoula Belessi, Athens/Greece
Frederic Davi, Paris/France
Paolo Ghia, Milan/Italy
Anastasia Hadzidimitriou, Thessaloniki/Greece
Anton Langerak, Rotterdam/The Netherlands
Fiona Murray, Uppsala/Sweden
Kathy Potter, Southampton/UK
Richard Rosenquist, Uppsala/Sweden
Kostas Stamatopoulos, Thessaloniki/Greece

 

Coordination

Kostas Stamatopoulos,
Richard Rosenquist,

 

Useful Links for Immunoglobulin Genes Analysis

New IMGT/V-Quest search page
Link opens new window http://imgt.cines.fr/IMGT_vquest/share/textes/index.html

The IgBLAST webpage at NCBI
Link opens new window http://www.ncbi.nlm.nih.gov/igblast

VBase/DNAPlot website
Link opens new window  http://vbase.mrc-cpe.cam.ac.uk

The JoinSolver® website
Link opens new window http://joinsolver.niams.nih.gov/index.htm

SoDa Dulci website
Link opens new window https://dulci.org/soda/