CanVar

CanVar is an online database that provides open access to germline variant frequency data from the sequenced exomes of cancer patients. It has been developed using the Exome Aggregation Consortium (ExAC) framework and catalogs the exomes of 1,006 familial early-onset colorectal cancer (CRC) patients sequenced at The Institute of Cancer Research. CanVar is expected to host data for additional cancers, providing a resource for others studying cancer predisposition and an example of how the research community can utilize the ExAC framework to share sequencing data.

Topic

Exome sequencing;Oncology;Genetic variation

Detail

  • Operation: Variant calling;Genotyping;Query and retrieval;Exome assembly

  • Software interface: Command-line user interface;Web user interface

  • Language: Javascript;Python

  • License: The MIT licence

  • Cost: Free

  • Version name: -

  • Credit: This work was supported by grant funding from Cancer Research UK (C1298/A8362), the European Union Seventh Framework Programme (FP7/207–2013) under grant 258236, FP7 collaborative project SYSCOL and BLOODWISE (LRF05001). All grants assigned to Richard S Houlston.

  • Input: -

  • Output: -

  • Contact: daniel.chubb@icr.ac.uk

  • Collection: -

  • Maturity: -

Publications

  • CanVar: A resource for sharing germline variation in cancer patients.
  • Chubb D, Broderick P, Dobbins SE, Houlston RS. CanVar: A resource for sharing germline variation in cancer patients. F1000Res. 2016 Dec 5;5:2813. doi: 10.12688/f1000research.10058.1. PMID: 28105316; PMCID: PMC5200944.
  • https://doi.org/10.12688/f1000research.10058.1
  • PMID: 28105316
  • PMC: PMC5200944

Download and documentation

    Currently not available or not maintained.

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