• Register
X
Forgot Password

If you have forgotten your password you can enter your email here and get a temporary password sent to your email.

X

Leaving Community

Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.

No
Yes

SomaticSniper: identification of somatic point mutations in whole genome sequencing data.

MOTIVATION: The sequencing of tumors and their matched normals is frequently used to study the genetic composition of cancer. Despite this fact, there remains a dearth of available software tools designed to compare sequences in pairs of samples and identify sites that are likely to be unique to one sample. RESULTS: In this article, we describe the mathematical basis of our SomaticSniper software for comparing tumor and normal pairs. We estimate its sensitivity and precision, and present several common sources of error resulting in miscalls. AVAILABILITY AND IMPLEMENTATION: Binaries are freely available for download at http://gmt.genome.wustl.edu/somatic-sniper/current/, implemented in C and supported on Linux and Mac OS X. CONTACT: delarson@wustl.edu; lding@wustl.edu SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

Pubmed ID: 22155872

Authors

  • Larson DE
  • Harris CC
  • Chen K
  • Koboldt DC
  • Abbott TE
  • Dooling DJ
  • Ley TJ
  • Mardis ER
  • Wilson RK
  • Ding L

Journal

Bioinformatics (Oxford, England)

Publication Data

February 1, 2012

Associated Grants

  • Agency: NHGRI NIH HHS, Id: HG003079
  • Agency: NCI NIH HHS, Id: P01 CA101937

Mesh Terms

  • Genome, Human
  • Humans
  • Neoplasms
  • Point Mutation
  • Polymorphism, Single Nucleotide
  • Software