CERENKOV

CERENKOV is a tool for the identification of functional noncoding single nucleotide polymorphism (SNP) in loci identified by genome-wide association studies (GWAS). The CERENKOV algorithm uses data-space geometric features and the xgboost classifier.

Topic

Molecular genetics, Genetic variation, DNA polymorphism

Detail

  • Operation: Nucleic acid sequence feature detection, SNP detection

  • Software interface: Command-line interface, R package

  • Language: R

  • License: Apache License 2.0

  • Cost: Free

  • Version name: -

  • Credit: The Medical Research Foundation of Oregon, Oregon State University, the PhRMA Foundation, the National Science Foundation.

  • Input: -

  • Output: -

  • Contact: yaoyao@oregonstate.edu | liuzhen@oregonstate.edu | weiq@oregonstate.edu | stephen.ramsey@oregonstate.edu | yaoyao@oregonstate.edu

  • Collection: -

  • Maturity: -

Publications

  • CERENKOV2: improved detection of functional noncoding SNPs using data-space geometric features.
  • Yao Y, et al. CERENKOV2: improved detection of functional noncoding SNPs using data-space geometric features. CERENKOV2: improved detection of functional noncoding SNPs using data-space geometric features. 2019; 20:63. doi: 10.1186/s12859-019-2637-4
  • https://doi.org/10.1186/s12859-019-2637-4
  • PMID: 30727967
  • PMC: PMC6364436

Download and documentation

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