MICMIC

MICMIC is a software package to identify distal DNA regulatory regions' methylation affecting tumor genesis. The MICMIC uses Peter Spirtes and Clark Glymour (PC) algorithm* and includes functions for Mutual information (MI), conditional mutual information (CMI), infer cis-acting methylation network, and visualization.

*Spirtes, P., and C. Glymour. 1991. An algorithm for fast recovery of sparse causal graphs . Social Science Computer Review 9 (1):62–72. doi:10.1177/089443939100900106.

Topic

DNA;Pathology;Oncology;Sequence sites, features and motifs

Detail

  • Operation: Methylation analysis

  • Software interface: Command-line user interface

  • Language: R

  • License: Creative Commons - Attribution 4.0 (CC-BY-4.0)

  • Cost: Free

  • Version name: 0.99.6

  • Credit: Research Grants Council of Hong Kong, General Research Fund and Theme-based Research Scheme.

  • Input: -

  • Output: -

  • Contact: Y.Tong tongyin9002@gmail.com

  • Collection: -

  • Maturity: -

Publications

  • MICMIC: identification of DNA methylation of distal regulatory regions with causal effects on tumorigenesis.
  • Tong Y, Sun J, Wong CF, Kang Q, Ru B, Wong CN, Chan AS, Leung SY, Zhang J. MICMIC: identification of DNA methylation of distal regulatory regions with causal effects on tumorigenesis. Genome Biol. 2018 Jun 5;19(1):73. doi: 10.1186/s13059-018-1442-0. PMID: 29871649; PMCID: PMC5989391.
  • https://doi.org/10.1186/s13059-018-1442-0
  • PMID: 29871649
  • PMC: PMC5989391

Download and documentation

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