Marina 1.03 – Identification of Over/under-represented TFBSs given large sets of Promoter-sequences

Marina 1.03

:: DESCRIPTION

Marina is an OS-independent GUI tool for computing TFBS abundance given two sets of promoter sequences. Marina performs such computations by harnessing 7 knowledge-discovery statistical metrics and the hypergeometric distribution so as to infer magnitude of TFBS over-representation. A standardization algorithm known as Iterative Proportional Fitting (IPF) enables “agreement” across these various metrics as to which TFBSs are the most over-represented and which are not.

::DEVELOPER

Parsa Hosseini

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows / Linux / MacOsX
  • Java

:: DOWNLOAD

 Marina

:: MORE INFORMATION

Citation

Plant Methods. 2013 Apr 11;9(1):12. doi: 10.1186/1746-4811-9-12.
Using an ensemble of statistical metrics to quantify large sets of plant transcription factor binding sites.
Hosseini P, Ovcharenko I, Matthews BF.

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