# CAT - A ChIP Association Tester

About

The ChIP Association Tester is an online bioinformatics tool created by Andy Saurin to test for ChIP colocalisation. You can either check a series of your own ChIP data using webCAT or test colocalisation of your data with modENCODE data using drosoCAT, or ENCODE data using mouseCAT or humanCAT

A working online version is available on Andy's BioTools website : http://www.biotools.fr/CAT

Or you can clone this repository and host it (privately or publicly) on your own server/cluster.

• webCAT

  • Simply enter your own ChIP data (>2 datasets) to test ChIP association
    • Try out webCAT for yourself!

• humanCAT

  • Check colocalisation/association of ENCODE Human ChIP data

    • Add your own hg19 ChIP peaks

  • All ChIP data from Tier 1 and Tier 2 cell types

    • https://genome.ucsc.edu/ENCODE/dataMatrix/encodeChipMatrixHuman.html

  • Ignore ChIP peaks of transcription factors localising to HOT regions is supported through a simple checkbox

    • HOT region data source: http://encodenets.gersteinlab.org/metatracks/HOT_All_merged.tar.gz

  • Try out humanCAT for yourself!

• mouseCAT

  • Check colocalisation/association of ENCODE Mouse ChIP data

    • Add your own mm9 ChIP peaks

  • All ChIP data from all cell and tissue types

    • https://genome.ucsc.edu/ENCODE/dataMatrix/encodeChipMatrixMouse.html

  • Try out mouseCAT for yourself!

• drosoCAT

  • Check colocalisation/association of modENCODE Drosophila melanogaster ChIP data

    • Add your own dm3 ChIP peaks

  • All ChIP data from cell lines and embryos

    • http://data.modencode.org/?Organism=D.%20melanogaster

  • Ignore ChIP peaks of transcription factors localising to HOT regions is supported through a simple checkbox

    • HOT region data source: Data S8 from the manuscript Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE
    • HOT regions used by CAT are defined as those regions showing binding of 8 or more transcription factors

  • Try out drosoCAT for yourself!