Comparison between two datasets


ChIPseek allows user to compare two sets of peaks.
In section of "ENCODE", user can also compare:
  • 1) Uploaded dataset with transcription factor binding sites
  • 2) Filtered dataset with transcription factor binding sites
There is a total of 161 different transcript factors included in ChIPseek. These transcription factor binding sites are downloaded from the ENCODE project and is generated from hundreds of ChIP-Seq experiments.

In the section of "User's data", user can compare:
  • 1) Two sets of uploaded datasets
  • 2) Uploaded dataset with filtered dataset
  • 3) Two sets of filtered datasets


Comparison of two datasets

The output of two dataset comparison includes a Venn diagram, unique peaks in each dataset (i.e. dataset A unique and dataset B unique) and overlapped peaks. All these unique and overlapping peaks can be downloaded in the text format. For these overlapped peak pairs, the relative position of the two peaks is also indicated in the table. Meanwhile, ChIPseek also provides links to UCSC genome browser showing the region of interested peak.

*Currently, comparison between the datasets and ENCODE supports human genome assemblies (hg17, hg18 and hg19) only.