Submit a new job

ChIPseek supports three types of file formats: BED format, GFF format and text file. Before uploading a file (or files), please check the file format and genome assembly version.

Step1. Select a genome assembly

When uploading data, user needs to specify the format of the uploaded file and select the reference genome assembly*. Currently, ChIPseek supports the following genome assemblies:
  • 1) human (hg17, hg18 and hg19),
  • 2) mouse (mm8, mm9 and mm10),
  • 3) rat (rn4 and rn5),
  • 4) worm (ce6 and ce10),
  • 5) fly (dm3),
  • 6) frog (xenTro3, xenTro2),
  • 7) zebrafish (danRer7),
  • 8) chicken (galGal4),
  • 9) yeast (sacCer2 and sacCer3),
  • 10) Schizosaccharomyces pombe (ASM294v1),
  • 11) Arabidopsis (tair10)
  • 12) rice (Oryza sativa, msu6).

*Genome assembly must be correctly specified, otherwise "NA" will be shown in the annotation table and ChIPseek will fail to perform analysis.

Step2. Specify file format

Currently, ChIPseek supports three types of file formats, BED format, GFF format and text file*. The text files must contain the first three columns, chromosome, start position and end position. The text file may also contain a fourth column “score” which is optional but will be shown on UCSC genome browser if available. The text file can be delimited by tab, whitespace, comma, semicolon or pipe.

    An example of text file.The fourth column (labeled in blue) is optional.
*The chromosome name should follow the UCSC chromosome nomenclature. For example, user should use chr1 for human genome, chr2L for fly, chrI for C. elegans,etc.

Step3. Select a file (or files)

Select the file (or files) to upload. The file name should have less than 10 letters.

Step4. Submit a job

Submit the file(s) and start analysis. ChIPseek will generate a job ID for each submitted job. User can retrieve this results of the analysis by using this job ID.