# Help with chipseq workflow to find motifs and genome ontology data

**URL:** <https://help.galaxyproject.org/t/help-with-chipseq-workflow-to-find-motifs-and-genome-ontology-data/8597>\
**Category:** usegalaxy.eu support\
**Tags:** chip-seq, epigenetics\
**Created:** [September 3, 2022, 4:48am UTC](https://help.galaxyproject.org/t/help-with-chipseq-workflow-to-find-motifs-and-genome-ontology-data/8597 "2022-09-03T04:48:18Z")\
**Posts on this page:** 3\
**Page:** 1

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**Author:** ![pauloalabarse](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/pauloalabarse/32/3620_2.png) [@pauloalabarse](https://help.galaxyproject.org/u/pauloalabarse)\
**Post date:** [September 3, 2022, 4:48am UTC](https://help.galaxyproject.org/t/help-with-chipseq-workflow-to-find-motifs-and-genome-ontology-data/8597/1 "2022-09-03T04:48:18Z")

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Hi, can someone help me with this? I am trying to perform a workflow to achieve motif discovery and genome ontology data about the motifs found. I have started with fasta files from a ChIP-seq experiment, then I run FastQ Groomer to my data, followed by Mapped with Bowtie for Illumina, then I used MACS - model-based analysis for ChIP-seq. Based on ABCAM chip-seq tutorial by Xi Cheng, I would be able to get the tabular data from the MACS, generate an interval for the peak summit found using this workflow, to run on MEME-ChIP (another website), and, then, also with the interval, to run on GREAT (genome ontology), however, my MACS are coming out with no results. Please, help me! I had already run 7 different workflows, using 7 different tutorials, and I have not found how to get there! My public name is paulovga. Help is really appreciated!!!

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**Author:** ![gallardoalba](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/gallardoalba/32/1903_2.png) [@gallardoalba](https://help.galaxyproject.org/u/gallardoalba)\
**Post date:** [September 5, 2022, 9:41am UTC](https://help.galaxyproject.org/t/help-with-chipseq-workflow-to-find-motifs-and-genome-ontology-data/8597/2 "2022-09-05T09:41:51Z")

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Hi @pauloalabarse,  
could you share your Galaxy history with me? I’ll have a look at the MACS results. My email is  
 ![Screenshot from 2022-04-03 16-52-09](https://us1.discourse-cdn.com/flex020/uploads/galaxy/original/2X/e/ed5122a1be2530334247fb377386743b11bae268.png).

Regards

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**Author:** ![jennaj](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/jennaj/32/27_2.png) [@jennaj](https://help.galaxyproject.org/u/jennaj)\
**Post date:** [September 17, 2022, 12:06am UTC](https://help.galaxyproject.org/t/help-with-chipseq-workflow-to-find-motifs-and-genome-ontology-data/8597/3 "2022-09-17T00:06:52Z")

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