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kaizhang / Taiji

This project has been moved to:
https://github.com/Taiji-pipeline/Taiji
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ATAC_find_active_promoter #7

Closed wherrylab closed 7 years ago

wherrylab commented 7 years ago

Hi Kai, Can you give more details for identifying active promoters in this step of the pipeline -ATAC_find_active_promoter ?

Thank you

kaizhang commented 7 years ago

Promoters are defined by upstream 5000 bp plus downstream 1000 bp of genes' TSSs. Promoters are active if they overlap with open chromatin (ATAC-seq peaks). The purpose of this step is to filter out inactive promoters so that distal ATAC-seq peaks, considered as enhancers, will not be assigned to them.

wherrylab commented 7 years ago

Thank you,that is helpful.