ChIP-seq gene blacklist for Rattus norvegicus

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12 months ago

Thomas • 0

Hello,

I am doing analysis on a ChIP-seq dataset from a cell line derived from Rattus norvegicus. I have seen lists of blacklisted regions in mouse and human data, but searching this forum I can't find any for rat.

Does anyone have a source that describes this list of regions?

Thank you!

rat blacklist ChIP-seq • 696 views

ADD COMMENT • link updated 12 days ago by GenoMax 151k • written 12 months ago by Thomas • 0

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Were you able to find the list of regions?

Thank you!

ADD REPLY • link 12 days ago by RD ▴ 20

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https://kilthub.cmu.edu/articles/dataset/Alternate_gene_annotations_for_rat_macaque_and_marmoset_for_single_cell_RNA_and_ATAC_analyses/21176401?file=37549855

Contains lifted over blacklist regions for rn6/rn7 genomes in BED format. Check the text in the upload to see if they would be usable for your application.

ADD REPLY • link 12 days ago by GenoMax 151k

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