whole blood ATAC seq
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9 months ago
pt.taklifi ▴ 60

Hello everyone. my Master's thesis is about analyzing blood ATAC seq peak calls. so far I have found a dataset containing PBMC ATAC seq peaks, but for whole blood or Neutrophil ATAC seq peaks I had no luck. so I was wondering if anyone knows a publicly available dataset of healthy whole blood ATAC seq or Neutrophils from peripheral blood . I would appreciate your help and suggestions

ATAC_seq whole_blood dataset • 444 views
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Which species? Human or mouse? For mouse there are some granulocytes from bone marrow and spleen in the ImmGen ATAC-seq collection at https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE100738. For whole blood I personally do not know any sources (and I also do not see the point in performing a bulk NGS experiment on something as heterogeneous as whole blood), but your best choice is browsing sra-explorer.info for the appropriate keywords.

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thank you. I'm looking for human ATAC seq data

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9 months ago
ATpoint 54k

Your best chance for this (or in general any published NGS data) is sra-explorer.info which is an awesome webtool to easily query and create download links from data deposited at NCBI (SRA) or the European Nucleotide Archive (ENA).

sra-explorer : find SRA and FastQ download URLs in a couple of clicks

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