ATAC-seq Library Preparation and Analysis

ATAC-seq was performed as previously described (16 (link)). ATAC libraries were sequenced on an Illumina NextSeq machine (2×75 cycles). The peak sets for ATAC-seq were further analyzed using the deepTools2 suite (v3.3.0)(17 (link)). By using bamCoverage, peaks were normalized to reads per kilobase per million reads normalized read numbers (RPKM).

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Zensus J.A., Krichbaum T.P, & Lobanov A.P. (1995). Morphology of high-luminosity compact radio sources.. Proceedings of the National Academy of Sciences of the United States of America, 92(25), 11348-11355.

Publication 2023

NextSeq machine

Atac Atac seq

Corresponding Organization : Center for Cancer Research

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Variable analysis

independent variables

ATAC-seq performed as previously described (16)

dependent variables

Peak sets for ATAC-seq further analyzed using the deepTools2 suite (v3.3.0)(17)
Peaks normalized to reads per kilobase per million reads normalized read numbers (RPKM)

control variables

Not explicitly mentioned

controls

Not explicitly mentioned

Annotations

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