ATAC-seq analysis for intravesical BCG in bladder cancer
- 1. Department of Urology, Comprehensive Cancer Center Innsbruck, Medical University of Innsbruck, Innsbruck, Austria
- 2. Institute of Hygiene and Medical Microbiology, Medical University of Innsbruck, Innsbruck, Austria
- 3. Institute of Bioinformatics, Medical University of Innsbruck, Innsbruck, Austria
- 4. Immunotherapy Unit, Department of Urology, Medical University of Innsbruck, Innsbruck, Austria
Description
BCG vaccination can boost innate immune responses via trained immunity (TI), resulting in an increased resistance to respiratory viral infections. Assay for transposase accessible chromatin (ATAC), including tagmentation, library preparation and sequencing were performed by Genewiz (Azenta Life Sciences, MA, USA) on PBMCs from two BCG-treated NMIBC patients at baseline and during BCG (mid) as well as from three healthy donors. This dataset include the pipeline for preprocessing of raw data including mapping to the hg38 reference genome using bowtie2 and peak calling by MACS2. Differentially accessible regions in proximity to annotated genes between the two time points (during BCG versus baseline) were identified using the R packages csaw and edgeR and resulting data files are provided.
Files
ATAC_pipeline.txt
Files
(1.1 GB)
| Name | Size | Download all |
|---|---|---|
|
md5:d1076be65d88250d668e3da9c1ddc388
|
1.0 kB | Preview Download |
|
md5:314cab27f4e68a431ed7013c952c03ea
|
1.2 kB | Download |
|
md5:706ecf4262373b4f65cdfbf7856a09ff
|
766 Bytes | Download |
|
md5:b40598c72eaf13a7203e1d8fd7c8130c
|
660.0 kB | Preview Download |
|
md5:8d80baad0e753fd811d96879f33836cb
|
6.5 kB | Download |
|
md5:ab73a92a57be01ac9a9dbf6d9c92be19
|
4.1 MB | Preview Download |
|
md5:b7960751453557a3e03da7c19b5858ab
|
9.6 MB | Preview Download |
|
md5:93362cd362ee0ced4a03c9a911de56a1
|
3.2 MB | Download |
|
md5:b5c6d24a44a84ad431f2791d95e8249e
|
3.6 MB | Download |
|
md5:18f9ce5befb404eabbfe9f673484436f
|
2.9 MB | Download |
|
md5:289cd15e979414efefdd433ae14b3985
|
3.2 MB | Download |
|
md5:1fee8ea9734abaf035327f0bdc605777
|
205.7 MB | Download |
|
md5:f6d1d200d7fa89e8aef770fe51589a20
|
246.1 MB | Download |
|
md5:eb83e90229044e9acb7cf7f9ceed6da4
|
413 Bytes | Download |
|
md5:a12e03b9e2bf90c5d39e99160f9b4bea
|
2.2 MB | Download |
|
md5:25681722560a78bb17ac6459142c9c71
|
2.5 MB | Download |
|
md5:ac48ef9e0dd7621ba2a8d91f1a3021e8
|
1.8 MB | Download |
|
md5:c6eedc16c2c278aaf357a0ec00e7e884
|
2.0 MB | Download |
|
md5:abd6016138d72759ef34ee1d75e58838
|
2.6 MB | Download |
|
md5:0e10047e8e1c15cda498d0659e129985
|
2.9 MB | Download |
|
md5:1758d99e45825ac8730ec837690d621c
|
104.5 MB | Download |
|
md5:1cfc9a2f30a0bd9ebf2a9dc21cc2f742
|
78.1 MB | Download |
|
md5:74e3246379112bc048898ccdf22686fa
|
412.9 MB | Download |
|
md5:e6925fa264b41d857288340c551425fb
|
901 Bytes | Download |
|
md5:c42e9f75fff906c6a7143cb2fac86602
|
11.7 kB | Download |
|
md5:843dd94c17a91c001e147eb0395b0a09
|
3.5 MB | Preview Download |
|
md5:1f9a7a557a5542152f36fadfde1097ee
|
647 Bytes | Download |
|
md5:7453032db661591f567b471e8029aea6
|
469 Bytes | Download |
|
md5:f2c2e40dbf6c90e841ac640104a992ed
|
239 Bytes | Download |
|
md5:43e2799839b5329b4656b06d6c7e4675
|
616.8 kB | Preview Download |
|
md5:aa47e95487664578767cb5410c7e8e18
|
374 Bytes | Download |
|
md5:8ccbd0b9aad4b992dde2d10e65a66f8d
|
352 Bytes | Download |
|
md5:7361c0d818d53db5359e2d7ffb826b98
|
358 Bytes | Download |
|
md5:d86b58b976250964dfb81bf9410a6366
|
507 Bytes | Download |
|
md5:696c9a6e803d2d343f884710f4e1dd08
|
302 Bytes | Download |
|
md5:7312e5a049592f1fe19922c9e246652f
|
292 Bytes | Download |
|
md5:621fbb0b7d30731fa4a8631991b4faab
|
402 Bytes | Download |
|
md5:49844b400ab3e7e651fbb8da70ae563e
|
889 Bytes | Download |