Dataset Open Access

Processed read counts from macrophage RNA-seq and ATAC-seq experiments

Alasoo, Kaur; Gaffney, Daniel

RNA-seq files:

  1. RNA_count_matrix.txt.gz - raw read counts
  2. RNA_cqn_matrix.txt.gz - read counts quantile normalised with the cqn R package
  3. RNA_gene_metadata.txt.gz - information about the genes
  4. RNA_sample_metadata.txt.gz - information about the samples

ATAC-seq files:

  1. ATAC_count_matrix.txt.gz - raw read counts
  2. ATAC_cqn_matrix.txt.gz - read counts quantile normalised with the cqn R package
  3. ATAC_peak_metadata.txt.gz - peak coordinates and other metadata
  4. ATAC_sample_metadata.txt.gz - sample metadata
  5. ATAC_consensus_peaks.gff3.gz - GFF3 file containing the GRCh38 coordinates of the peaks

Files (211.4 MB)
Name Size
ATAC_consensus_peaks.gff3.gz
md5:1931d916e4bc98dd0d0042fad4506cba
3.4 MB Download
ATAC_count_matrix.txt.gz
md5:1abd84d00542dd4f40f340e5499f4700
45.0 MB Download
ATAC_cqn_matrix.txt.gz
md5:589f2ffc1a1586d70ab9522216f291c2
114.8 MB Download
ATAC_metadata_columns.txt
md5:6f2d64677aeb125f314a86d8bc869d96
2.6 kB Download
ATAC_peak_metadata.txt.gz
md5:9183cf79f6ff266f901a3595a70432af
5.9 MB Download
ATAC_sample_metadata.txt.gz
md5:a57a4ee6eb679452381e2dc9455e9062
12.0 kB Download
RNA_count_matrix.txt.gz
md5:ea78bce7df317921aa3c24ae22d971b7
10.9 MB Download
RNA_cqn_matrix.txt.gz
md5:a302dd9912afeb4cf4fa69d5f990e8fd
28.4 MB Download
RNA_gene_metadata.txt.gz
md5:e625f24fcf331301385455f577a79c8e
2.9 MB Download
RNA_metadata_columns.txt
md5:11592b909fdcdb764f624b5c740460d7
2.2 kB Download
RNA_sample_metadata.txt.gz
md5:e575d50dea2a261c6f274df725eed1b3
10.4 kB Download
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