Dataset Open Access

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

Alasoo, Kaur; Gaffney, Daniel


JSON Export

{
  "files": [
    {
      "links": {
        "self": "https://zenodo.org/api/files/25d5c70c-7035-47b5-b9a8-3a18084bbebd/ATAC_consensus_peaks.gff3.gz"
      }, 
      "checksum": "md5:1931d916e4bc98dd0d0042fad4506cba", 
      "bucket": "25d5c70c-7035-47b5-b9a8-3a18084bbebd", 
      "key": "ATAC_consensus_peaks.gff3.gz", 
      "type": "gz", 
      "size": 3449583
    }, 
    {
      "links": {
        "self": "https://zenodo.org/api/files/25d5c70c-7035-47b5-b9a8-3a18084bbebd/ATAC_count_matrix.txt.gz"
      }, 
      "checksum": "md5:1abd84d00542dd4f40f340e5499f4700", 
      "bucket": "25d5c70c-7035-47b5-b9a8-3a18084bbebd", 
      "key": "ATAC_count_matrix.txt.gz", 
      "type": "gz", 
      "size": 45029754
    }, 
    {
      "links": {
        "self": "https://zenodo.org/api/files/25d5c70c-7035-47b5-b9a8-3a18084bbebd/ATAC_cqn_matrix.txt.gz"
      }, 
      "checksum": "md5:589f2ffc1a1586d70ab9522216f291c2", 
      "bucket": "25d5c70c-7035-47b5-b9a8-3a18084bbebd", 
      "key": "ATAC_cqn_matrix.txt.gz", 
      "type": "gz", 
      "size": 114763266
    }, 
    {
      "links": {
        "self": "https://zenodo.org/api/files/25d5c70c-7035-47b5-b9a8-3a18084bbebd/ATAC_metadata_columns.txt"
      }, 
      "checksum": "md5:6f2d64677aeb125f314a86d8bc869d96", 
      "bucket": "25d5c70c-7035-47b5-b9a8-3a18084bbebd", 
      "key": "ATAC_metadata_columns.txt", 
      "type": "txt", 
      "size": 2596
    }, 
    {
      "links": {
        "self": "https://zenodo.org/api/files/25d5c70c-7035-47b5-b9a8-3a18084bbebd/ATAC_peak_metadata.txt.gz"
      }, 
      "checksum": "md5:9183cf79f6ff266f901a3595a70432af", 
      "bucket": "25d5c70c-7035-47b5-b9a8-3a18084bbebd", 
      "key": "ATAC_peak_metadata.txt.gz", 
      "type": "gz", 
      "size": 5864161
    }, 
    {
      "links": {
        "self": "https://zenodo.org/api/files/25d5c70c-7035-47b5-b9a8-3a18084bbebd/ATAC_sample_metadata.txt.gz"
      }, 
      "checksum": "md5:a57a4ee6eb679452381e2dc9455e9062", 
      "bucket": "25d5c70c-7035-47b5-b9a8-3a18084bbebd", 
      "key": "ATAC_sample_metadata.txt.gz", 
      "type": "gz", 
      "size": 12002
    }, 
    {
      "links": {
        "self": "https://zenodo.org/api/files/25d5c70c-7035-47b5-b9a8-3a18084bbebd/RNA_count_matrix.txt.gz"
      }, 
      "checksum": "md5:ea78bce7df317921aa3c24ae22d971b7", 
      "bucket": "25d5c70c-7035-47b5-b9a8-3a18084bbebd", 
      "key": "RNA_count_matrix.txt.gz", 
      "type": "gz", 
      "size": 10911973
    }, 
    {
      "links": {
        "self": "https://zenodo.org/api/files/25d5c70c-7035-47b5-b9a8-3a18084bbebd/RNA_cqn_matrix.txt.gz"
      }, 
      "checksum": "md5:a302dd9912afeb4cf4fa69d5f990e8fd", 
      "bucket": "25d5c70c-7035-47b5-b9a8-3a18084bbebd", 
      "key": "RNA_cqn_matrix.txt.gz", 
      "type": "gz", 
      "size": 28376630
    }, 
    {
      "links": {
        "self": "https://zenodo.org/api/files/25d5c70c-7035-47b5-b9a8-3a18084bbebd/RNA_gene_metadata.txt.gz"
      }, 
      "checksum": "md5:e625f24fcf331301385455f577a79c8e", 
      "bucket": "25d5c70c-7035-47b5-b9a8-3a18084bbebd", 
      "key": "RNA_gene_metadata.txt.gz", 
      "type": "gz", 
      "size": 2947865
    }, 
    {
      "links": {
        "self": "https://zenodo.org/api/files/25d5c70c-7035-47b5-b9a8-3a18084bbebd/RNA_metadata_columns.txt"
      }, 
      "checksum": "md5:11592b909fdcdb764f624b5c740460d7", 
      "bucket": "25d5c70c-7035-47b5-b9a8-3a18084bbebd", 
      "key": "RNA_metadata_columns.txt", 
      "type": "txt", 
      "size": 2188
    }, 
    {
      "links": {
        "self": "https://zenodo.org/api/files/25d5c70c-7035-47b5-b9a8-3a18084bbebd/RNA_sample_metadata.txt.gz"
      }, 
      "checksum": "md5:e575d50dea2a261c6f274df725eed1b3", 
      "bucket": "25d5c70c-7035-47b5-b9a8-3a18084bbebd", 
      "key": "RNA_sample_metadata.txt.gz", 
      "type": "gz", 
      "size": 10423
    }
  ], 
  "owners": [
    11899
  ], 
  "doi": "10.5281/zenodo.1188300", 
  "stats": {
    "version_unique_downloads": 54.0, 
    "unique_views": 287.0, 
    "views": 310.0, 
    "downloads": 94.0, 
    "unique_downloads": 36.0, 
    "version_unique_views": 425.0, 
    "volume": 1315744475.0, 
    "version_downloads": 141.0, 
    "version_views": 471.0, 
    "version_volume": 2289194362.0
  }, 
  "links": {
    "doi": "https://doi.org/10.5281/zenodo.1188300", 
    "conceptdoi": "https://doi.org/10.5281/zenodo.748695", 
    "bucket": "https://zenodo.org/api/files/25d5c70c-7035-47b5-b9a8-3a18084bbebd", 
    "conceptbadge": "https://zenodo.org/badge/doi/10.5281/zenodo.748695.svg", 
    "html": "https://zenodo.org/record/1188300", 
    "latest_html": "https://zenodo.org/record/1188300", 
    "badge": "https://zenodo.org/badge/doi/10.5281/zenodo.1188300.svg", 
    "latest": "https://zenodo.org/api/records/1188300"
  }, 
  "conceptdoi": "10.5281/zenodo.748695", 
  "created": "2018-03-03T22:16:39.743886+00:00", 
  "updated": "2019-08-14T17:38:24.816364+00:00", 
  "conceptrecid": "748695", 
  "revision": 3, 
  "id": 1188300, 
  "metadata": {
    "access_right_category": "success", 
    "doi": "10.5281/zenodo.1188300", 
    "description": "<p><strong>RNA-seq files:</strong></p>\n\n<ol>\n\t<li>RNA_count_matrix.txt.gz - raw read counts</li>\n\t<li>RNA_cqn_matrix.txt.gz - read counts quantile normalised with the cqn R package</li>\n\t<li>RNA_gene_metadata.txt.gz - information about the genes</li>\n\t<li>RNA_sample_metadata.txt.gz - information about the samples</li>\n</ol>\n\n<p><strong>ATAC-seq files:</strong></p>\n\n<ol>\n\t<li>ATAC_count_matrix.txt.gz - raw read counts</li>\n\t<li>ATAC_cqn_matrix.txt.gz - read counts quantile normalised with the cqn R package</li>\n\t<li>ATAC_peak_metadata.txt.gz - peak coordinates and other metadata</li>\n\t<li>ATAC_sample_metadata.txt.gz - sample metadata</li>\n\t<li>ATAC_consensus_peaks.gff3.gz - GFF3 file containing the GRCh38 coordinates of the peaks</li>\n</ol>", 
    "license": {
      "id": "CC-BY-4.0"
    }, 
    "title": "Processed read counts from macrophage RNA-seq and ATAC-seq experiments", 
    "relations": {
      "version": [
        {
          "count": 3, 
          "index": 2, 
          "parent": {
            "pid_type": "recid", 
            "pid_value": "748695"
          }, 
          "is_last": true, 
          "last_child": {
            "pid_type": "recid", 
            "pid_value": "1188300"
          }
        }
      ]
    }, 
    "communities": [
      {
        "id": "macrophage-gene-expression-genetics"
      }
    ], 
    "publication_date": "2017-01-25", 
    "creators": [
      {
        "orcid": "0000-0002-1761-8881", 
        "affiliation": "Wellcome Trust Sanger Institute", 
        "name": "Alasoo, Kaur"
      }, 
      {
        "affiliation": "Wellcome Trust Sanger Institute", 
        "name": "Gaffney, Daniel"
      }
    ], 
    "access_right": "open", 
    "resource_type": {
      "type": "dataset", 
      "title": "Dataset"
    }, 
    "related_identifiers": [
      {
        "scheme": "doi", 
        "relation": "isVersionOf", 
        "identifier": "10.5281/zenodo.748695"
      }
    ]
  }
}
471
141
views
downloads
All versions This version
Views 471310
Downloads 14194
Data volume 2.3 GB1.3 GB
Unique views 425287
Unique downloads 5436

Share

Cite as