Datasets Index

Work In Progress: Some of the information might be incorrect.

Index of datasets

• Open Targets gene-disease associations

• Gene information

• Disease information

• Open Targets similar diseases (based on targets in common) relation-shared-target.json.gz relation-shared-target.tsv.gz

• Similar targets (based on diseases in common)

Supplementary files for prediction methods

Open Targets similar diseases (based on targets in common)

Filename: json format relation-shared-target.json.gz

Number of records: 557,122

Filename: tsv format relation-shared-target.tsv.gz

Number of rows x columns: 557,122 rows x 10 columns

Open Targets introduced the concept of similarity on diseases based on the number of shared targets. For instance, if you look at the Asthma disease profile page, the section "similar diseases (based on targets in common)" displays similar diseases sharing the same target.

For instance, clicking on "Chronic Obstructive Pulmonary Disease" will display a list of shared targets.

The data in relation-shared-target.json.gz is a dump of this information and 2 examples of similar diseases are given below:

{
  "sort": [
    "relation-shared-target#DOID_0050890-EFO_0000584"
  ],
  "_type": "relation-shared-target",
  "_routing": "DOID_0050890",
  "_source": {
    "shared_targets": [
      "ENSG00000164400"
    ],
    "object": {
      "id": "EFO_0000584",
      "links": {
        "targets_count": 18
      },
      "label": "infectious meningitis"
    },
    "scores": {
      "overlap": 0.22265818869331525
    },
    "counts": {
      "shared_count": 1,
      "union_count": 20
    },
    "id": "DOID_0050890-EFO_0000584",
    "subject": {
      "id": "DOID_0050890",
      "links": {
        "targets_count": 3
      },
      "label": "synucleinopathy"
    }
  },
  "_score": null,
  "_index": "18.06_relation-data",
  "_id": "DOID_0050890-EFO_0000584"
}
{
  "sort": [
    "relation-shared-target#DOID_0050890-EFO_0003030"
  ],
  "_type": "relation-shared-target",
  "_routing": "DOID_0050890",
  "_source": {
    "shared_targets": [
      "ENSG00000164400"
    ],
    "object": {
      "id": "EFO_0003030",
      "links": {
        "targets_count": 7
      },
      "label": "abscess"
    },
    "scores": {
      "overlap": 0.33106914536924065
    },
    "counts": {
      "shared_count": 1,
      "union_count": 9
    },
    "id": "DOID_0050890-EFO_0003030",
    "subject": {
      "id": "DOID_0050890",
      "links": {
        "targets_count": 3
      },
      "label": "synucleinopathy"
    }
  },
  "_score": null,
  "_index": "18.06_relation-data",
  "_id": "DOID_0050890-EFO_0003030"
}

Similar targets (based on diseases in common)

Files in json format:

• relation-shared-disease-0.json.gz
• relation-shared-disease-1.json.gz
• relation-shared-disease-2.json.gz
• relation-shared-disease-3.json.gz
• relation-shared-disease-4.json.gz
• relation-shared-disease-5.json.gz
• relation-shared-disease-6.json.gz
• relation-shared-disease-7.json.gz

Files in tsv format:

• relation-shared-disease-0.tsv.gz
• relation-shared-disease-1.tsv.gz
• relation-shared-disease-2.tsv.gz
• relation-shared-disease-3.tsv.gz
• relation-shared-disease-4.tsv.gz
• relation-shared-disease-5.tsv.gz
• relation-shared-disease-6.tsv.gz
• relation-shared-disease-7.tsv.gz