Table 5 PKT Human Disease Knowledge Graph Descriptive Statistics by Primary Edge Type.

From: An open source knowledge graph ecosystem for the life sciences

Edge

Relation

Subjects

Objects

Standard Relations

Inverse Relations

chemical-disease

substance that treats

4,289

4,494

167,681

335,362

chemical-genea

interacts with

462

11,922

16,639

33,278

chemical-biological processa

molecularly interacts with

1,338

1,569

287,068

574,136

chemical-cellular componenta

molecularly interacts with

1,085

226

40,992

81,984

chemical-molecular functiona

molecularly interacts with

1,105

200

25,385

50,770

chemical-pathway

participates in

2,104

2,213

28,685

57,370

chemical-phenotype

substance that treats

4,053

1,712

107,962

215,924

chemical-proteina

interacts with

4,178

6,379

64,991

129,982

disease-phenotype

has phenotype

11,620

9,714

408,702

817,404

gene-diseaseb

causes or contributes to

5,031

4,420

12,717

–

gene-genea

genetically interacts with

247

263

1,668

3,336

gene-pathway

participates in

10,371

1,809

104,906

209,812

gene-phenotypeb

causes or contributes to

6,780

1,528

23,501

–

gene-protein

has gene product

19,327

19,143

19,534

39,068

gene-transcript

transcribed to

25,529

179,870

182,736

365,472

biological process-pathwayb

realized in response to

471

665

665

–

pathway-cellular componentb

has component

11,134

99

15,846

–

pathway-molecular function

has function

2,412

726

2,416

4,832

protein-anatomy

located in

10,747

68

30,682

61,364

protein-catalysta

molecularly interacts with

3,024

3,730

23,629

47,258

protein-cellc

located in

10,045

125

73,530

147,060

protein-cofactora

molecularly interacts with

1,584

44

1,961

3,922

protein-biological process

participates in

17,527

12,246

137,812

275,624

protein-cellular component

located in

18,427

1,757

81,602

163,204

protein-molecular function

has function

17,779

4,324

68,633

137,266

protein-pathway

participates in

10,852

2,468

117,182

234,364

protein-proteind

molecularly interacts with

14,320

14,230

618,069

–

transcript-anatomy

located in

29,104

102

439,917

879,834

transcript-cellc

located in

14,038

127

64,427

128,854

transcript-protein

ribosomally translates to

44,144

19,200

44,147

88,294

variant-diseaseb

causes or contributes to

13,291

3,565

37,861

–

variant-gene

causally influences

121,790

3,236

121,790

243,580

variant-phenotypeb

causes or contributes to

1,822

371

2,470

–

  1. Please see Table 3 for Relation Ontology for inverse relations and identifiers.
  2. aSymmetric relations were computationally inferred.
  3. bThe Relation Ontology does not provide an inverse relation.
  4. cThe word “cell” above is used to represent cell lines from the Cell Line Ontology and cell types from the Cell Ontology.
  5. dThe data source already included symmetrical edges.
  6. Acronyms: PKT (PheKnowlator).
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