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Table 1 Additional resources integrated into the COPDKB.

From: The COPD Knowledge Base: enabling data analysis and computational simulation in translational COPD research

Resource

Information type

Number of nodes

Number of associations

BioBridge omics network 2012

BioBridge 8w training extended by protein and metabolite measurements

4878

11448

Co-morbidity network

Co-morbidity network from OMIM gene-disease associations as well as Medicare and Swedish health system patient data

8 435

3 973 126

COPD literature mining

GWAS and epigenetic gene- disease associations

18

20

Disease grouping

Expert-based manual grouping of diseases

493 diseases

27 groups

Human angiogenesis young, old

Public, angiogenesis-related expression data

3691

3782

ICD 9

International classification of disease, ninth revision

13 222

 

ICD 10

International classification of disease, tenth revision

12 416

 

ITFP

Transcription factors and targets

2 143 TF, 6 710 targets

74 907

MeSH

Medical subject headings

24 767

 

miRbase

micro RNA

2024 human miRNA

 

miRTarBase

microRNA targets

12 194 human targets

38 311

Mouse inactivity-induced muscle wasting

Public mouse, inactivity-induced muscle wasting data gene expression GSE25908,

15 287

154 597

PAC-COPD

Clinical study

342 patients, 260 clinical attributes

 

Pathway network

Jaccard index based clustering of pathways from KEGG, Reactome and the BioBridge COPD text mining

1138 pathways

1815 associations

SNOMED-CT

Systematized Nomenclature of Medicine -- Clinical Terms

296 519

 
  1. Data sources added since the first release of the COPDKB