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PROKN

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Protein Knowledge Network

proteomicsgenomicsbiomedicalsystems biologycsv
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The Protein Knowledge Network (ProKN) integrates protein-centric data with the genomic-centric datasets of the Common Fund Data Ecosystem (CFDE), spanning heterogeneous biological data types across multiple domains to foster CFDE re-use and collaboration through enhanced connectivity and data integration, enabling new capabilities for functional genomics and systems-level understanding of disease mechanisms.

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Products & downloads

csv
ProKN GlyGen AminoAcid Nodes
DDKG_PROTEOFORM.AminoAcid.nodes.csv
853 B
csv
ProKN GTEx Anatomy Nodes
DDKG_GTEXEXP.Anatomy.nodes.csv
6.8 KB
csv
ProKN HuBMAP Azimuth Anatomy Nodes
DDKG_HMAZ.Anatomy.nodes.csv
12.4 KB
csv
ProKN IMEx Complex Nodes
IMEx.Complex.nodes.csv
1.3 MB
csv
ProKN TCRD Compound-Protein Compound Nodes
DDKG_IDGP.Compound.nodes.csv
80.1 MB
csv
ProKN TCRD Compound-Disease Compound Nodes
DDKG_IDGD.Compound.nodes.csv
103.3 KB
csv
ProKN HuBMAP Azimuth Heart Marker Edges
DDKG_HMAZ.Anatomy.HAS_MARKER_GENE_IN_HEART.Gene.edges.csv
47.2 KB
csv
ProKN HuBMAP Azimuth Kidney Marker Edges
DDKG_HMAZ.Anatomy.HAS_MARKER_GENE_IN_KIDNEY.Gene.edges.csv
124.0 KB
csv
ProKN HuBMAP Azimuth Liver Marker Edges
DDKG_HMAZ.Anatomy.HAS_MARKER_GENE_IN_LIVER.Gene.edges.csv
55.4 KB
csv
ProKN TCRD Compound-Protein Bioactivity Edges
DDKG_IDGP.Compound.BIOACTIVITY.Protein.edges.csv
122.2 MB
csv
ProKN LINCS Compound Similarity Edges
DDKG_LINCS.Compound.IN_SIMILARITY_RELATIONSHIP_WITH.Compound.edges.csv
5.9 MB
csv
ProKN TCRD Compound-Disease Indication Edges
DDKG_IDGD.Compound.INDICATION.DiseaseOrPhenotype.edges.csv
1.6 MB
csv
ProKN LINCS Negative Regulation Edges
DDKG_LINCS.Compound.NEGATIVELY_REGULATES.Gene.edges.csv
27.0 MB
csv
ProKN LINCS Positive Regulation Edges
DDKG_LINCS.Compound.POSITIVELY_REGULATES.Gene.edges.csv
26.9 MB
csv
ProKN PIR Compound Exact Match Edges
PIR.Compound.SKOS_EXACT_MATCH.Compound.edges.csv
95.5 MB
csv
ProKN PIR Gene Exact Match Edges
PIR.Gene.SKOS_EXACT_MATCH.ImpcHumanGene.edges.csv
4.6 MB
csv
ProKN InterPro Domain Hierarchy Edges
InterPro.Domain.IS_A.Domain.edges.csv
167.0 KB
csv
ProKN HPO Gene-to-Phenotype Association Edges
DDKG_HGNCHPO.Gene.ASSOCIATED_WITH.DiseaseOrPhenotype.edges.csv
148.6 MB
csv
ProKN GTEx Gene Expression Edges
DDKG_GTEXEXP.Gene.EXPRESSED_IN.Anatomy.edges.csv
325.3 MB
csv
ProKN ClinVar Association Edges
DDKG_CLINVAR.Gene.GENE_ASSOCIATED_WITH_DISEASE_OR_PHENOTYPE.DiseaseOrPhenotype.edges.csv
16.1 MB
csv
ProKN HGNC UniProt Gene-Protein Edges
DDKG_HGNCUNIPROT.Gene.IS_PROTEIN.Protein.edges.csv
1.7 MB
csv
ProKN PIR Gene Exact Match Edges
PIR.Gene.SKOS_EXACT_MATCH.ImpcHumanGene.edges.csv
4.6 MB
csv
ProKN GlyGen Glycosylated Site Edges
DDKG_PROTEOFORM.Glycoprotein.GLYCOSYLATED_AT.GlycosylationSite.edges.csv
13.4 MB
csv
ProKN GlyGen Evidence Edges
DDKG_PROTEOFORM.Glycoprotein.HAS_EVIDENCE.GlycoproteinEvidence.edges.csv
32.3 MB
csv
ProKN GlyGen PRO Entry Edges
DDKG_PROTEOFORM.Glycoprotein.HAS_PRO_ENTRY.GPID2PRO.edges.csv
14.8 MB
csv
ProKN GlyGen Isoform Sequence Edges
DDKG_PROTEOFORM.Glycoprotein.SEQUENCE.Isoform.edges.csv
6.8 MB
csv
ProKN GlyGen Protein Sequence Edges
DDKG_PROTEOFORM.Glycoprotein.SEQUENCE.Protein.edges.csv
7.4 MB
csv
ProKN GlyGen Evidence Citation Edges
DDKG_PROTEOFORM.GlycoproteinEvidence.CITATION.GlycoproteinCitation.edges.csv
558.3 KB
csv
ProKN GlyGen Enzyme Protein Edges
DDKG_GLYCANS.Glycosylation.HAS_ENZYME_PROTEIN.Protein.edges.csv
23.2 KB
csv
ProKN GlyGen Saccharide Edges
DDKG_PROTEOFORM.GlycosylationSite.HAS_SACCHARIDE.Glytoucan.edges.csv
10.8 MB
csv
ProKN GlyGen Site Location Edges
DDKG_PROTEOFORM.GlycosylationSite.LOCATION.GlyGenLocation.edges.csv
12.2 MB
csv
ProKN GlyGen Reaction Enzyme Edges
DDKG_GLYCANS.GlycosyltransferaseReaction.HAS_ENZYME_PROTEIN_GR.Protein.edges.csv
24.4 KB
csv
ProKN GlyGen Location Amino Acid Edges
DDKG_PROTEOFORM.GlyGenLocation.HAS_AMINO_ACID.AminoAcid.edges.csv
11.9 MB
csv
ProKN GlyGen Residue Attachment Edges
DDKG_GLYCANS.GlyGenResidue.ATTACHED_BY.Glycosylation.edges.csv
85.9 KB
csv
ProKN GlyGen Residue Parent Edges
DDKG_GLYCANS.GlyGenResidue.HAS_PARENT.GlyGenResidue.edges.csv
18.2 KB
csv
ProKN GlyGen Canonical Residue Edges
DDKG_GLYCANS.Glytoucan.HAS_CANONICAL_RESIDUE.GlyGenResidue.edges.csv
20.7 MB
csv
ProKN GlyGen Glycosequence Edges
DDKG_GLYCANS.Glytoucan.HAS_GLYCOSEQUENCE.GlyGenGlycosequence.edges.csv
30.3 MB
csv
ProKN GlyGen Motif Edges
DDKG_GLYCANS.Glytoucan.HAS_MOTIF.GlycanMotif.edges.csv
4.2 MB
csv
ProKN GlyGen Source Edges
DDKG_GLYCANS.Glytoucan.IS_FROM_SOURCE.GlyGenSrc.edges.csv
7.4 MB
csv
ProKN GlyGen Synthesized By Edges
DDKG_GLYCANS.Glytoucan.SYNTHESIZED_BY.GlycosyltransferaseReaction.edges.csv
52.2 MB
csv
ProKN GO Term Hierarchy Edges
GO.GOTerm.IS_A.GOTerm.edges.csv
11.4 MB
csv
ProKN GTExEXP Anatomy Expression Edges
DDKG_GTEXEXP.GTExEXP.EXPRESSED_IN.Anatomy.edges.csv
387.6 MB
csv
ProKN GTExEXP Gene Expression Edges
DDKG_GTEXEXP.GTExEXP.EXPRESSED_IN.Gene.edges.csv
368.8 MB
csv
ProKN GTExEXP Expression Bin Edges
DDKG_GTEXEXP.GTExEXP.HAS_EXPRESSION.EXPBINS.edges.csv
394.4 MB
csv
ProKN IMPC Allele to Mouse Gene Edges
IMPC.ImpcAllele.IMPC_ENSEMBL_ID.ImpcMouseGene.edges.csv
29.5 MB
csv
ProKN IMPC Human-Human Interaction Edges
IMPC.ImpcHumanGene.BIOLINK_INTERACTS_WITH.ImpcHumanGene.edges.csv
1.2 GB
csv
ProKN IMPC Human-Mouse Interaction Edges
IMPC.ImpcHumanGene.BIOLINK_INTERACTS_WITH.ImpcMouseGene.edges.csv
7.9 MB
csv
ProKN IMPC Ortholog Edges
IMPC.ImpcHumanGene.BIOLINK_ORTHOLOGOUS_TO.ImpcMouseGene.edges.csv
16.0 MB
csv
ProKN PIR Human Gene to Protein Ortholog Edges
PIR.ImpcHumanGene.BIOLINK_ORTHOLOGOUS_TO.Protein.edges.csv
17.2 MB
csv
ProKN PIR Mouse Gene Product Edges
PIR.ImpcMouseGene.BIOLINK_HAS_GENE_PRODUCT.Protein.edges.csv
18.6 MB
csv
ProKN IMPC Mouse-Human Interaction Edges
IMPC.ImpcMouseGene.BIOLINK_INTERACTS_WITH.ImpcHumanGene.edges.csv
25.2 MB
csv
ProKN IMPC Mouse-Mouse Interaction Edges
IMPC.ImpcMouseGene.BIOLINK_INTERACTS_WITH.ImpcMouseGene.edges.csv
337.9 MB
csv
ProKN IMPC Mouse-Human Ortholog Edges
IMPC.ImpcMouseGene.IMPC_HUMAN_GENE_ORTHOLOGUES.ImpcHumanGene.edges.csv
5.5 MB
csv
ProKN IMPC Mouse Allele ID Edges
IMPC.ImpcMouseGene.IMPC_MOUSE_ALLELE_ID.ImpcAllele.edges.csv
2.3 MB
csv
ProKN IMPC Mouse Alleles Edges
IMPC.ImpcMouseGene.IMPC_MOUSE_ALLELES.ImpcAllele.edges.csv
28.0 MB
csv
ProKN IMPC Publication Allele Edges
IMPC.ImpcPublication.IMPC_ALLELES.ImpcAllele.edges.csv
4.0 MB
csv
ProKN MSIGDB Chromosome Band Edges
DDKG_MSIGDB.MSigDB.CHR_BAND_CONTAINS_GENE.Gene.edges.csv
4.9 MB
csv
ProKN MSIGDB Marker Gene Edges
DDKG_MSIGDB.MSigDB.HAS_MARKER_GENE.Gene.edges.csv
23.7 MB
csv
ProKN MSIGDB Signature Gene Edges
DDKG_MSIGDB.MSigDB.HAS_SIGNATURE_GENE.Gene.edges.csv
1.6 MB
csv
ProKN MSIGDB Pathway Gene Edges
DDKG_MSIGDB.MSigDB.PATHWAY_ASSOCIATED_WITH_GENE.Gene.edges.csv
120.1 MB
csv
ProKN MSIGDB Targets Expression Edges
DDKG_MSIGDB.MSigDB.TARGETS_EXPRESSION_OF_GENE.Gene.edges.csv
149.2 MB
csv
ProKN Reactome Pathway Event Edges
Reactome.Pathway.PATHWAY_EVENT_OF.Pathway.edges.csv
1.0 MB
csv
ProKN LINCS P100 Perturbagen Edges
LINCS_P100.Perturbagen.IS_USED_IN.Experiment.edges.csv
529.1 KB
csv
ProKN LINCS P100 Perturbation Effect Edges
LINCS_P100.Experiment.PERTURBATION_EFFECT.PTMSite.edges.csv
50.1 MB
csv
ProKN LINCS P100 PTM Site Mapping Edges
LINCS_P100.PTMSite.IS_SITE.Site.edges.csv
980 B
csv
ProKN GO Acts Upstream Of Edges
GO.Protein.ACTS_UPSTREAM_OF.GOTerm.edges.csv
155.2 KB
csv
ProKN GO Acts Upstream Negative Edges
GO.Protein.ACTS_UPSTREAM_OF_NEGATIVE_EFFECT.GOTerm.edges.csv
10.2 KB
csv
ProKN GO Acts Upstream Or Within Edges
GO.Protein.ACTS_UPSTREAM_OF_OR_WITHIN.GOTerm.edges.csv
697.6 KB
csv
ProKN GO Acts Upstream Or Within Negative Edges
GO.Protein.ACTS_UPSTREAM_OF_OR_WITHIN_NEGATIVE_EFFECT.GOTerm.edges.csv
4.2 KB
csv
ProKN GO Acts Upstream Or Within Positive Edges
GO.Protein.ACTS_UPSTREAM_OF_OR_WITHIN_POSITIVE_EFFECT.GOTerm.edges.csv
13.6 KB
csv
ProKN GO Acts Upstream Positive Edges
GO.Protein.ACTS_UPSTREAM_OF_POSITIVE_EFFECT.GOTerm.edges.csv
31.8 KB
csv
ProKN GO Colocalizes Edges
GO.Protein.COLOCALIZES_WITH.GOTerm.edges.csv
255.4 KB
csv
ProKN GO Contributes To Edges
GO.Protein.CONTRIBUTES_TO.GOTerm.edges.csv
303.3 KB
csv
ProKN GO Enables Edges
GO.Protein.ENABLES.GOTerm.edges.csv
50.7 MB
csv
ProKN InterPro Domain Edges
InterPro.Protein.HAS_DOMAIN.Domain.edges.csv
4.5 MB
csv
ProKN GlyGen Protein Isoform Edges
DDKG_PROTEOFORM.Protein.HAS_ISOFORM.Isoform.edges.csv
1.3 MB
csv
ProKN iPTMnet Protein Site Edges
iPTMnet.Protein.HAS_SITE.Site.edges.csv
32.6 MB
csv
ProKN GlyGen Protein Isoform Protein Edges
DDKG_PROTEOFORM.Protein.HAS_ISOFORM.Protein.edges.csv
637.8 KB
csv
ProKN UniProtKB Protein Site Edges
UniProtKB.Protein.HAS_SITE.Site.edges.csv
25.6 MB
csv
ProKN UniProtKB Variant Edges
UniProtKB.Protein.HAS_VARIANT.Variant.edges.csv
18.8 MB
csv
ProKN eMIND Variant Edges
eMIND.Protein.HAS_VARIANT.Variant.edges.csv
58.7 KB
csv
ProKN IMEx Protein Interaction Edges
IMEx.Protein.INTERACTS_WITH.Protein.edges.csv
346.5 MB
csv
ProKN GO Involved In Edges
GO.Protein.INVOLVED_IN.GOTerm.edges.csv
41.4 MB
csv
ProKN GO Active In Edges
GO.Protein.IS_ACTIVE_IN.GOTerm.edges.csv
1.6 MB
csv
ProKN GO Located In Edges
GO.Protein.LOCATED_IN.GOTerm.edges.csv
48.4 MB
csv
ProKN GO Not Acts Upstream Or Within Edges
GO.Protein.NOT_ACTS_UPSTREAM_OF_OR_WITHIN.GOTerm.edges.csv
1.8 KB
csv
ProKN GO Not Acts Upstream Negative Edges
GO.Protein.NOT_ACTS_UPSTREAM_OF_OR_WITHIN_NEGATIVE_EFFECT.GOTerm.edges.csv
455 B
csv
ProKN GO Not Colocalizes Edges
GO.Protein.NOT_COLOCALIZES_WITH.GOTerm.edges.csv
3.3 KB
csv
ProKN GO Not Contributes Edges
GO.Protein.NOT_CONTRIBUTES_TO.GOTerm.edges.csv
3.1 KB
csv
ProKN GO Not Enables Edges
GO.Protein.NOT_ENABLES.GOTerm.edges.csv
126.7 KB
csv
ProKN GO Not Involved In Edges
GO.Protein.NOT_INVOLVED_IN.GOTerm.edges.csv
139.8 KB
csv
ProKN GO Not Active In Edges
GO.Protein.NOT_IS_ACTIVE_IN.GOTerm.edges.csv
893 B
csv
ProKN GO Not Located In Edges
GO.Protein.NOT_LOCATED_IN.GOTerm.edges.csv
51.5 KB
csv
ProKN GO Not Part Of Edges
GO.Protein.NOT_PART_OF.GOTerm.edges.csv
4.6 KB
csv
ProKN GO Part Of Edges
GO.Protein.PART_OF.GOTerm.edges.csv
3.5 MB
csv
ProKN IMEx Protein Participates In Complex Edges
IMEx.Protein.PARTICIPATES_IN.Complex.edges.csv
17.9 MB
csv
ProKN Reactome Protein Pathway Edges
Reactome.Protein.PARTICIPATES_IN.Pathway.edges.csv
16.3 MB
csv
ProKN iPTMnet Protein Catalyzes PTM Site Edges
iPTMnet.Protein.CATALYZES.PTMSite.edges.csv
3.9 MB
csv
ProKN eMIND Variant Disease Edges
eMIND.Variant.ASSOCIATED_WITH.Disease.edges.csv
1.6 KB
csv
ProKN eMIND Variant Impact Disease Edges
eMIND.Variant.IMPACT.Disease.edges.csv
68.0 KB
csv
ProKN eMIND Variant Impact Protein Edges
eMIND.Variant.IMPACT.Protein.edges.csv
1.3 KB

No node-type (Biolink category) breakdown is recorded for this graph.

No edge-type (predicate) breakdown is recorded for this graph.