Literature Based Kinase-Substrate Library at the Phosphosite Level

Run Enrichment

Library Info:

This library was made by manual curation of kinase-substrate interactions in the literature. The library terms are kinases and the elements are substrates with phosphosites.

Term
Element

Enrichment Results:

No input phosphosites were found in the phosphosite set library.

Please enter one phosphosite per line in the following format: gene name, underscore, phosphorylated amino acid, and amino acid position (e.g. PPP1R8_S57).

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No search terms were found in the library.

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No search elements were found in the library.

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Kinase Networks

Kinase-Kinase Substrate
Kinase network based on similarity of substrates from the KEA gene-set library calculated using the Jaccard coefficient. Format: Excel,  TSV
Kinase-Kinase Substrate at Phosphosite Level
Kinase network based on similarity of substrates at the phosphosite level from the KEA gene-set library calculated using the Jaccard coefficient. Format: Excel,  TSV
Kinase-Kinase Protein-Protien Interactions
Kinase network based on similarity of interacting proteins calculated using the Jaccard coefficient. Format: Excel,  TSV
Kinase-Kinase Phylogeny
Kinase network based on similarity of similarity of amino acid sequence of the kinase domain calculated using ClustalW2 online sequence alignment tool. Format: Excel,  TSV
Kinase-Kinase Upstream Putative Regulatory Transcription Factors
Kinase network based on similarity of putative regulatory transcription factors from the ChEA gene-set library calculated using the Jaccard coefficient. Format: Excel,  TSV
Kinase-Kinase Kinomescan Kinase Inhibition
Kinase network based on similarity of kinase inhibitors from Kinomescan calculated using the weighted Jaccard coefficient. Format: Excel,  TSV
Kinase-Kinase Drugbank
Kinase network based on similarity of drugs known to target kinases from DrugBank calculated using the Jaccard coefficient. Format: Excel,  TSV
Kinase-Kinase Pathway
Kinase network based on similarity of the pathways a kinase is a member of calculated using the Jaccard coefficient. Format: Excel,  TSV
Kinase-Kinase Differentially Expressed Genes LINCS L1000
Kinase network based on similarity of the signature of differentially expressed genes after kinase knowkdown from the LINCS L1000 experiments calculated using the cosine distance of the characteristic directions of gene expression. Format: Excel,  TSV
Kinase-Kinase Association with Phosphorylated Genes
Kinase network based on similarity of kinase associations with phosphorylated genes from literature mining calculated using the Jaccard coefficient. Format: Excel,  TSV
Kinase-Kinase Association with Biological Terms
Kinase network based on similarity of kinase associations with biological terms from literature mining calculated using the Jaccard coefficient. Format: Excel,  TSV
Download All Kinase Networks
Download a Zip file with all Kinase networks. Zip
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Gene Set Libraries and Databases

Phosphosite Level
Kinase-Substrate Gene Set Library with Phosphosites
This library was made by manual curation of kinase-substrate interactions in the literature. The library terms are kinases and the elements are substrates with phosphosites. Format: Excel,  TSV
Kinase-Substrate Database at Phospho-site Level with Pubmed IDs and Resources
This is a database of kinase-substrate interactions at the phospho-site level with Pubmed IDs and resources. Format: Excel,  TSV
Kinase-Substrate/Binding Database at Protein Level with Pubmed IDs and Resources
This is a database of kinase-substrate and kinase-binding interactions at the protein level with Pubmed IDs and resources. Format: Excel,  TSV
Biological Terms Associated with Phosphosites from Literature Mining
This library was made by text mining abstracts from papers that describe specific phosphosites on protein substrates. The library terms are biological terms that are associated with specific phosposites. Format: Excel,  TSV
Gene Level
Kinase-Substrate Gene Set Library
This library was made by manual curation of kinase-substrate interactions in the literature. The library terms are kinases and the elements are substrates without phosphosites. Format: Excel,  TSV
Biological Terms Associated with Phosphorylated Proteins from Literature Mining
This library was made by text mining abstracts from papers that describe specific phosphosites on protein substrates. The terms are biological terms that are associated with specific protein substrates. Format: Excel,  TSV
SILAC Experiment Gene Set Library
This library was made by gathering phosphorylation substrates at the gene level from Stable Isotope Labeling by Amino acids in Cell culture (SILAC) phosphoproteomics experiments. The terms are SILAC experiments and the elements are protein substrates. Click on experiment terms to be redirected to the publication's pubmed page. Format: Excel,  TSV
Up-regulated Genes following Kinase Perturbation from GEO
This library was made by finding genes that were up-regulated after kinase perturbation from the Gene Expression Omnibus (GEO). The terms are kinase perturbation experiments and the elements are up-regulated genes. Format: Excel,  TSV
Down-regulated Genes following Kinase Perturbation from GEO
This library was made by finding genes that were down-regulated after kinase perturbation from the Gene Expression Omnibus (GEO). The terms are kinase perturbation experiments and the elements are down-regulated genes. Format: Excel,  TSV
Up-regulated Genes following Kinase Perturbation from the L1000 Connectivity Map
This library was made by finding genes that were up-regulated after kinase perturbationfrom the Library of Integrated Network based Cellular Signatures (L1000) Connectivity Map. The terms are kinase perturbation experiments and the elements are up-regulated genes. Format: Excel,  TSV
Down-regulated Genes following Kinase Perturbation from the L1000 Connectivity Map
This library was made by finding genes that were down-regulated after kinase perturbationfrom the Library of Integrated Network based Cellular Signatures (L1000) Connectivity Map. The terms are kinase perturbation experiments and the elements are down-regulated genes. Format: Excel,  TSV
Download All Gene Set Libraries
Download a Zip file with all the gene set libraries. Zip
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Scripts and Additional Documentation

Biological Term Script
This python script was used for literature mining of abstracts. Format Script
Differentially Expressed Genes After Kinase Perturbation from GEO
This MatLab script was used to generate the gene set librarys from differentially expressed genes after kinase perturbation from the Gene Expression Omnibus. Script
Differentially Expressed Genes After Kinase Perturbation from the L1000 Connectivity Map
This MatLab script was used to generate the gene set library from differentially expressed genes afer kinase perturbation from the L1000 Connectivity Map. Script
Script Documentation
Documnentation for the above scripts. Script
Download All Scripts
Download a Zip file with all scripts. Zip
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