Bio2BEL

All

62 repositories

.github
Public
0•0•0•0•Updated Apr 14, 2025Apr 14, 2025
kegg
Public
A Bio2BEL package for integrating pathway-related information from KEGG in BEL
proteins systems-biology pathways kegg biological-expression-language networks-biology
Python
•
MIT License
•3•13•2•1•Updated Feb 11, 2022Feb 11, 2022
bio2bel
Public
A Python framework for integrating biological databases and structured data sources in Biological Expression Language (BEL)
data-integration ontologies biological-expression-language
Python
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MIT License
•5•21•21•1•Updated Nov 3, 2021Nov 3, 2021
drugbank
Public
A Bio2BEL package for DrugBank (https://www.drugbank.ca)
cheminformatics pharmacology systems-biology drugbank drugs terminology biological-expression-language networks-biology
Python
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MIT License
•4•10•3•0•Updated Dec 14, 2020Dec 14, 2020
reactome
Public
Integration of pathway-related information from Reactome in BEL
pathways reactome biological-expression-language networks-biology system-biology
Python
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MIT License
•1•5•0•0•Updated Nov 18, 2020Nov 18, 2020
wikipathways
Public
Integration of pathway-related information from WikiPathways in BEL
systems-biology pathways wikipathways biological-expression-language
Python
•
MIT License
•1•3•0•0•Updated Nov 18, 2020Nov 18, 2020
msig
Public
Integration of pathway-related information from MSigDB in BEL
gene-set-enrichment msigdb pathway-analysis msig
Python
•
MIT License
•0•2•0•0•Updated Nov 18, 2020Nov 18, 2020
dbsnp
Public
Converting dbSNP mutation information to BEL
Python
•
MIT License
•0•0•1•0•Updated Jul 20, 2020Jul 20, 2020
hgnc
Public
Hugo Gene Nomenclature Consortium (HGNC) to BEL
hgnc genes terminology biological-expression-language
Python
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MIT License
•0•2•2•0•Updated Mar 29, 2020Mar 29, 2020
go
Public
A Bio2BEL package for converting the Gene Ontology (GO) to BEL
systems-biology ontology gene-ontology terminology pathways biological-expression-language networks-biology
Python
•
MIT License
•0•1•1•0•Updated Mar 28, 2020Mar 28, 2020
mirtarbase
Public
Serializes text-mined miRNA-target interactions to BEL
biological-expression-language mirtarbase mirna-target-interactions
Python
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MIT License
•0•0•7•0•Updated Mar 12, 2020Mar 12, 2020
mirbase
Public
A Bio2BEL package for miRBase (http://www.mirbase.org)
biological-expression-language mirna microrna mirbase
Python
•
MIT License
•1•0•3•0•Updated Mar 11, 2020Mar 11, 2020
entrez
Public
A Bio2BEL package for converting Entrez and HomoloGene to BEL
bioinformatics systems-biology genes terminology entrez-gene biological-expression-language networks-biology orthology ncbigene
Python
•
MIT License
•0•0•1•0•Updated Mar 11, 2020Mar 11, 2020
phewascatalog
Public
Python
•
MIT License
•0•0•1•0•Updated Mar 11, 2020Mar 11, 2020
gwascatalog
Public
Python
•
MIT License
•0•0•0•0•Updated Feb 25, 2020Feb 25, 2020
flybase
Public
A Bio2BEL package for the terminology from FlyBase (http://flybase.org/)
systems-biology genes drosophila terminology biological-expression-language networks-biology orthology drosophila-melanogaster
Python
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MIT License
•0•0•0•0•Updated Nov 13, 2019Nov 13, 2019
hsdn
Public
Convert Himmerlstein's reproduction of the Human Symptom-Disease network to BEL
disease symptoms biological-expression-language disease-symptom
Python
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MIT License
•0•1•0•0•Updated Nov 13, 2019Nov 13, 2019
pfam
Public
A Bio2BEL package for PFAM (https://pfam.xfam.org/)
terminology biological-expression-language pfam protein-families
Python
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MIT License
•0•0•0•0•Updated Nov 13, 2019Nov 13, 2019
phosphosite
Public
biological-expression-language protein-modifications post-translational-modification
Python
•
MIT License
•0•2•1•0•Updated Nov 13, 2019Nov 13, 2019
regnetwork
Public
A Bio2BEL package for RegNetwork (http://www.regnetworkweb.org)
Python
•
MIT License
•0•1•0•0•Updated Nov 13, 2019Nov 13, 2019
mgi
Public
A Bio2BEL package for converting the Mouse Genome Informatics Database (MGI) to BEL
genes terminology biological-expression-language orthology mgi
Python
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MIT License
•0•0•0•0•Updated Nov 13, 2019Nov 13, 2019
chebi
Public
A Bio2BEL package for converting Chemical Entities of Biological Interest (ChEBI) to BEL
chemistry terminology chemoinformatics biological-expression-language chebi
Python
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MIT License
•0•1•6•0•Updated Nov 13, 2019Nov 13, 2019
sider
Public
A Bio2BEL package for the Side Effect Resource (SIDER; http://sideeffects.embl.de/)
chemistry sider biological-expression-language side-effects
Jupyter Notebook
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MIT License
•1•1•0•0•Updated Oct 24, 2019Oct 24, 2019
snp2k
Public
Jupyter Notebook
•
MIT License
•0•0•0•0•Updated Oct 16, 2019Oct 16, 2019
creeds
Public
Public differential gene expression profiles from http://amp.pharm.mssm.edu/CREEDS/
Jupyter Notebook
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MIT License
•0•0•0•0•Updated Sep 22, 2019Sep 22, 2019
bio2bel-cookiecutter
Public
A cookiecutter bio2bel repositories
Python
•1•1•0•0•Updated Sep 22, 2019Sep 22, 2019
rgd
Public
Rat Genome Database to BEL
genes terminology biological-expression-language rgd
Python
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MIT License
•0•0•0•0•Updated Sep 22, 2019Sep 22, 2019
bio2bel-manuscript
Public
LaTeX source for "Bio2BEL: Integration of Structured Knowledge with Biological Expression Language"
systems-biology semantic-web biological-expression-language networks-biology
TeX
•0•1•1•0•Updated Sep 17, 2019Sep 17, 2019
hippie
Public
Convert PPIs in HIPPIE to BEL
biological-expression-language protein-protein-interactions
Python
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MIT License
•0•0•0•0•Updated Aug 26, 2019Aug 26, 2019
uniprot
Public
UniProt Knowledge Base to BEL
proteins terminology uniprot biological-expression-language
Python
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MIT License
•1•0•3•0•Updated Aug 21, 2019Aug 21, 2019