Bio2BEL

Enabling Biological Expression Language to act as a semantic integration layer for multi-modal and multi-scale data sets in the life sciences

Pinned Repositories

bio2bel
A Python framework for integrating biological databases and structured data sources in Biological Expression Language (BEL)
Language:Python21 3 345
ctd
A Bio2BEL package for converting the Comparative Toxicogenomics Database (CTD) to BEL
Language:Python2 3 10
doid
A Bio2BEL package for the Disease Ontology (http://www.disease-ontology.org)
3 2 00
drugbank
A Bio2BEL package for DrugBank (https://www.drugbank.ca)
Language:Python9 2 54
hmdb
A Bio2BEL package for converting the Human Metabolite Database (HMDB) to BEL
Language:Python5 3 81
kegg
A Bio2BEL package for integrating pathway-related information from KEGG in BEL
Language:Python13 5 164
mesh
A Bio2BEL package for the Medical Subject Headings (MeSH; https://meshb.nlm.nih.gov)
Language:Python3 3 30
pubchem
NCBI PubChem to BEL
Language:Python5 4 60
reactome
Integration of pathway-related information from Reactome in BEL
Language:Python5 4 151
wikipathways
Integration of pathway-related information from WikiPathways in BEL
Language:Python3 3 71

Bio2BEL's Repositories

bio2bel/bio2bel
A Python framework for integrating biological databases and structured data sources in Biological Expression Language (BEL)
Language:Python21 3 345
bio2bel/kegg
A Bio2BEL package for integrating pathway-related information from KEGG in BEL
Language:Python13 5 164
bio2bel/drugbank
A Bio2BEL package for DrugBank (https://www.drugbank.ca)
Language:Python9 2 54
bio2bel/reactome
Integration of pathway-related information from Reactome in BEL
Language:Python5 4 151
bio2bel/wikipathways
Integration of pathway-related information from WikiPathways in BEL
Language:Python3 3 71
bio2bel/hgnc
Hugo Gene Nomenclature Consortium (HGNC) to BEL
Language:Python2 2 90
bio2bel/msig
Integration of pathway-related information from MSigDB in BEL
Language:Python2 3 30
bio2bel/bio2bel-cookiecutter
A cookiecutter bio2bel repositories
Language:Python1 2 01
bio2bel/bio2bel-manuscript
LaTeX source for "Bio2BEL: Integration of Structured Knowledge with Biological Expression Language"
Language:TeX1 2 1
bio2bel/chebi
A Bio2BEL package for converting Chemical Entities of Biological Interest (ChEBI) to BEL
Language:Python1 2 8
bio2bel/go
A Bio2BEL package for converting the Gene Ontology (GO) to BEL
Language:Python1 2 5
bio2bel/hsdn
Convert Himmerlstein's reproduction of the Human Symptom-Disease network to BEL
Language:Python1 2 0
bio2bel/phosphosite
Language:Python1 2 1
bio2bel/regnetwork
A Bio2BEL package for RegNetwork (http://www.regnetworkweb.org)
Language:Python1 2 0
bio2bel/sider
A Bio2BEL package for the Side Effect Resource (SIDER; http://sideeffects.embl.de/)
Language:Jupyter Notebook1 2 01
bio2bel/expasy
A Bio2BEL package for converting ExPASy to BEL
Language:Python0 2 290
bio2bel/mirtarbase
Serializes text-mined miRNA-target interactions to BEL
Language:Python0 2 150
bio2bel/creeds
Public differential gene expression profiles from http://amp.pharm.mssm.edu/CREEDS/
Language:Jupyter Notebook2 0
bio2bel/dbsnp
Converting dbSNP mutation information to BEL
Language:Python2 1
bio2bel/entrez
A Bio2BEL package for converting Entrez and HomoloGene to BEL
Language:Python2 3
bio2bel/famplex
Convert FamPlex to BEL
Language:Python2 3
bio2bel/flybase
A Bio2BEL package for the terminology from FlyBase (http://flybase.org/)
Language:Python2 3
bio2bel/gwascatalog
Language:Python2 0
bio2bel/hippie
Convert PPIs in HIPPIE to BEL
Language:Python2 0
bio2bel/mgi
A Bio2BEL package for converting the Mouse Genome Informatics Database (MGI) to BEL
Language:Python2 0
bio2bel/mirbase
A Bio2BEL package for miRBase (http://www.mirbase.org)
Language:Python2 8
bio2bel/pfam
A Bio2BEL package for PFAM (https://pfam.xfam.org/)
Language:Python2 0
bio2bel/phewascatalog
Language:Python2 1
bio2bel/rgd
Rat Genome Database to BEL
Language:Python2 0
bio2bel/uniprot
UniProt Knowledge Base to BEL
Language:Python2 31