What biological databases does BioServices support?

BioServices provides access to over 40 major services, including UniProt, KEGG, ChEMBL, ChEBI, PubChem, Reactome, and the Protein Data Bank (PDB).

How does BioServices handle different data formats?

It transparently handles XML, JSON, and TSV responses, often integrating with Pandas for tabular data and BioPython for sequence objects.

Does this skill support sequence alignment tools?

Yes, it allows you to run NCBI BLAST jobs and retrieve results asynchronously directly within your Python environment.

Can I use this skill to convert gene or protein IDs?

Yes, it features robust identifier mapping capabilities to convert between formats like UniProt AC, KEGG IDs, Ensembl, and RefSeq.

BioServices Bioinformatics Toolkit

Name: BioServices Bioinformatics Toolkit
Author: Activer007

byActiver007

数据科学与机器学习

Provides programmatic access to over 40 bioinformatics web services and databases for integrated biological data analysis.

关于

BioServices is a comprehensive Python wrapper that simplifies access to essential bioinformatics resources like UniProt, KEGG, ChEMBL, and PubChem. It enables developers and researchers to perform complex multi-database workflows, including sequence retrieval, pathway analysis, identifier mapping, and compound searches, all through a unified API. By abstracting the complexities of REST and SOAP protocols, it allows Claude to efficiently integrate diverse biological datasets into automated discovery pipelines and data science workflows.

主要功能

Asynchronous sequence similarity searching via NCBI BLAST
Automated identifier mapping across heterogeneous biological databases
Chemical compound searching across ChEMBL, PubChem, and ChEBI
Unified access to 40+ bioinformatics services including UniProt and KEGG
Advanced metabolic pathway discovery and network analysis
0 GitHub stars

使用场景

Cross-referencing chemical compounds across multiple pharmaceutical databases
Extracting and exporting protein-protein interaction networks for systems biology
Automating protein characterization and functional annotation pipelines

关于

主要功能

Asynchronous sequence similarity searching via NCBI BLAST
Automated identifier mapping across heterogeneous biological databases
Chemical compound searching across ChEMBL, PubChem, and ChEBI
Unified access to 40+ bioinformatics services including UniProt and KEGG
Advanced metabolic pathway discovery and network analysis
0 GitHub stars

使用场景

Cross-referencing chemical compounds across multiple pharmaceutical databases
Extracting and exporting protein-protein interaction networks for systems biology
Automating protein characterization and functional annotation pipelines