Can BioServices help with identifier mapping?

Yes, one of its core strengths is mapping identifiers across different databases, such as converting UniProtKB IDs to Ensembl, RefSeq, or KEGG IDs.

Is it possible to extract protein interaction networks?

Yes, by utilizing services like PSICQUIC and KEGG, the skill can retrieve protein-protein interaction data and export them into formats like SIF for network analysis.

Does this skill support sequence analysis like BLAST?

Yes, BioServices provides tools to run NCBI BLAST searches, manage job status, and retrieve alignment results directly within your Python workflow.

Which biological databases can I access with this skill?

You can access major databases including UniProt for proteins, KEGG and Reactome for pathways, ChEMBL and PubChem for compounds, and QuickGO for gene ontology.

What is the BioServices skill for Claude?

BioServices is a Python-based skill that allows Claude to programmatically access over 40 bioinformatics web services and databases for biological data retrieval and analysis.

BioServices Bioinformatics

Name: BioServices Bioinformatics
Author: sanand0

bysanand0

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데이터 과학 및 ML

Accesses and integrates data from over 40 bioinformatics web services and databases using a unified Python API.

소개

BioServices is a comprehensive Python toolkit designed for researchers and bioinformaticians to programmatically interact with a vast array of biological data resources. It simplifies complex workflows by providing a single interface for UniProt, KEGG, ChEMBL, and many other databases, enabling seamless cross-database queries, identifier mapping, sequence analysis, and pathway discovery. This skill allows Claude to automate the retrieval of protein annotations, chemical compound data, and genomic information without requiring manual navigation of disparate REST or SOAP protocols.

주요 기능

Integrated sequence analysis tools for BLAST searches and sequence alignments
3 GitHub stars
Programmatic access to 40+ biological databases including UniProt, KEGG, and ChEMBL
Advanced metabolic pathway discovery and protein-protein interaction analysis
Automated retrieval of protein annotations, 3D structures, and chemical properties
Unified identifier mapping between disparate biological data sources and gene IDs

사용 사례

Automating sequence similarity pipelines using NCBI BLAST and retrieving results programmatically
Mapping protein identifiers from UniProt to KEGG pathways for functional enrichment analysis
Conducting batch compound searches across multiple chemical databases for drug discovery workflows

소개

주요 기능

Integrated sequence analysis tools for BLAST searches and sequence alignments
3 GitHub stars
Programmatic access to 40+ biological databases including UniProt, KEGG, and ChEMBL
Advanced metabolic pathway discovery and protein-protein interaction analysis
Automated retrieval of protein annotations, 3D structures, and chemical properties
Unified identifier mapping between disparate biological data sources and gene IDs

사용 사례

Automating sequence similarity pipelines using NCBI BLAST and retrieving results programmatically
Mapping protein identifiers from UniProt to KEGG pathways for functional enrichment analysis
Conducting batch compound searches across multiple chemical databases for drug discovery workflows