Does this skill support ID mapping between different databases?

Yes, it provides access to the UniProt ID mapping service, allowing you to convert identifiers from Ensembl, RefSeq, PDB, AlphaFoldDB, and more.

Can I retrieve protein sequences in FASTA format?

Yes, the skill supports direct FASTA retrieval for individual entries or batch results via the REST API endpoints.

Can I filter for only reviewed protein entries?

Yes, you can use the 'reviewed:true' query parameter to limit results to high-quality, manually curated Swiss-Prot entries.

How do I handle large datasets that exceed pagination limits?

The skill includes functionality for the UniProt stream endpoint, which allows you to download complete datasets without standard pagination restrictions.

UniProt Database Integration

Name: UniProt Database Integration
Author: pur3v4d3r

bypur3v4d3r

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数据科学与机器学习

Accesses UniProt's comprehensive protein sequence and functional information resource via REST API for bioinformatics workflows.

This skill provides Claude with direct access to the UniProt knowledgebase, the world's leading resource for protein sequence and functional data. It enables seamless searching by gene, name, or organism, retrieval of FASTA sequences, and complex ID mapping between various biological databases like Ensembl, RefSeq, and PDB. Whether conducting batch retrievals, streaming large datasets, or filtering for manually curated Swiss-Prot entries, this skill streamlines protein analysis and bioinformatics research directly within the development environment.

主要功能

01Support for multiple formats including FASTA, JSON, TSV, and XML

02Batch ID mapping between UniProt and external databases

03Streaming capabilities for large-scale protein dataset downloads

04Direct REST API access for protein search and retrieval

05Customizable field selection for optimized data transfer

061 GitHub stars

使用场景

01Retrieving amino acid sequences for specific gene lists

02Automating the collection of protein annotations and GO terms

03Mapping protein identifiers across different bioinformatics ecosystems

What are Skills?·How to Install

Install with 🐟 Skill.Fish

npx skillfish add pur3v4d3r/pur3-pkb-codebase uniprot-database

For use in Claude.ai and ChatGPT

Download Skill