How does gget handle protein structure prediction?

The skill includes an alphafold module for 3D structure prediction and a pdb module for querying the RCSB Protein Data Bank.

What biological databases can gget access?

gget provides access to over 20 databases including Ensembl, UniProt, AlphaFold, NCBI, ARCHS4, and COSMIC.

Can I perform BLAST searches with this skill?

Yes, gget is optimized for rapid BLAST searches of nucleotide and amino acid sequences against standard databases.

Does gget support reference genome downloads?

Yes, the 'ref' module allows you to find and download reference genomes, GTF annotations, and cDNA sequences from Ensembl for various species.

Bioinformatics & Genomic Queries

Name: Bioinformatics & Genomic Queries
Author: Activer007

byActiver007

Data Science & ML

Queries 20+ genomic databases for gene information, protein structures, and sequence analysis directly within your development environment.

About

The gget skill provides a unified interface for bioinformatics research, enabling rapid access to over 20 specialized databases like Ensembl, UniProt, and NCBI. It simplifies complex tasks such as fetching gene metadata, performing BLAST/BLAT alignments, and predicting 3D protein structures via AlphaFold2 integration. Designed for researchers and computational biologists, it streamlines the data retrieval process, allowing users to transition seamlessly from sequence identification to functional analysis and structural modeling without leaving their workflow.

Key Features

Automated reference genome and annotation downloads
0 GitHub stars
Protein structure prediction with AlphaFold2 integration
Unified access to 20+ genomic and biological databases
Rapid BLAST and BLAT sequence alignment searches
Gene expression and disease association retrieval

Use Cases

Identifying gene correlations and tissue-specific expression patterns
Fetching DNA or protein sequences for specific Ensembl or UniProt identifiers
Predicting 3D protein structures and linear motifs for sequence analysis

About

Key Features

Automated reference genome and annotation downloads
0 GitHub stars
Protein structure prediction with AlphaFold2 integration
Unified access to 20+ genomic and biological databases
Rapid BLAST and BLAT sequence alignment searches
Gene expression and disease association retrieval

Use Cases

Identifying gene correlations and tissue-specific expression patterns
Fetching DNA or protein sequences for specific Ensembl or UniProt identifiers
Predicting 3D protein structures and linear motifs for sequence analysis