Biology & Genomics

Predict structures and binding for one protein, RNA, DNA or ligand complex

Query cBioPortal for cancer studies, mutations, clinical data and samples

Find CELLxGENE single-cell collections and dataset metadata in short summaries

Search ChEBI for chemical compounds, ontology terms and structure metadata

Query ChEMBL for bioactivity, molecules, targets and drug mechanisms

Pull CIViC cancer variant evidence and schema details through GraphQL queries

Look up ClinVar and NCBI variant records for clinical significance and IDs

Resolve EFO disease and trait terms and expand them to child terms

Search ENCODE objects and metadata for regulatory genomics datasets

Look up Ensembl genes, overlaps, cross-references and variants in short summaries

Query EpiGraphDB for ontology, Mendelian randomization and gene-drug evidence

Retrieve eQTL Catalogue association results and dataset metadata concisely

Look up European Variation Archive species metadata and archived variants

Fetch FinnGen PheWAS association summaries for a single variant by rsID

Fetch Genebass gene burden PheWAS results for one Ensembl gene

Query gnomAD for variant frequencies, gene constraint and variant context

Get GTEx single-tissue eQTL associations for a variant as JSON

Search GWAS Catalog studies, associations, SNPs and traits in concise form

Search HMDB for metabolites, proteins, diseases and pathways in short summaries

Look up Human Protein Atlas gene expression by tissue and cell line

Look up HLA allele and cell-level metadata from the IPD database

Map GWAS loci to ranked candidate genes with reproducible tables and figures

Find MetaboLights metabolomics studies and their study-level metadata

Look up MGnify microbiome studies, samples and biome metadata

Run NCBI BLAST sequence searches and summarize the top hits

Search NCBI Gene for human genes with autocomplete-style results

Look up NCBI genome assemblies and taxonomy metadata in concise summaries

Run 16S, ITS and other amplicon microbiome workflows with nf-core and QIIME2

Route sequencing data requests to the right NGS analysis skill

Plan or run ATAC-seq QC, peak calling and differential accessibility analysis

Validate Illumina run folders and convert BCL files to FASTQ with demux QC

Route bulk RNA-seq requests to FASTQ processing or differential expression

Process bulk RNA-seq FASTQ into count matrices with alignment and MultiQC checks

Run bulk RNA-seq differential expression from count matrices with contrast checks

Plan ChIP-seq and CUT&RUN peak calling with QC, controls and spike-ins

Plan germline WGS, WES and panel variant calling with joint calling and QC

Run tumor-normal and cancer panel somatic variant calling with purity and QC checks

Plan UMI-based targeted DNA panel variant calling with duplex consensus and panel QC

Route WGS, WES and panel variant requests to the right germline or somatic workflow

Plan ATAC-seq, ChIP-seq and CUT&RUN peak calling with QC and differential peaks

Run FastQC and MultiQC on FASTQ files and trim reads without touching raw data

Check which sequencing tools and packages are installed before running a pipeline

Generate count matrices from single-cell and single-nucleus RNA-seq FASTQ files

Run shotgun metagenomics QC, host removal and taxonomic profiling with nf-core

Query Open Targets for target, disease and drug evidence in concise form

Find PRIDE proteomics projects and their metadata in concise summaries

Query ProteomeXchange PROXI for datasets, peptides, proteins and spectra

Search QuickGO for Gene Ontology terms, annotations and their hierarchy

Search the RCSB PDB for structure metadata and download FASTA sequences