Post-translational modification analysis including phosphorylation, acetylation, and ubiquitination. Covers site localization, motif analysis, and quantitative PTM analysis. Use when analyzing phosphoproteomic data or other modification-enriched samples.
Cell segmentation from multiplexed tissue images. Covers deep learning (Cellpose, Mesmer) and classical approaches for nuclear and whole-cell segmentation. Use when extracting single-cell data from IMC or MIBI images after preprocessing.
Predict B-cell and T-cell epitopes using BepiPred, IEDB tools, and structure-based methods for vaccine and antibody design. Identify immunogenic regions in antigens. Use when designing vaccines, mapping antibody binding sites, or predicting immunogenic peptides.
Problem-solving strategies for root finding in numerical methods
Competitive landscape research with positioning maps
Expert in vector databases, embedding strategies, and semantic search implementation. Masters Pinecone, Weaviate, Qdrant, Milvus, and pgvector for RAG applications, recommendation systems, and similar
Discover Prisma SD-WAN sites, ION elements, machines, and network topology
Skills for Open-ST spatial transcriptomics data processing, from raw BCL files to spatially-resolved single-cell h5ad objects.
Skills for single-cell and spatial omics data analysis. Best practices, code snippets, and workflows for the scverse ecosystem.
Skills for querying and downloading data from genomic, transcriptomic, and single-cell databases. Covers programmatic access to public repositories, gene annotation, sequence retrieval, and large-scale single-cell data.
Retrieve disease-associated targets from Open Targets using disease EFO IDs to identify therapeutic targets.
NCBI Gene Deep Dive - Deep dive into NCBI gene: metadata, dataset report, product report, orthologs, and gene links. Use this skill for gene biology tasks involving get gene metadata by gene name get gene dataset report by id get gene product report by id get gene orthologs get gene links by id. Combines 5 tools from 1 SCP server(s).
Orphan Drug & Rare Disease Analysis - Analyze orphan drugs: Monarch disease phenotypes, OpenTargets targets, FDA drug data, and clinical studies. Use this skill for orphan drug development tasks involving get joint associated diseases by HPO ID list get associated targets by disease efoId get clinical studies info by drug name pubmed search. Combines 4 tools from 4 SCP server(s).
Multi-Species Gene Analysis - Analyze gene across species: Ensembl homologs, NCBI orthologs, cross-species STRING similarity, and taxonomy. Use this skill for comparative genomics tasks involving get homology symbol get gene orthologs get best similarity hits between species get taxonomy. Combines 4 tools from 3 SCP server(s).
Tissue-Specific Expression Analysis - Analyze tissue-specific expression: ChEMBL tissue data, TCGA cancer expression, Ensembl gene info, and NCBI gene data. Use this skill for tissue biology tasks involving get tissue by id get gene expression across cancers get lookup symbol get gene metadata by gene name. Combines 4 tools from 4 SCP server(s).
Variant Pathogenicity Assessment - Assess variant pathogenicity: Ensembl VEP prediction, ClinVar lookup, variation details, and gene phenotype associations. Use this skill for clinical genetics tasks involving get vep hgvs clinvar search get variation get phenotype gene. Combines 4 tools from 2 SCP server(s).
Microbiome Genomics Analysis - Analyze microbial genome: NCBI genome data, taxonomy, KEGG metabolic pathways, and annotation. Use this skill for metagenomics tasks involving get genome dataset report by taxon get taxonomy kegg find get genome annotation report. Combines 4 tools from 2 SCP server(s).
Molecular Fingerprint Analysis - Fingerprint analysis: topology descriptors, structure complexity, similarity calculation, and AromaticityAnalysis. Use this skill for cheminformatics tasks involving calculate mol topology calculate mol structure complexity calculate smiles similarity AromaticityAnalyzer. Combines 4 tools from 2 SCP server(s).
Search KEGG database for gene information to retrieve pathway associations, functional annotations, and disease links.
UniProt Deep Protein Analysis - Deep UniProt analysis: entry data, UniRef clusters, UniParc cross-references, and gene-centric view. Use this skill for protein science tasks involving get uniprotkb entry by accession get uniref cluster by id get uniparc entry by upi get gene centric by accession. Combines 4 tools from 1 SCP server(s).
Genetic Counseling Variant Report - Generate variant report for genetic counseling: VEP, ClinVar, gene phenotype, and literature evidence. Use this skill for clinical genetics tasks involving get vep hgvs clinvar search get phenotype gene pubmed search. Combines 4 tools from 2 SCP server(s).
Genome Annotation Pipeline - Annotate a genome: NCBI annotation report, Ensembl gene lookup, UCSC tracks, and KEGG pathway links. Use this skill for genomics tasks involving get genome annotation report get lookup symbol list tracks kegg link. Combines 4 tools from 4 SCP server(s).
