UniProtKB

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• • • Genes & Genomes
  • • Proteins & Proteomes
  • • Structural Biology

  • • Database

  ViralZone

  Factsheets about viruses linked to sequence databases
• • • Evolution & Phylogeny

  • • Database

  OrthoDB

  Ortholog evolutionary and functional annotations
• • • Proteins & Proteomes

  • • Database

  UniProtKB/Swiss-Prot

  Protein knowledgebase
• • • Proteins & Proteomes

  • • Software tool

  HAMAP-Scan

  Scanning of protein sequences against HAMAP families
• • • Genomics

  • • Database

  TASmania

  Toxin-antitoxin database
• • • Genomics

  • • Software tool

  TASer

  Search tool associated to TASmania
• • • Evolution & Phylogeny

  • • Database

  OrthoDB SPARQL endpoint

  SPARQL access to the OrthoDB catalog of orthologs
• • • Proteins & Proteomes

  • • Database

  UniProt SPARQL endpoint

  SPARQL access to UniProt and related data
• • • Proteins & Proteomes

  • • Software tool

  ScanProsite

  Protein sequences against PROSITE
• • • Evolution & Phylogeny

  • • Software tool

  OrthoLoger

  Accurate and scalable inference of groups of orthologs
• • • Evolution & Phylogeny

  • • Database
  • • Software tool

  OMA

  Orthology inference among complete genomes
• • • Proteins & Proteomes
  • • Systems Biology

  • • Database
  • • Software tool

  STRING

  Protein-protein interaction networks and enrichment analysis
• • • Proteins & Proteomes
  • • Lipidomics

  • • Database

  SwissLipids

  Knowledge resource for lipids
• • • Proteins & Proteomes
  • • Metabolomics

  • • Database

  Rhea

  Expert-curated database of biochemical reactions
• • • Proteins & Proteomes

  • • Database

  ENZYME

  Enzyme nomenclature database
• • • Proteins & Proteomes
  • • Metabolomics

  • • Database

  Rhea SPARQL endpoint

  SPARQL access to the Rhea knowledgebase
• • • Glycomics

  • • Software tool

  HMO-Glycologue

  Simulator of Human Milk Oligosaccharide synthesis
• • • Proteins & Proteomes
  • • Lipidomics

  • • Database

  SwissLipids SPARQL endpoint

  SPARQL access to the SwissLipids knowledgebase
• • • Systems Biology

  • • Software tool

  OMAMO

  OMAMO allows the user to find the best simple model organism
• • • Proteins & Proteomes
  • • Systems Biology

  • • Database

  TCS

  Predict interaction specificity in bacterial signalling
• • • Proteins & Proteomes
  • • Glycomics

  • • Database

  MatrixDB

  Extracellular proteins and polysaccharides interactions
• • • Proteins & Proteomes
  • • Metabolomics

  • • Database
  • • Software tool

  MetaNetX

  Metabolic network repository & analysis
• • • Proteins & Proteomes
  • • Metabolomics

  • • Database

  MetaNetX SPARQL endpoint

  SPARQL access to MetaNetX
• • • Transcriptomics
  • • Systems Biology

  • • Software tool

  Bonsai

  Analysis of single cell RNA-seq data
• • • Evolution biology
  • • Systems Biology

  • • Database

  MoultDB

  Integrative resource on moulting in arthropods
• • • Transcriptomics
  • • Proteins & Proteomes
  • • Systems Biology

  • • Software tool

  NOODAI

  Multi-omics data analysis and integration
• • • Proteins & Proteomes
  • • Structural analysis

  • • Software tool

  QMEAN

  Protein model quality estimation
• • • Proteins & Proteomes
  • • Structural analysis

  • • Software tool

  SWISS-MODEL Workspace

  Fully automated protein structure homology-modeling server
• • • Proteins & Proteomes
  • • Structural Biology

  • • Database
  • • Software tool

  SWISS-MODEL

  Protein structure homology-modelling
• • • Proteins & Proteomes
  • • Systems Biology

  • • Database

  Protein Universe Atlas

  Interactive, annotated similarity network of all proteins
• • • Transcriptomics

  • • Database

  Glittr

  Git repositories with bioinformatics training material
• • • Systems Biology

  • • Database

  Cellosaurus

  Knowledge resource on cell lines
• • • Genomics

  • • Database

  Pathoplexus

  Human viral pathogen genomic data sharing platform
• • • Genomics

  • • Software tool

  Loculus

  Powering microbial genome databases
• • • Transcriptomics
  • • Evolution & Phylogeny
  • • Systems Biology

  • • Database
  • • Software tool

  SwissRegulon Portal

  Tools and data for regulatory genomics
• • • Genes & Genomes
  • • Systems Biology

  • • Software tool

  CREMA

  Cis-Regulatory Element Motif Activities
• • • Transcriptomics
  • • Systems Biology

  • • Software tool

  CRUNCH

  Automated pipeline for ChIP-seq data analysis
• • • Transcriptomics

  • • Database

  PolyAsite

  Database of curated RNA polyadenylation sites
• • • Genomics

  • • Database
  • • Software tool

  EPD

  Eukaryotic Promoter Database
• • • Transcriptomics

  • • Database
  • • Software tool

  ASAP

  Web-based, cooperative portal for single-cell data analyses
• • • Systems Biology

  • • Database

  Cellosaurus SPARQL endpoint

  SPARQL access to Cellosaurus
• • • Transcriptomics
  • • Evolution biology

  • • Database
  • • Software tool

  Bgee

  Gene expression expertise
• • • Transcriptomics
  • • Evolution biology

  • • Database

  Bgee SPARQL endpoint

  SPARQL access to the Bgee gene expression database
• • • Evolution & Phylogeny

  • • Database

  OMA SPARQL endpoint

  SPARQL access to the OMA Orthology database
• • • Proteins & Proteomes
  • • Structural Biology

  • • Database

  SWISS-MODEL Repository

  Protein structure homology models
• • • Proteins & Proteomes
  • • Glycomics

  • • Database

  GlyConnect

  Integrated data platform to study glycosylation
• • • Proteins & Proteomes
  • • Glycomics

  • • Database

  UniLectin

  Structural and functional classification of lectins
• • • Transcriptomics
  • • Systems Biology

  • • Database

  SwissRegulon

  Database of genome-wide annotations of regulatory sites
• • • Proteins & Proteomes

  • • Database
  • • Software tool

  PaxDb

  Protein abundance across several organisms
• • • Genes & Genomes
  • • Evolution & Phylogeny

  • • Database
  • • Software tool

  SwissOrthology

  One-stop shop for orthologs
• • • Structural Biology

  • • Database

  ModelArchive

  Repository of predicted macromolecular structure models
• • • Transcriptomics

  • • Software tool

  miRmap

  Prediction of microRNA target repression strength
• • • Genomics
  • • Evolution biology

  • • Database

  Selectome

  Database of positive selection
• • • Proteins & Proteomes

  • • Database

  ABCD

  Database of chemically defined antibodies
• • • Transcriptomics

  • • Software tool

  TagScan

  Genome-wide sequence tag scanner
• • • Transcriptomics

  • • Database
  • • Software tool

  Fly Cell Atlas

  Single-cell transcriptomes of the entire adult Drosophila
• • • Genes & Genomes
  • • Proteins & Proteomes

  • • Software tool

  MetaGraph

  Petabase-scale sequence search
• • • Proteins & Proteomes

  • • Database
  • • Software tool

  neXtProt

  Human protein knowledgebase
• • • Systems Biology

  • • Software tool

  CLASTR

  Cellosaurus STR similarity search tool
• • • Proteins & Proteomes
  • • Structural analysis

  • • Software tool

  SwissTargetPrediction

  Target prediction for bioactive small molecules
• • • Genes & Genomes
  • • Systems Biology

  • • Database

  cancercelllines.org

  Genomic variants in human cancer cell lines
• • • Genomics
  • • Systems Biology

  • • Database

  arrayMAP

  Curated array data repository for cancer genomics
• • • Proteins & Proteomes
  • • Glycomics

  • • Database

  SugarBind

  Pathogen Sugar-Binding Database
• • • Genomics

  • • Database
  • • Software tool

  SNP2TFBS

  Regulatory SNPs affecting TF binding site affinity
• • • Genes & Genomes
  • • Systems Biology

  • • Database

  Progenetix

  Genomic profiles of cancer samples with focus on CNV
• • • Structural Biology
  • • Glycomics

  • • Database

  UniCarb-DB

  Glycan structures and associated mass spectrometry data
• • • Text mining & Machine learning

  • • Software tool

  Variomes

  Search engine to support the curation of genomic variants
• • • Transcriptomics

  • • Database
  • • Software tool

  Human Cell Atlas

  Mapping the human body at the cellular level
• • • Proteins & Proteomes
  • • Glycomics

  • • Software tool

  GlycoSiteAlign

  Multiple alignment of sequences around glycosylation sites
• • • Proteins & Proteomes

  • • Software tool

  PRATT

  Conserved patterns in a set of protein sequences
• • • Proteins & Proteomes

  • • Database
  • • Software tool

  HAMAP

  UniProtKB family classification and annotation
• • • Proteins & Proteomes

  • • Database

  HAMAP SPARQL endpoint

  SPARQL access to the HAMAP annotation rules
• • • Proteins & Proteomes

  • • Database

  PROSITE

  Protein family and domain database
• • • Proteins & Proteomes
  • • Text mining & Machine learning

  • • Database

  MHC Motif Atlas

  MHC Motif Atlas
• • • Proteins & Proteomes
  • • Glycomics

  • • Database
  • • Software tool

  Glyco@Expasy

  Zooming in on web-based glycoinformatics resources
• • • Glycomics

  • • Software tool

  GlyConnect Compozitor

  Contextualises glycan composition sets
• • • Proteins & Proteomes

  • • Software tool

  MyDomains

  Protein domains image creator