SPHN Metadata Catalog

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  Glittr

  Git repositories with bioinformatics training material
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  Knowledge resource on cell lines
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  UniProtKB/Swiss-Prot

  Protein knowledgebase
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  Pathoplexus

  Human viral pathogen genomic data sharing platform
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  Powering microbial genome databases
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  MELANIE

  2-D PAGE analysis
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  Tool for quantitative trait epistasis
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  Human protein knowledgebase
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  HMO-Glycologue

  Simulator of Human Milk Oligosaccharide synthesis
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  ASAP

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

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  Cellosaurus SPARQL endpoint

  SPARQL access to Cellosaurus
• • • Systems Biology

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  CLASTR

  Cellosaurus STR similarity search tool
• • • Transcriptomics
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  Bgee

  Gene expression expertise
• • • Transcriptomics
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  Bgee SPARQL endpoint

  SPARQL access to the Bgee gene expression database
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  STRING

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

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  UniProt SPARQL endpoint

  SPARQL access to UniProt and related data
• • • Evolution & Phylogeny

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  OMA

  Orthology inference among complete genomes
• • • Evolution & Phylogeny

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  OMA SPARQL endpoint

  SPARQL access to the OMA Orthology database
• • • Evolution & Phylogeny

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  OrthoDB

  Ortholog evolutionary and functional annotations
• • • Evolution & Phylogeny

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  OrthoDB SPARQL endpoint

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

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  SWISS-MODEL Repository

  Protein structure homology models
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  • • Glycomics

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  GlyConnect

  Integrated data platform to study glycosylation
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  • • Glycomics

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  UniLectin

  Structural and functional classification of lectins
• • • Transcriptomics
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  SwissRegulon

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

  Target prediction for bioactive small molecules
• • • Transcriptomics

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  PolyAsite

  Database of curated RNA polyadenylation sites
• • • Transcriptomics
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  CRUNCH

  Automated pipeline for ChIP-seq data analysis
• • • Proteins & Proteomes
  • • Glycomics

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  MatrixDB

  Extracellular proteins and polysaccharides interactions
• • • Proteins & Proteomes

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  PaxDb

  Protein abundance across several organisms
• • • Genes & Genomes
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  cancercelllines.org

  Genomic variants in human cancer cell lines
• • • Genomics
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  arrayMAP

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

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  SugarBind

  Pathogen Sugar-Binding Database
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  SNP2TFBS

  Regulatory SNPs affecting TF binding site affinity
• • • Genes & Genomes
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  Progenetix

  Genomic profiles of cancer samples with focus on CNV
• • • Genomics

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  EPD

  Eukaryotic Promoter Database
• • • Genes & Genomes
  • • Evolution & Phylogeny

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  SwissOrthology

  One-stop shop for orthologs
• • • Structural Biology

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  ModelArchive

  Repository of predicted macromolecular structure models
• • • Transcriptomics

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  miRmap

  Prediction of microRNA target repression strength
• • • Genes & Genomes
  • • Systems Biology

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  CREMA

  Cis-Regulatory Element Motif Activities
• • • Genomics
  • • Evolution biology

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  Selectome

  Database of positive selection
• • • Structural Biology
  • • Glycomics

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  UniCarb-DB

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

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  Variomes

  Search engine to support the curation of genomic variants
• • • Proteins & Proteomes
  • • Metabolomics

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  MetaNetX

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

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  MetaNetX SPARQL endpoint

  SPARQL access to MetaNetX
• • • Proteins & Proteomes

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  ABCD

  Database of chemically defined antibodies
• • • Transcriptomics

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  TagScan

  Genome-wide sequence tag scanner
• • • Transcriptomics

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  Human Cell Atlas

  Mapping the human body at the cellular level
• • • Transcriptomics
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  • • Systems Biology

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  NOODAI

  Multi-omics data analysis and integration
• • • Genes & Genomes
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  MetaGraph

  Petabase-scale sequence search
• • • Proteins & Proteomes
  • • Evolution & Phylogeny

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  Orthology Benchmarking

  Quest for Orthologs benchmarking service
• • • Proteins & Proteomes
  • • Text mining & Machine learning

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  MHC Motif Atlas

  MHC Motif Atlas
• • • Genomics
  • • Evolution biology

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  CT-CBN

  Estimate conjunctive Bayesian networks
• • • Transcriptomics
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  ISA

  Finding modules in gene expression data
• • • Proteins & Proteomes
  • • Systems Biology

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  Protein Universe Atlas

  Interactive, annotated similarity network of all proteins