94 resources found for Database management

• • • Proteins & Proteomes

  • • Database

  UniProtKB

  Protein sequence database
• • • Genomics
  • • Evolution biology

  • • Database

  Selectome

  Database of positive selection
• • • Proteins & Proteomes

  • • Database

  PROSITE

  Protein family and domain database
• • • Proteins & Proteomes
  • • Structural Biology

  • • Database

  SWISS-MODEL Repository

  Protein structure homology models
• • • Proteins & Proteomes

  • • Database

  ENZYME

  Enzyme nomenclature database
• • • Proteins & Proteomes

  • • Database
  • • Software tool

  HAMAP

  UniProtKB family classification and annotation
• • • Genes & Genomes
  • • Proteins & Proteomes
  • • Structural Biology

  • • Database

  ViralZone

  Fact sheets about viruses linked to sequence databases
• • • Transcriptomics
  • • Evolution biology

  • • Database
  • • Software tool

  Bgee

  Gene expression expertise
• • • Evolution & Phylogeny

  • • Database

  OrthoDB

  Ortholog evolutionary and functional annotations
• • • Evolution & Phylogeny

  • • Database
  • • Software tool

  OMA

  Orthology inference among complete genomes
• • • Proteins & Proteomes
  • • Metabolomics

  • • Database
  • • Software tool

  MetaNetX

  Metabolic network repository & analysis
• • • Proteins & Proteomes

  • • Database

  VenomZone

  Portal to venom protein UniProtKB entries
• • • Systems Biology

  • • Database

  Cellosaurus

  Knowledge resource on cell lines
• • • Genomics
  • • Population genetics

  • • Software tool

  V-pipe

  Viral genomics pipeline
• • • Proteins & Proteomes
  • • Glycomics

  • • Database

  UniLectin

  Structural and functional classification of lectins
• • • Genomics

  • • Database
  • • Software tool

  EPD

  Eukaryotic Promoter Database
• • • Proteins & Proteomes
  • • Structural analysis

  • • Software tool

  SwissTargetPrediction

  Target prediction for bioactive small molecules
• • • Medicinal chemistry

  • • Software tool

  SwissSimilarity

  Ligand-based virtual screening
• • • Proteins & Proteomes
  • • Structural analysis

  • • Database

  SwissSidechain

  Database of non-natural amino acid side chains
• • • Transcriptomics

  • • Software tool

  TagScan

  Genome-wide sequence tag scanner
• • • Transcriptomics
  • • Systems Biology

  • • Database

  SwissRegulon

  Database of genome-wide annotations of regulatory sites
• • • Structural analysis

  • • Software tool

  SwissParam

  Topology and parameters for small molecules
• • • Proteins & Proteomes
  • • Structural analysis

  • • Database

  SwissBioIsostere

  Database of molecular replacements for ligand design
• • • Proteins & Proteomes
  • • Glycomics

  • • Database

  SugarBind

  Pathogen Sugar-Binding Database
• • • Transcriptomics

  • • Software tool

  SIBsim4

  Align expressed RNA sequences on a DNA template
• • • Genomics

  • • Software tool

  ShoRAH

  Analysis of NGS data
• • • Genes & Genomes
  • • Evolution & Phylogeny

  • • Software tool

  REALPHY

  Inference of phylogenetic trees from genome data
• • • Transcriptomics

  • • Software tool

  QuasR

  Quantification and analysis of Short Reads
• • • Proteins & Proteomes
  • • Structural analysis

  • • Software tool

  QMEAN

  Protein model quality estimation
• • • Genes & Genomes
  • • Systems Biology

  • • Database

  Progenetix

  Genomic profiles of cancer samples with focus on CNV
• • • Proteins & Proteomes

  • • Software tool

  pftools

  Build, calibrate, and search biological sequences
• • • Proteins & Proteomes

  • • Database
  • • Software tool

  PaxDb

  Protein abundance across several organisms
• • • Structural analysis

  • • Software tool

  OpenStructure

  Molecular modelling and visualisation environment
• • • Genomics
  • • Evolution biology

  • • Software tool

  Nextstrain

  Impact of pathogen genome data on science and public health
• • • Genomics
  • • Systems Biology

  • • Database

  arrayMAP

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

  • • Software tool

  MSight

  Mass Spectrometry Imager
• • • Genomics
  • • Systems Biology

  • • Database
  • • Software tool

  iPtgxDBs

  Platform for integrated proteogenomics databases
• • • Proteins & Proteomes

  • • Software tool

  MELANIE

  2-D PAGE analysis
• • • Glycomics

  • • Software tool

  Glydin'

  Network representation of known glycan determinants
• • • Transcriptomics

  • • Software tool

  FetchGWI / tagger

  Short sequence mapping
• • • Transcriptomics
  • • Evolution biology

  • • Software tool

  BUSCO

  From QC to gene prediction and phylogenomics
• • • Proteins & Proteomes

  • • Database

  UniProtKB/Swiss-Prot

  Protein knowledgebase
• • • Proteins & Proteomes
  • • Metabolomics

  • • Database

  Rhea

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

  • • Database

  ABCD

  Database of chemically defined antibodies
• • • Proteins & Proteomes

  • • Software tool

  PeptideMass

  Theoretical protein cleavage by a given enzyme
• • • Proteins & Proteomes

  • • Software tool

  HAMAP-Scan

  Scanning of protein sequences against HAMAP families
• • • Proteins & Proteomes

  • • Software tool

  UniProt BLAST

  BLAST sequence similarity search on the UniProt web site
• • • Proteins & Proteomes
  • • Structural analysis

  • • Database

  Click2Drug

  Directory of computational drug design tools
• • • Transcriptomics
  • • Systems Biology

  • • Software tool

  CRUNCH

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

  • • Software tool

  Dotlet

  Regions of close similarity in 2 sequences
• • • Systems Biology

  • • Software tool

  CLASTR

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

  • • Software tool

  SWISS-MODEL Workspace

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

  • • Database

  TCS

  Predict interaction specificity in bacterial signalling
• • • Transcriptomics
  • • Systems Biology

  • • Software tool

  ISMARA

  Webservice for gene expression and epigenetic data analysis
• • • Genomics
  • • Systems Biology

  • • Software tool

  Phylogibbs

  Regulatory sites in a collection of DNA sequences
• • • Proteins & Proteomes

  • • Software tool

  ScanProsite

  Protein sequences against PROSITE
• • • Genes & Genomes
  • • Evolution & Phylogeny

  • • Database
  • • Software tool

  SwissOrthology

  One-stop shop for orthologs
• • • Medicinal chemistry

  • • Database
  • • Software tool

  SwissDrugDesign

  Widening access to computer-aided drug design
• • • Proteins & Proteomes
  • • Structural Biology

  • • Database
  • • Software tool

  SWISS-MODEL

  Protein structure homology-modelling
• • • Text mining & Machine learning

  • • Software tool

  Computational Linguistics for COVID-19

  Central hub in computational linguistics for COVID-19
• • • Genomics
  • • Population genetics

  • • Software tool

  V-pipe SARS-CoV-2

  V-pipe pipeline for SARS-CoV-2 sequencing data
• • • Genomics

  • • Database

  TASmania

  Toxin-antitoxin database
• • • Genomics

  • • Software tool

  TASer

  Search tool associated to TASmania
• • • Evolution & Phylogeny

  • • Database

  OMA SPARQL endpoint

  SPARQL access to the OMA Orthology database
• • • Transcriptomics
  • • Evolution biology

  • • Database

  Bgee SPARQL endpoint

  SPARQL access to the Bgee gene expression database
• • • Metagenomics

  • • Software tool

  LEMMI

  Continuous benchmarking of methods for metagenomics
• • • Proteins & Proteomes

  • • Database

  HAMAP SPARQL endpoint

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

  • • Database

  UniProt SPARQL endpoint

  SPARQL access to UniProt and related data
• • • Transcriptomics

  • • Database
  • • Software tool

  ASAP

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

  • • Database

  PolyAsite

  Database of curated RNA polyadenylation sites
• • • Proteins & Proteomes
  • • Metabolomics

  • • Database

  Rhea SPARQL endpoint

  SPARQL access to the Rhea knowledgebase
• • • Text mining & Machine learning

  • • Database
  • • Software tool

  SIBiLS

  Personalized information retrieval from the literature
• • • Proteins & Proteomes
  • • Glycomics

  • • Database

  GAG-DB

  3D structures of glycosaminoglycans
• • • Evolution & Phylogeny

  • • Software tool

  raxmlGUI

  raxmlGUI 2.0 is a graphical user interface to RAxML
• • • Glycomics

  • • Software tool

  GlyConnect Compozitor

  Contextualises glycan composition sets
• • • Proteins & Proteomes
  • • Glycomics

  • • Database
  • • Software tool

  Glyco@Expasy

  Zooming in on web-based glycoinformatics resources
• • • Text mining & Machine learning

  • • Software tool

  Variomes

  Search engine to support the curation of genomic variants
• • • Evolution & Phylogeny

  • • Database

  Swiss-Trees

  A collection of gold standard gene phylogenies
• • • Genomics
  • • Evolution & Phylogeny

  • • Software tool

  Nextclade

  Clade assignment, mutation calling & QC for virus sequences
• • • Structural Biology

  • • Database

  ModelArchive

  Repository of predicted macromolecular structure models
• • • Proteins & Proteomes
  • • Structural Biology

  • • Database
  • • Software tool

  CAMEO

  Weekly automated benchmarking of protein structure modelling
• • • Transcriptomics

  • • Database

  Glittr

  Git repositories with bioinformatics training material
• • • Genes & Genomes
  • • Systems Biology

  • • Software tool

  CREMA

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

  • • Software tool

  DWT-online

  Dinucleotide Weight Tensor toolbox and visualisation service
• • • Systems Biology

  • • Database

  Cellosaurus SPARQL endpoint

  SPARQL access to Cellosaurus
• • • Proteins & Proteomes

  • • Software tool

  OMArk

  OMArk determines the quality and completeness of gene sets
• • • Text mining & Machine learning

  • • Software tool

  BiotXplorer

  Biotic interactions from scientific publications
• • • Text mining & Machine learning

  • • Software tool

  Biodiversity PMC

  Search a large collection of scientific publications
• • • Glycomics

  • • Software tool

  GlycoQL

  Match a glycan substructure to a database of full structures
• • • Genomics

  • • Database

  Pathoplexus

  Human viral pathogen genomic data sharing platform
• • • Proteins & Proteomes
  • • Glycomics

  • • Database

  MatrixDB

  Extracellular proteins and polysaccharides interactions
• • • Proteins & Proteomes

  • • Software tool

  prolfqua

  R package for protein differential expression analysis
• • • Proteins & Proteomes
  • • Evolution & Phylogeny

  • • Software tool

  OMAmer

  Alignment-free protein subfamily assignment
• • • Transcriptomics
  • • Systems Biology

  • • Software tool

  Bonsai

  Analysis of scRNA-seq data