Bioinformatics Bioinformatics Server

The SIB Swiss Institute of Bioinformatics

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The SIB Swiss Institute of Bioinformatics is an academic not-for-profit organization and freely available online server of Bioinformatics. Its primary mission is to guide and coordinate the field of bioinformatics in Switzerland. Its data science experts join forces to advance biological and medical research and enhance health by;

  • providing the national and international life science community with a state-of-the-art bioinformatics infrastructure, including resources, expertise and services
  • federating world-class researchers and delivering training in bioinformatics. It includes some 65 world-class research and service groups and some 800 scientists in the fields of genomics, transcriptomics, proteomics, evolution, population genetics, systems biology, structural biology, biophysics and clinical bioinformatics

The institute was accepted on 30 March 1998 and its mission is to provide core bioinformatics resources to the national and international life science research community in fields such as genomics, proteomics and systems biology as well as to lead and coordinate the field of bioinformatics in Switzerland. In particular, it promotes research, develops databanks and computer technologies, and is involved in teaching and service activities.

Databases in SIB

SIB develops and maintains databases of international standing, including;

  • UniProtKB/Swiss-Prot for curated protein sequence database providing a high level of annotation
  • neXtProt for human-centric protein knowledge platform
  • SWISS-MODEL Repository for three-dimensional protein structure models
  • STRING for protein interaction networks for Systems Biology
  • SwissRegulon for genome-wide transcription regulatory networks
  • Eukaryotic Promoter Database (EPD)
  • SWISS-2DPAGE (2D gel database)
  • WORLD-2DPAGE Repository (2D gel repository)
  • mirz (small RNA expression atlas)
  • CLIPZ  for databases of binding sites of RNA-binding proteins
  • PROSITE for protein families and domains
  • MyHits (protein sequences and motifs)
  • CleanEx (gene expression data)
  • Bgee is a database to retrieve and compare gene expression patterns between animal species)
  • OpenFlu is a database for human and animal influenza virus
  • ViralZone is a portal to viral UniProtKB entries
  • GlycoSuiteDB (glycan database)
  • SugarBindDB (Pathogen Sugar-Binding Database)
  • OrthoDB (the hierarchical catalogue of eukaryotic orthologs)
  • miROrtho is the catalogue of animal microRNA genes
  • ImmunoDB (insect immune-related genes and gene families) 
  • Cellosaurus (a knowledge resource on cell lines)

Software tools in SIB

SIB develops and supplies software for the global life science research community, such as;

  • SWISS-MODEL (protein structure homology modelling)
  • SwissDock/EADock (ligand docking)
  • ISA (integrative bi-clustering tool)
  • PPA (coupled modularization of several datasets)
  • Melanie (2D gel analysis platform)
  • MSight (LC-MS imaging and analysis software)
  • OMA (Orthology Matrix)
  • DeepView/Swiss-PdbViewer (protein visualization
  • modelling and analysis)
  • Newick utilities (high-throughput phylogenetic tree processing)

SIB manages certain bioinformatics core facilities that provide informatics and statistical support, as well as services and advice to life scientists, thus enabling them to conduct their research projects and analyze the resulting data. Core facilities have been set up for genomics, transcriptomics and proteomics research. SIB also maintains the Vital-IT High Performance Computing Centre that provides computational resources, development support and consultancy to the Swiss life science community both in academia and industry. 

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