A genome browser is a graphical interface for display of information from a biological database

Biological database

Biological databases are libraries of life sciences information, collected from scientific experiments, published literature, high-throughput experiment technology, and computational analyses. They contain information from research areas including genomics, proteomics, metabolomics, microarray...

 for genomic data. Genome browsers enable researchers to visualize and browse entire genomes (most have many complete genomes) with annotated data including gene prediction and structure, proteins, expression, regulation, variation, comparative analysis, etc. Annotated data is usually from multiple diverse sources. They differ from ordinary biological databases in that they display data in a graphical format, with genome coordinates on one axis and the location of annotations indicated by a space-filling graphic to show the occurrence of genes, etc.

List of genome browsers

• Annmap A genome browser that shows Affymetrix
  Affymetrix
  Affymetrix is a company that manufactures DNA microarrays; it is based in Santa Clara, California, United States. The company was founded by Dr. Stephen Fodor in 1992. It began as a unit in Affymax N.V...
  
   Exon
  Exon
  An exon is a nucleic acid sequence that is represented in the mature form of an RNA molecule either after portions of a precursor RNA have been removed by cis-splicing or when two or more precursor RNA molecules have been ligated by trans-splicing. The mature RNA molecule can be a messenger RNA...
  
   Microarray hit locations alongside the gene
  Gene
  A gene is a molecular unit of heredity of a living organism. It is a name given to some stretches of DNA and RNA that code for a type of protein or for an RNA chain that has a function in the organism. Living beings depend on genes, as they specify all proteins and functional RNA chains...
  
  , transcript and exon data on a Google Maps
  Google Maps
  Google Maps is a web mapping service application and technology provided by Google, free , that powers many map-based services, including the Google Maps website, Google Ride Finder, Google Transit, and maps embedded on third-party websites via the Google Maps API...
  
   API
• Apollo Genome Annotation Curation Tool A cross-platform, Java-based standalone genome viewer with enterprise-level functionality and customizations. The standard for many model organism databases.
• Argo Genome Browser A free and open source standalone Java-based genome browser for visualizing and manually annotating whole genomes.
• Avadis NGS combines a genome browser and set of data analysis tools for ChIP-Seq, RNA-Seq
  RNA-Seq
  RNA-seq, also called "Whole Transcriptome Shotgun Sequencing" and dubbed "a revolutionary tool for transcriptomics", refers to the use of high-throughput sequencing technologies to sequence cDNA in order to get information about a sample's RNA content, a technique that is quickly becoming...
  
  , and genomic variation experiments, developed by Strand Life Sciences
  Strand Life Sciences
  Strand Life Sciences, formerly Strand Genomics, is a Bangalore, India-based in silico technology company. Strand focuses in data mining, predictive modeling, computational chemistry, software engineering, bioinformatics, and research biology to develop software and services for life sciences...
  
  
• BugView Free cross-platform desktop browser for visualizing genomes, especially suited for comparing prokaryotic genomes.
• Celera Genome Browser, developed at Celera Genomics as part of Celera's sequencing and annotation of the human genome, and released as open source in 2006.
• DiProGB: The Dinucleotide Properties Genome Browser
• DNAnexus Flash-based interactive genome browser, as well as next-gen sequence analysis and visualization.
• Ensembl The Ensembl
  Ensembl
  Ensembl is a joint scientific project between the European Bioinformatics Institute and the Wellcome Trust Sanger Institute, which was launched in 1999 in response to the imminent completion of the Human Genome Project...
  
   Genome Browser (Sanger Institute
  Sanger Institute
  The Wellcome Trust Sanger Institute is a non-profit, British genomics and genetics research institute, primarily funded by the Wellcome Trust....
  
   and EBI
  European Bioinformatics Institute
  The European Bioinformatics Institute is a centre for research and services in bioinformatics, and is part of European Molecular Biology Laboratory...
  
  )
• GBrowse The GMOD
  Generic Model Organism Database
  The Generic Model Organism Database Project began as an effort to create reusable software tools for developing Model Organism Databases . MODs describe genome and other information about important experimental organisms in the life sciences...
  
   GBrowse Project
• The Genomic HyperBrowser
  The Genomic HyperBrowser
  The Genomic HyperBrowser is a web-based system for statistical analysis of genomic annotation data. The primary focus is on statistical inference on relations between genomic tracks, though simpler descriptive statistics and analysis of individual tracks is also supported...
  
   focuses on statistical analysis of elements along the genome.
• Genostar GenoBrowser: a standalone application to display and explore genomic data from any kind of file (EMBL, GenBank, Fasta, GFF...)
• GenPlay A genome viewer and analyzer developed in Java at Albert Einstein College of Medicine.
• Integrated Genome Browser
  Integrated Genome Browser
  Integrated Genome Browser is an open source genome browser, a visualization tool used to observe biologically-interesting patterns in genomic data sets, including sequence data, gene models, alignments, and data from DNA microarrays.- History :...
  
   (IGB) Open source and free Java-based desktop genome viewer for visualizing next-gen sequence and microarray data.
• Integrated Microbial Genomes (IMG) system by the DOE-Joint Genome Institute
  Joint Genome Institute
  The U.S. Department of Energy Joint Genome Institute was created in 1997 to unite the expertise and resources in genome mapping, DNA sequencing, technology development, and information sciences pioneered at the DOE genome centers at Lawrence Berkeley National Laboratory , Lawrence Livermore...
  
  
• MGV - Microbial Genome Viewer
• MochiView Genome Browser
• NextBio Genome Browser - an interactive application that lets visualization of physical relationship between private or public biosets and different types of genomic elements, including genes, miRNA targets, CNVs, CpG islands, SNPs, GWAS associations, and LD blocks]
• Pathway Tools Genome Browser
• SEED viewer for visualizing and interrogating the SEED database of complete microbial genomes
• UCSC Genome Bioinformatics Genome Browser
  UCSC Genome Browser
  The University of California, Santa Cruz is an up-to-date source for genome sequence data from a variety of vertebrate and invertebrate species and major model organisms, integrated with a large collection of aligned annotations...
  
   and Tools (UCSC
  University of California, Santa Cruz
  The University of California, Santa Cruz, also known as UC Santa Cruz or UCSC, is a public, collegiate university; one of ten campuses in the University of California...
  
  )
• Viral Genome Organizer (VGO) A genome browser providing visualization and analysis tools for annotated whole genomes from the eleven virus families in the VBRC (Viral Bioinformatics Resource Center) databases
• VISTA genome browser a comprehensive suite of programs and databases for comparative analysis of genomic sequences. There are two ways of using VISTA - you can submit your own sequences and alignments for analysis (VISTA servers) or examine pre-computed whole-genome alignments of different species.