Ensembl Genome Browser – retrieve genomic information

Ensembl aims to provide a centralized resource for geneticists, molecular biologists and other researchers studying the genomes of our own species and other vertebrates and model organisms. Ensembl is one of several well known genome browsers for the retrieval of genomic information.

Ensembl is a genome browser for vertebrate genomes that supports research in comparative genomics, evolution, sequence variation and transcriptional regulation. Ensembl annotate genes, computes multiple alignments, predicts regulatory function and collects disease data.

The Ensembl project is both a source of genome sequence related data and an open source software system that can be used to organize any such data.

Features include:

  • Graphical interface, which allows users to scroll through a genome and observe the relative location of features such as conceptual annotation (e.g. genes, SNP loci), sequence patterns (e.g. repeats) and experimental data (e.g. sequences and external sequence features mapped onto the genome).
  • Graphical views are available for varying levels of resolution from an entire karyotype, down to the sequence of a single exon.
  • Annotates known genes and predicts novel genes, with functional annotation from the InterPro protein family databases and with additional annotation by OMIM disease, SAGE expression, and by gene family.
  • Compare and visualize user data while browsing karyotypes and genes.
  • Supports the following file types: BED, BedGraph, Generic, GFF/GTF, PSL, WIG, BAM, BigBed, BigWig, and VCF.
  • Biomart – programming free search engine incorporated in Ensembl and Ensembl Genomes.
  • BLAST interface
  • Second sequence search tool, that uses an algorithm based on Exonerate.
  • Variant Effect Predictor – explore and analyze what is the effect that the variants (SNPs, CNVs, indels or structural variations) have on a particular gene, sequence, protein, transcript or transcription factor.
  • Integrated, context sensitive, searchable help system.

Website: www.ensembl.org
Support: Documentation, Blog, GitHub Code Repository
Developer: European Bioinformatics Institute and the Wellcome Trust Sanger Institute
License: Apache 2.0 licence

Ensemble genome browser

Ensembl is written in Perl. Learn Perl with our recommended free books and free tutorials.

Return to Web Based Genome Browsers Home Page


Popular series
Guide to LinuxNew to Linux? Read our Linux for Starters series. We start right at the basics and teach you everything you need to know to get started with Linux.
Free and Open Source SoftwareThe largest compilation of the best free and open source software in the universe. Each article is supplied with a legendary ratings chart helping you to make informed decisions.
ReviewsHundreds of in-depth reviews offering our unbiased and expert opinion on software. We offer helpful and impartial information.
Alternatives to Proprietary SoftwareReplace proprietary software with open source alternatives: Google, Microsoft, Apple, Adobe, IBM, Autodesk, Oracle, Atlassian, Corel, Cisco, Intuit, and SAS.
Linux Around The WorldLinux Around The World showcases events and usergroups that are relevant to Linux enthusiasts.
AudioSurveys popular streaming services from a Linux perspective: Amazon Music Unlimited, Myuzi, Spotify, Deezer, Tidal.
Saving Money with LinuxSaving Money with Linux looks at how you can reduce your energy bills running Linux.
System ToolsEssential Linux system tools focuses on small, indispensable utilities, useful for system administrators as well as regular users.
ProductivityLinux utilities to maximise your productivity. Small, indispensable tools, useful for anyone running a Linux machine.
Home ComputersHome computers became commonplace in the 1980s. Emulate home computers including the Commodore 64, Amiga, Atari ST, ZX81, Amstrad CPC, and ZX Spectrum.
Now and ThenNow and Then examines how promising open source software fared over the years. It can be a bumpy ride.
Linux at HomeLinux at Home looks at a range of home activities where Linux can play its part, making the most of our time at home, keeping active and engaged.
Linux CandyLinux Candy reveals the lighter side of Linux. Have some fun and escape from the daily drudgery.
DockerGetting Started with Docker helps you master Docker, a set of platform as a service products that delivers software in packages called containers.
Android AppsBest Free Android Apps. We showcase free Android apps that are definitely worth downloading. There's a strict eligibility criteria for inclusion in this series.
Programming BooksThese best free books accelerate your learning of every programming language. Learn a new language today!
Programming TutorialsThese free tutorials offer the perfect tonic to our free programming books series.
Stars and StripesStars and Stripes is an occasional series looking at the impact of Linux in the USA.
Share this article

Share your Thoughts

This site uses Akismet to reduce spam. Learn how your comment data is processed.