jul2016.archive.ensembl.org

Ensembl genome browser 85

Or coronary heart disease. 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. Ensembl tools include BLAST, BLAT, BioMart and the Variant Effect Predictor (VEP) for all supported species. For easy access to commonly used genomes, drag from the bottom list to the top one · Save. And the Wel...

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Ensembl genome browser 85 | jul2016.archive.ensembl.org Reviews

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Or coronary heart disease. 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. Ensembl tools include BLAST, BLAT, BioMart and the Variant Effect Predictor (VEP) for all supported species. For easy access to commonly used genomes, drag from the bottom list to the top one · Save. And the Wel...

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Ensembl genome browser 85 | jul2016.archive.ensembl.org Reviews

https://jul2016.archive.ensembl.org

Or coronary heart disease. 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. Ensembl tools include BLAST, BLAT, BioMart and the Variant Effect Predictor (VEP) for all supported species. For easy access to commonly used genomes, drag from the bottom list to the top one · Save. And the Wel...

INTERNAL PAGES

jul2016.archive.ensembl.org

1

Variant Effect Predictor

http://jul2016.archive.ensembl.org/info/docs/tools/vep

Examples and use cases. The VEP determines the effect of your variants (SNPs, insertions, deletions, CNVs or structural variants) on genes, transcripts, and protein sequence, as well as regulatory regions. Simply input the coordinates of your variants and the nucleotide changes to find out the:. Affected by the variants. Of the variants (e.g. upstream of a transcript, in coding sequence, in non-coding RNA, in regulatory regions). Scores for changes to protein sequence. Suits smaller volumes of data.

2

Downloads - Ensembl genome browser 85

http://jul2016.archive.ensembl.org/downloads.html

Download a sequence or region. Click on the 'Export data' button in the lefthand menu of most pages to export:. GTF or GFF features. Custom datasets can be retrieved using the BioMart data-mining tool. You may find exploring this web-based query tool easier than extracting information direct from our databases. Write your own Perl scripts to retrieve small-to-medium datasets. All our data, as well as added functionality, is available through the Ensembl Perl API. You can also use our REST API.

3

Ensembl Tools

http://jul2016.archive.ensembl.org/info/docs/tools/index.html

We provide a number of ready-made tools for processing both our data and yours. We routinely delete results from our servers after 10 days, but if you have an ensembl account. You will be able to save the results indefinitely. No tools are available on this site. Please visit our main site. Use this data-mining tool to export custom datasets from Ensembl. Programmatic access to all Ensembl data using simple Perl scripts. Access Ensembl data using your favourite programming language.

4

Using this website

http://jul2016.archive.ensembl.org/info/website

Pairwise Interactions File Formats. Coordinate Systems for custom tracks. Track Hub Support in Ensembl. Compare genes across species. Variants for my gene. ENCODE data in Ensembl. The GRCh37 assembly in Ensembl. Use my own data. Browse News by Topic. What's New in this release. Archives: Table of assemblies. If you have a question that is not answered here, please contact our HelpDesk. Search our Help database. Top 5 Frequently Asked Questions. How do I convert IDs. See answer →. How can I export.

5

Gene Expression

http://jul2016.archive.ensembl.org/info/website/tutorials/expression.html

Compare genes across species. Variants for my gene. ENCODE data in Ensembl. The GRCh37 assembly in Ensembl. Use my own data. Gene expression in Ensembl. RNASeq gene models, intron-spanning and original reads are available on the Location tab. For many of our species. View the models alongside the genome, or compare with a gene of interest:. Learn how RNASeq evidence was used to create the gene models:. Use the configuration panel. To turn on RNASeq data:. Help on the Region in Detail page.

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grch37.ensembl.org

Help - Homo sapiens - GRCh37 Archive browser 86

http://grch37.ensembl.org/Help/ArchiveList

The following archives are available for this page:. Full Feb 2014 archive with BLAST, VEP and BioMart. Ensembl 85: Jul 2016. GRCh38.p7) - patched/updated gene set Jun 2016. Ensembl 84: Mar 2016. Ensembl 83: Dec 2015. GRCh38.p5) - patched/updated gene set Oct 2015. Ensembl 82: Sep 2015. Ensembl 81: Jul 2015. GRCh38.p3) - patched/updated gene set Jun 2015. Ensembl 80: May 2015. GRCh38.p2) - patched/updated gene set Jan 2015. Ensembl 79: Mar 2015. Ensembl 78: Dec 2014. Ensembl 77: Oct 2014.

mar2015.archive.ensembl.org

Ensembl genome browser 79: Homo sapiens - - Help

http://mar2015.archive.ensembl.org/Help/ArchiveList

The following archives are available for this page:. Full Feb 2014 archive with BLAST, VEP and BioMart. Ensembl 86: Oct 2016. Ensembl 85: Jul 2016. GRCh38.p7) - patched/updated gene set Jun 2016. Ensembl 84: Mar 2016. Ensembl 83: Dec 2015. GRCh38.p5) - patched/updated gene set Oct 2015. Ensembl 82: Sep 2015. Ensembl 81: Jul 2015. GRCh38.p3) - patched/updated gene set Jun 2015. Ensembl 80: May 2015. GRCh38.p2) - patched/updated gene set Jan 2015. Ensembl 78: Dec 2014. Ensembl 77: Oct 2014.

jul2015.archive.ensembl.org

Ensembl genome browser 81: Homo sapiens - - Help

http://jul2015.archive.ensembl.org/Help/ArchiveList

The following archives are available for this page:. Full Feb 2014 archive with BLAST, VEP and BioMart. Ensembl 86: Oct 2016. Ensembl 85: Jul 2016. GRCh38.p7) - patched/updated gene set Jun 2016. Ensembl 84: Mar 2016. Ensembl 83: Dec 2015. GRCh38.p5) - patched/updated gene set Oct 2015. Ensembl 82: Sep 2015. Ensembl 80: May 2015. GRCh38.p2) - patched/updated gene set Jan 2015. Ensembl 79: Mar 2015. Ensembl 78: Dec 2014. Ensembl 77: Oct 2014. GRCh38) - patched/updated gene set Aug 2014.

ensembl.org

Archives

http://www.ensembl.org/info/website/archives/index.html

Archives: Table of assemblies. List of currently available archives. Full Feb 2014 archive with BLAST, VEP and BioMart. Ensembl 85: Jul 2016. Ensembl 84: Mar 2016. Ensembl 83: Dec 2015. Ensembl 82: Sep 2015. Ensembl 81: Jul 2015. Ensembl 80: May 2015. Ensembl 79: Mar 2015. Ensembl 78: Dec 2014. Ensembl 77: Oct 2014. Ensembl 76: Aug 2014. Ensembl 75: Feb 2014. Ensembl 74: Dec 2013. Ensembl 73: Sep 2013. Ensembl 67: May 2012. Ensembl 54: May 2009. Table of archives showing assemblies present in each one.

gencodegenes.org

GENCODE - Release History

http://www.gencodegenes.org/mouse_releases

How to Access Data. The Mouse GENCODE Gene Set - Release history. Merge between Havana annotation and Ensembl gene set in GRCm38 assembly. M9 (current for GRCm38). Merge between Havana annotation and Ensembl gene set in GRCm38 assembly. Merge between Havana annotation and Ensembl gene set in GRCm38 assembly. Merge between Havana annotation and Ensembl gene set in GRCm38 assembly. Merge between Havana annotation and Ensembl gene set in GRCm38 assembly. Month of the Havana data cutoff.

gencodegenes.org

GENCODE - Reference releases

http://www.gencodegenes.org/mouse_releases/reference_releases.html

How to Access Data. The Mouse GENCODE Reference Release Set. Latest mouse gene set. Used in ENCODE milestone comparative analysis publications such as Pervouchine DD, et al. Nat Commun, 2015 PMID: 25582907. Month of the Havana data cutoff. Please also see the FTP site. This site is hosted by the Wellcome Trust Sanger Institute.

gencodegenes.org

GENCODE - Release History

http://www.gencodegenes.org/releases

How to Access Data. The Human GENCODE Gene Set - Release history. Re-merge with new Havana annotation, updated Ensembl gene set. 24 (current for GRCh38). Re-merge with new Havana annotation, updated Ensembl gene set. Re-merge with new Havana annotation, updated Ensembl gene set. Re-merge with new Havana annotation, updated Ensembl gene set. Re-merge with new Havana annotation, updated Ensembl gene set. Full new Ensembl gene build and merge with Havana in GRCh38. 19 (current for GRCh37). Automated merge o...

aug2014.archive.ensembl.org

Ensembl genome browser 76: Homo sapiens - - Help

http://aug2014.archive.ensembl.org/Help/ArchiveList

The following archives are available for this page:. Full Feb 2014 archive with BLAST, VEP and BioMart. Archive EnsEMBL 86: Oct 2016. Archive EnsEMBL 85: Jul 2016. GRCh38.p7) - patched/updated gene set Jun 2016. Archive EnsEMBL 84: Mar 2016. Archive EnsEMBL 83: Dec 2015. GRCh38.p5) - patched/updated gene set Oct 2015. Archive EnsEMBL 82: Sep 2015. Archive EnsEMBL 81: Jul 2015. GRCh38.p3) - patched/updated gene set Jun 2015. Archive EnsEMBL 80: May 2015. GRCh38.p2) - patched/updated gene set Jan 2015.

oct2014.archive.ensembl.org

Ensembl genome browser 77: Homo sapiens - - Help

http://oct2014.archive.ensembl.org/Help/ArchiveList

The following archives are available for this page:. Full Feb 2014 archive with BLAST, VEP and BioMart. Archive 86: Oct 2016. Archive 85: Jul 2016. GRCh38.p7) - patched/updated gene set Jun 2016. Archive 84: Mar 2016. Archive 83: Dec 2015. GRCh38.p5) - patched/updated gene set Oct 2015. Archive 82: Sep 2015. Archive 81: Jul 2015. GRCh38.p3) - patched/updated gene set Jun 2015. Archive 80: May 2015. GRCh38.p2) - patched/updated gene set Jan 2015. Archive 79: Mar 2015. Archive 78: Dec 2014.

gencodegenes.org

GENCODE - Reference releases

http://www.gencodegenes.org/releases/reference_releases.html

How to Access Data. The Human GENCODE Reference Release Set. Latest human gene set. Mapped to GRCh38 with full resolution of errors associated with liftover of annotation from GRCh37 and additional stringent QC of protein-coding gene annotation. 19 (current for GRCh37). The final build of GENCODE geneset mapped to GRCh37. Used in ENCODE milestone comparative analysis publications such as Gerstein MB, et al Nature, 2014 PMID: 25164755. Yue F, et al Nature, 2014 PMID: 25409824. 3c (current for NCBI36).

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Ensembl Genome Browser

Or coronary heart disease. The Ensembl project produces genome databases for vertebrates and other eukaryotic species, and makes this information freely available online. For easy access to commonly used genomes, drag from the bottom list to the top one · Save. Chinese softshell turtle (. Lesser hedgehog tenrec (. Middot; Restore default list. Log in to customize this list. Select a species -. View full list of all Ensembl species. Other species are available in Ensembl. ENCODE data in Ensembl. Includes ...

jul2016.archive.ensembl.org

Ensembl genome browser 85

Or coronary heart disease. 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. Ensembl tools include BLAST, BLAT, BioMart and the Variant Effect Predictor (VEP) for all supported species. For easy access to commonly used genomes, drag from the bottom list to the top one · Save. And the Wel...

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