Category Archives: Assembly & Genebuild

Rebuilding the zebrafish gene set

Posted on April 30, 2013 by Dan Murphy (Genebuild)

The zebrafish (Danio rerio) is pretty much the ideal model for understanding vertebrate development as it combines some of the best attributes from several other model organisms. More importantly, there is extensive similarity between the zebrafish and human genomes. Thus, … Continue reading →

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New position in Genebuild team

Posted on November 6, 2012 by Bronwen (Genebuild)

The Ensembl Genebuild team has a new externally-funded position at the Wellcome Trust Sanger Institute, primarily aimed at improving gene annotation resources on fishes and other aquatic vertebrates. This role will involve tasks such as: Gene annotation on new assemblies, … Continue reading →

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Job Opportunity – Genebuild team

Posted on October 15, 2012 by Bronwen (Genebuild)

Senior Bioinformatician (Ensembl developer) Ensembl has one permanent post open in the Genebuild team. We are looking for a highly motivated bioinformatician who will work as part of a team to: Produce automatic gene annotation on chordate species using the … Continue reading →

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New Pre! sites for Rat and Chinese softshell turtle

Posted on May 29, 2012 by Bronwen (Genebuild)

Pre! sites have been released for two species: Rat (Rattus norvegicus) and Chinese softshell turtle (Pelodiscus sinensis). The rat assembly Rnor_5.0 (GCA_000001895.3) was submitted by the Rat Genome Sequencing Consortium. This assembly is composed of 21 chromosomes and 1439 unplaced scaffolds. Click … Continue reading →

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Automatic gene annotation workshop in Cambridge, 4-5 September 2012

Posted on May 20, 2012 by Amonida (Genebuild)

Ensembl is holding a workshop titled, ‘Introduction to automatic gene annotation’ aimed at developers. The workshop runs on 4-5 of September 2012 at Department of Genetics, University of Cambridge, UK. Two Ensembl developers will present sessions on how to create … Continue reading →

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New Pre! sites for Painted turtle and Spotted gar

Posted on April 24, 2012 by Bronwen (Genebuild)

Pre! sites have been released for two species: Western painted turtle (Chrysemys picta bellii) and Spotted gar (Lepisosteus oculatus). The western painted turtle assembly Chrysemys_picta_bellii-3.0.1 (GCA_000241765.1) was submitted by the International Painted Turtle Genome Sequencing Consortium. The painted turtle is used as a model … Continue reading →

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New Pre! sites for platyfish, budgerigar

Posted on March 13, 2012 by Rishi (Genebuild)

Pre! sites have been released for two species: Southern Platyfish (Xiphophorus maculatus) and Budgerigar (Melopsittacus undulatus). The playtfish assembly Xiphophorus maculatus 4.4.2 (GCA_000241075.1) was submitted by the The Genome Institute, Washington University at St. Louis. The Southern Platyfish is of interest … Continue reading →

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New Pre! site for Mouse GRCm38

Posted on February 27, 2012 by Magali (Core)

The mouse assembly GRCm38 (GCA_000001635.2) was submitted by the Genome Reference Consortium (GRC). The whole assembly comprises 65 toplevel sequences: 19 autosomes, X and Y, 22 unlocalized scaffolds and 22 unplaced scaffolds. These toplevel sequences are assembled from 20,423 contigs … Continue reading →

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New Pre! sites for cat, chicken, dog, squirrel, and squirrel monkey

Posted on January 23, 2012 by Bronwen (Genebuild)

Pre! sites have been released for five species: cat (Felis catus), chicken (Gallus gallus), dog (Canis lupus familiaris), squirrel monkey (Saimiri boliviensis) and thirteen-lined ground squirrel (Spermophilus tridecemlineatus). The cat assembly Felis_catus-6.2 (GCA_000181335.2) was submitted by the International Cat Genome Sequencing … Continue reading →

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New Pre! sites for coelacanth, pig and Chinese hamster ovary cell line CHO-K1

Posted on November 11, 2011 by Bronwen (Genebuild)

Pre! sites have been released for three species: Comorese coelacanth (Latimeria chalumnae), pig (Sus scrofa) and Chinese hamster (Cricetulus griseus).   The Comorese coelacanth assembly LatCha1, provided by the Broad Institute, is in the process of full automatic gene annotation. … Continue reading →

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