GRC Assembly Workshop at Genome Informatics

The Genome Reference Consortium (GRC) is a collaboration between the EMBL-EBI, NCBI, Wellcome Trust Sanger Institute, and Genome Institute at Washington University. They are responsible for maintaining the human, mouse and zebrafish reference genome assemblies that you can see in Ensembl, Continue reading GRC Assembly Workshop at Genome Informatics

Pre! update: vervet monkey, naked mole-rat, aardvark, dolphin and pika

Pre! update: vervet monkey, naked mole-rat, aardvark, dolphin and pika

The Ensembl Pre! site has been updated for five species: vervet monkey (Chlorocebus sabaeus), naked mole-rat (Heterocephalus glaber), aardvark (Orycteropus afer), bottlenosed dolphin (Tursiops truncatus) and the American pika (Ochotona princeps). Vervet monkey, naked mole-rat and aardvark are new species Continue reading Pre! update: vervet monkey, naked mole-rat, aardvark, dolphin and pika

New Pre! sites for Rat and Chinese softshell turtle

New Pre! sites for Rat and Chinese softshell turtle

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 New Pre! sites for Rat and Chinese softshell turtle

New Pre! sites for Painted turtle and Spotted gar

New Pre! sites for Painted turtle and Spotted gar

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 New Pre! sites for Painted turtle and Spotted gar

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

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

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

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

Latimeria chalumnae

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

Workshop on automatic gene annotation

Join us for a workshop titled, “Introduction to automatic gene annotation”. This workshop, running 1-2 November at CSHL, is aimed at developers.  Two Ensembl developers will present sessions on how to create your own core database, including the loading of Continue reading Workshop on automatic gene annotation

Accessing alternate sequences in human

Accessing alternate sequences in human

Have you noticed any strange-looking chromosome names when browsing the human data? For example, you might notice sequence region names looking like “Chromosome HSCHR17_2_CTG4: 68,302,419-68,526,413” or “Chromosome HG75_PATCH: 34,442,621-34,976,908”. The names refer to genomic sequence that differs from the genomic Continue reading Accessing alternate sequences in human