Interested in joining our dynamic team near Cambridge, UK, and working at the forefront of genomics? The following positions are open. Find them all on the EBI jobs site. We are looking for a total of three talented computational biologists, Continue reading Ensembl is Hiring!
We’re just one month away from the release 76 of Ensembl, which will include the long-awaited GRCh38 human assembly, and I’d like to sum up the work the comparative genomics team (aka Compara) team has been up to over the Continue reading GRCh38 and the Ensembl comparative genomics resources
Are you interested in joining the Ensembl project based in the UK, near Cambridge? The Comparative Genomics team currently has an open position for a Project leader. The Ensembl Compara team develops new and established methods for: whole genome sequence alignment, assignment of Continue reading Comparative Genomics Project Leader
If you are interested in knowing the evolutionary history of your preferred Ensembl gene, you are in luck. Starting from this release (69) Ensembl has a new gene gain/loss tree view just for this purpose. This view shows the evolutionary Continue reading New gene gain/loss tree view in Ensembl
Starting from this release (65), we provide further details on the internal aspects of the GeneTrees. Our trees are built using a several phylogenetic reconstruction methods, each of them resulting in a different tree. These are combined by TreeBeST to Continue reading Underlying trees in the GeneTrees
We have recently added a new table at the top of the Orthologues view. This table shows the number of species that have a 1:1, 1:many or many:many orthology relationship with the current gene. This table shows that information for Continue reading Orthologues (in summary)
People following the declarations of intentions for the next release (these are sent to firstname.lastname@example.org) may have noticed that we are releasing LASTZ pairwise alignments instead of BLASTZ ones. LASTZ is written by Bob Harris from the Penn State University Continue reading Changing to LASTZ
It is now possible to get the GERP constrained elements via the DAS protocol. For instance the DAS command to get all the GERP elements on the BRCA2 gene (Human chr 13: 32889611-32973347) is:http://www.ensembl.org/das/Homo_sapiens.GRCh37.constrained_element/features?segment=13:32889611,32973347 By default, you obtain both the Continue reading GERP constrained elements via DAS
Comparing and assessing the quality of whole-genome multiple alignments is a difficult task. In the protein world, many mathematical models are available. They are based on synonymous and non-synonymous substitutions and the physicochemical similarities among the aminoacids. None of this Continue reading Which whole-genome multiple aligner? Pecan!
Release 57 saw the release of a 5-way EPO alignment across the telost fish – Zebrafish, Stickleback, Medaka, Tetraodon and Fugu. Just recently I’ve spent some time browsing through them. They are very interesting, with the ancestral duplication in Fish Continue reading Musing about Fish Alignments.