Ensembl Human What's New v18.34.1 (4 November 2003)

	Ensembl: Latest Developments
	New data in v18.34.1    NCBI 34 This release contains the Ensembl gene build on human assembly 34. Build 34 is an update to the finished human genome, with a number of small improvements in genome sequence on a number of chromosomes. This release has 22,184 genes comprising 27,941 coding transcripts and 1853 pseudogenes which are easily confused with genes. It is expected that there are between 20,000 to 30,000 pseudogenes in the genome; Ensembl only currently annotates those which confuse the gene prediction process. Depending on the precise estimates of total protein gene number, Ensembl has annotated between 80% to 90% of all protein coding genes. 92% of genes from the previous build transferred across to the new build, with the missing 8% of genes predominantly being inappropriate protein coding genes (e.g. coming from large scale cDNA projects which have a number of artefactual errors, or from chimeric cDNA clones from cancer cell lines). However, a very small number (around 1%) were clearly "correct" genes which were misclassified as artefactual errors. The next release of Ensembl (due December 15th) will update the data for this very small number of genes. In addition to the new complete assembly, Ensembl Human 18.34.1 contains:   New GO database (Oct 2003 release)   New EST database   New EST gene predictions   New Compara database of protein families, synteny, genepair, and highly-conserved regions   New Vega manually annotated genes, in synch with Vega.sanger.ac.uk   New SNP data from dbSNP 117 Schema changes in v18  Compara   protein family data no longer has its own database, but has been incorporated in the compara database  Core   two columns renamed in identity_xref table     hit_start -> query_start     hit_end -> query_end New Features in v18.34.1    Webcode redesign In order to improve reusability and maintainability, the webteam have redesigned the general scheme for the webcode. This release sees the first pages (GeneView, TransView, ProtView) implemented under the new design. There should be little or no visible difference to the pages; all the changes are behind the scenes. [More]    KaryoView A new "tool" page has been added this release. KaryoView enables the customisable display of user data on a karyotype, and is intended to provide images for use in presentations, papers, etc. KaryoView will work on all species with an assembly and a karyotype - e.g. Human Please let us know if you find it useful, or have suggestions for improvements.    MartView updates Genes can now be filtered on whether they have a 5' or 3' UTR See the EnsMart homepage for more details of Mart updates.