Hello Sofia, You can use the Table Browser to determine the number of gene annotations present in a given track in the Genome Browser. Click on "Tables" in the blue bar at the top of the page, then select the clade, genome, and assembly you are interested in. Select "group: Genes and Gene prediction tracks", and then choose the gene track you wish to use.
(You can read more about the contents of any of the gene tracks in the Genome Browser by clicking on the blue track name on the main page, http://genome.ucsc.edu/cgi-bin/hgTracks .) Now select "region: position" and enter a chromosome name for which you would like to see the number of genes, such as chr3. Hit the "summary/statistics" button. On the next page, the number of annotated genes for the chromosome you entered will be in the "item count" box. Note that gene sets generally include multiple splice variants for many genes. If you are interested in counting a single gene for each cluster of variants, you can use the "knownCanonical" table in the "UCSC Genes" dataset. -- Brooke Rhead UCSC Genome Bioinformatics Group Subject: Number of genes From: [email protected] Date: Mon, 15 Dec 2008 16:38:26 +0000 To: [email protected] I would like to know how I can get the number of genes mapped to the sequence in a chromosome of a specie. _______________________________________________ Genome maillist - [email protected] http://www.soe.ucsc.edu/mailman/listinfo/genome
