Access by genome coordinates
Enter a pair of bp coordinates
and a chromosome name
ProbeExplorer is a suite of web based tools to search genomic databases mainly intended to investigate the association between oligonucleotide probes and transcripts, but flexible enough to serve as a general genome and transcriptome browser. Coordinates and sequences of the genomic entities (loci, exons, transcripts, proteins) are provided for fifteen metazoan genomes (Ensembl data) and two yeast genomes. Sequence aligment tools (mainly BLAST) are used to build the mapping to transcripts and exons of all oligonucleotide probes from Affymetrix microarrays (human, mouse and yeasts) for now but other widespread platforms could be incorporated in the future. Search and mapping on the genomes can also be done using any query sequence, keywords (gene names, descriptions) or directly by genomic coordinates.
Bioinformatics and Functional Genomics Research Group
Centro de Investigación del Cáncer
2005 December 29: Server updated. In sync with Ensembl v36.
2005 December 2: Added test expression viewer for a Gene Expression Atlas dataset (Rattus norvegicus, Mus musculus, Homo sapiens tissues) using Affymetrix chips.
2005 July 5: Server updated. Ensembl genome data updated. Some functionality added: Access by genome coordinates.
2005 March 17: Some sequences (probesets sequences or manual entered sequences) could take much process time to be aligned, flooding our little server. Usually it occurs with Affymetrix consensus that contain some kind of repetitive sequence fragment. We are working on it.