Hello Andrea, hg18 and hg19 are different human assemblies. Generally speaking, Ensembl and UCSC coordinates for the same human assembly (i.e. hg18) should be the same. For more background on this please see this previously answered mailing list question:
https://lists.soe.ucsc.edu/pipermail/genome/2011-March/025464.html If you want to convert coordinates between from one human assembly to another (i.e. hg18 -> hg19) you can use our liftOver tool - found here: http://genome.ucsc.edu/cgi-bin/hgLiftOver or by clicking the "Utilities" tab on the lefthand side of the main page, and then "Batch Coordinate Conversion (liftOver)" link. Hopefully this information was helpful and answers your question. If you have further questions or require clarification feel free to contact the mailing list at [email protected]. Regards, Pauline Fujita UCSC Genome Bioinformatics Group http://genome.ucsc.edu On 5/2/12 2:36 AM, Solf, Andrea wrote: > Dear all, > > I want to compare sequences I previously analyzed with the USCS browser with > data from the 1000 genome project using the sequences publicly available with > ensembl. > > Now: locations of sequence (DNA elements, genes...) differ from the different > versions of the USCS browser (18/19). How can I compare the locations and the > according sequences with the information in the 1000 genome project/ensemble? > How can I be sure that the locations I look at in uscs are the same as in the > ensemble browser? > > best, > Andrea > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
