[Genome] Relationship between 'phastCons17way' and 'phastConsElements17way'?

[Gordon Robertson]

Thank you, Ann.

G


On 3/2/07 9:49 AM, "Ann Zweig" <ann at soe.ucsc.edu> wrote:

> Hello Gordon,
> 
> The phastCons17way table underlies the wiggle part of the Conservation track
> while the phastConsElements17way underlies the Most Conserved track.  The Most
> Conserved track shows predictions of conserved elements produced by the
> phastCons program.  You can read details about the methods used to produce
> each 
> of the tables by clicking on the track name hyper link in the track controls
> below the Genome Browser track image.
> 
> I think that you will want to use the phastConsElements17way for your queries.
> 
> Please let us know if you need more details or if this doesn't quite answer
> your question.
> 
> 
> Regards,
> 
> ----------
> Ann Zweig
> UCSC Genome Bioinformatics Group
> http://genome.ucsc.edu
> 
> 
> Please feel free to search the Genome mailing list archives by visiting
> our home page, clicking on "Contact Us", then typing a word or phrase
> into the search box.  On that same page
> (http://genome.ucsc.edu/contacts.html), you can subscribe to the Genome
> mailing list.
> 
> 
> 
> Gordon Robertson wrote:
>> Hello
>> 
>> Could you clarify the relationship between (hg18) 'phastCons17way' (68MB gz)
>> and 'phastConsElements17way' (21MB gz) download data? We need to assess
>> conservation 'support' for large sets of ChIP peaks, so will be
>> programmatically querying either a local DB table or a local flat file. The
>> 'elements' download appears to offer a more compact representation of the
>> larger datafile, but I have found no documentation on your web site that
>> describes how the full dataset is transformed into the compact one. I
>> apologize if this documentation exists and I've missed it.
>> 
>> Thank you for your help -
>> 
>> G

-- 
Gordon Robertson
Gene Regulation Informatics
Canada's Michael Smith Genome Sciences Centre
604-707-5900 x5416
www.bcgsc.ca