Forum: High throughput sequencing (RNA-seq, Chip-seq, CAGE-seq) coverage tracks from multiple species available for viewing on UCSC?
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gravatar for Chirag Nepal
3.0 years ago by
Chirag Nepal2.2k
Copenhagen
Chirag Nepal2.2k wrote:

strong textHi there,

I wanted to compile the list of URLs where processed sequencing data (RNA-seq, CAGE-seq, histone ChIP-seq and others) as available as custom tracks that can be uploaded into UCSC browser for visualization. As there a lot of data on human and mouse on UCSC browser, I am more interested in collecting data from other organisms.

1) Most of the human and mouse data from large scale projects (ENCODE, FANTOM, NIH-Epigenome) are available as public custom tracks. http://genome-euro.ucsc.edu/cgi-bin/hgHubConnect

2) Zebrafish Tracks (CAGE-seq, RNA-seq, Histone Chip-seq) http://promshift.genereg.net/zebrafish/CAGE_and_nucleosome_tracks.txt These tracks are also available in UCSC custom tracks.

3) Xenopus (Chip-seq, RNA-seq and MethylCap-seq tracks) http://veenstra.ncmls.nl/resources.htm

I will keep updating the list. Please share if you know additional URLs.

ADD COMMENTlink modified 3.0 years ago • written 3.0 years ago by Chirag Nepal2.2k
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