Hi Sascha, If you are referring to the 'Transcription Factor ChIP-seq from ENCODE' track, this information can be found on the track configuration page, under 'Display Conventions' (see http://genome.ucsc.edu/cgi-bin/hgTrackUi?g=wgEncodeRegTfbsClustered). The black/gray darkness corresponds to the signal level observed for that transcription factor over all cell lines, the darker the more signal. As for the letters, they are abbreviations for cell lines and cell line groupings, the key can be found on the configuration page. Clicking any item in the track will provide you with more information, such as cell lines used and signal for each cell line for a given cluster of a transcription factor.
I hope this helps. Please contact us again at [email protected] if you have any further questions. --- Luvina Guruvadoo UCSC Genome Bioinformatics Group On 8/9/2011 10:08 AM, Sascha Duttke wrote: > Dear all, > > I was not able to figure out what the different grey/black values in the > ENCODE chip-seq display stand for. Moreover, is there any legend explaining > the letters behind them? > > Thx in advance, > > Best, > > Sascha > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
