User generated custom tracks: Difference between revisions
From genomewiki
Jump to navigationJump to search
(adding the rest of the hg18 customText links) |
(adding the hg17 references) |
||
| Line 4: | Line 4: | ||
Tracks providing CpG island strength predictions and mapping of bona fide CpG islands for the human genome (hg17/hg18). The tracks are based on large-scale epigenome predictions, which give rise to an improved and quantitative annotation of CpG islands. Additional information on these tracks is available from the [http://neighborhood.bioinf.mpi-sb.mpg.de/CpG_islands_revisited/ supplementary website] and from the corresponding paper Bock, C. <I>et al.</I> [http://compbiol.plosjournals.org/perlserv/?request=get-document&doi=10.1371%2Fjournal.pcbi.0030110.eor CpG island mapping by epigenome prediction] to appear in PLoS Comput Biol. For prioritization of candidate regions, the quantitative CpG island strength predictions are recommended (hg17/[http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg18&hgt.customText=http://genomewiki.ucsc.edu/images/1/1b/Hg18.customText.UCSC_GGM_CombinedEpigeneticScore.txt hg18]). For genome annotation, three maps of bona fide CpG islands are provided: (i) a highly specific map (hg17/[http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg18&hgt.customText=http://genomewiki.ucsc.edu/images/2/2c/Hg18.customText.UCSC_GGM_SpecificCGIs.txt hg18]), (ii) a balanced map <B>recommended for most applications</B> (hg17/[http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg18&hgt.customText=http://genomewiki.ucsc.edu/images/2/2c/Hg18.customText.UCSC_GGM_BalancedCGIs.txt hg18]) and (iii) a highly sensitive map (hg17/[http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg18&hgt.customText=http://genomewiki.ucsc.edu/images/6/6e/Hg18.customText.UCSC_GGM_SensitiveCGIs.txt hg18]). Finally, all tracks can be viewed simultaneously (hg17/[http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg18&hgt.customText=http://genomewiki.ucsc.edu/images/9/92/Hg18.customText.UCSC_GGM_All.txt hg18]). | Tracks providing CpG island strength predictions and mapping of bona fide CpG islands for the human genome (hg17/hg18). The tracks are based on large-scale epigenome predictions, which give rise to an improved and quantitative annotation of CpG islands. Additional information on these tracks is available from the [http://neighborhood.bioinf.mpi-sb.mpg.de/CpG_islands_revisited/ supplementary website] and from the corresponding paper Bock, C. <I>et al.</I> [http://compbiol.plosjournals.org/perlserv/?request=get-document&doi=10.1371%2Fjournal.pcbi.0030110.eor CpG island mapping by epigenome prediction] to appear in PLoS Comput Biol. For prioritization of candidate regions, the quantitative CpG island strength predictions are recommended ([http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg17&hgt.customText=http://genomewiki.ucsc.edu/images/2/26/Hg17.customText.UCSC_GGM_CombinedEpigeneticScore.txt hg17]/[http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg18&hgt.customText=http://genomewiki.ucsc.edu/images/1/1b/Hg18.customText.UCSC_GGM_CombinedEpigeneticScore.txt hg18]). For genome annotation, three maps of bona fide CpG islands are provided: (i) a highly specific map ([http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg17&hgt.customText=http://genomewiki.ucsc.edu/images/c/c2/Hg17.customText.UCSC_GGM_SpecificCGIs.txt hg17]/[http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg18&hgt.customText=http://genomewiki.ucsc.edu/images/2/2c/Hg18.customText.UCSC_GGM_SpecificCGIs.txt hg18]), (ii) a balanced map <B>recommended for most applications</B> ([http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg17&hgt.customText=http://genomewiki.ucsc.edu/images/f/f4/Hg17.customText.UCSC_GGM_BalancedCGIs.txt hg17]/[http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg18&hgt.customText=http://genomewiki.ucsc.edu/images/2/2c/Hg18.customText.UCSC_GGM_BalancedCGIs.txt hg18]) and (iii) a highly sensitive map ([http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg17&hgt.customText=http://genomewiki.ucsc.edu/images/1/1b/Hg17.customText.UCSC_GGM_SensitiveCGIs.txt hg17]/[http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg18&hgt.customText=http://genomewiki.ucsc.edu/images/6/6e/Hg18.customText.UCSC_GGM_SensitiveCGIs.txt hg18]). Finally, all tracks can be viewed simultaneously ([http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg18&hgt.customText=http://genomewiki.ucsc.edu/images/6/63/Hg17.customText.UCSC_GGM_All.txt hg17]/[http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg18&hgt.customText=http://genomewiki.ucsc.edu/images/9/92/Hg18.customText.UCSC_GGM_All.txt hg18]). | ||
Revision as of 18:39, 19 March 2010
Testing genomewiki hosting bigBed/bigWig custom tracks
Human assembly custom tracks
Tracks providing CpG island strength predictions and mapping of bona fide CpG islands for the human genome (hg17/hg18). The tracks are based on large-scale epigenome predictions, which give rise to an improved and quantitative annotation of CpG islands. Additional information on these tracks is available from the supplementary website and from the corresponding paper Bock, C. et al. CpG island mapping by epigenome prediction to appear in PLoS Comput Biol. For prioritization of candidate regions, the quantitative CpG island strength predictions are recommended (hg17/hg18). For genome annotation, three maps of bona fide CpG islands are provided: (i) a highly specific map (hg17/hg18), (ii) a balanced map recommended for most applications (hg17/hg18) and (iii) a highly sensitive map (hg17/hg18). Finally, all tracks can be viewed simultaneously (hg17/hg18).
