Dear UCSC, I tried and failed to load Nucleosome Exclusion Prediction data from the public data tracks section of the genome browser. I tried to load the tracks for Chromosomes 17-19 on 2 and 3 October. One error message appeared consistently, and it is shown below. A description of the Nucleosome Exclusion Prediction data set is also shown below.
Please look into this problem when you can. Thank you. Bill Bennett City of Hope [email protected] <mailto:[email protected]> ERROR MESSAGE Error(s): Connection refused Couldn't connect to umsis.miami.edu 80 Couldn't open http://umsis.miami.edu/~aradwan/nx/nxregions/chr17.gff Nucleosome Exclusion Prediction data sets (hg18) accompanying the paper Radwan A et al. Prediction and analysis of nucleosome exclusion regions in the human genome <http://www.biomedcentral.com/1471-2164/9/186> . BMC Genomics. 2008 Apr 22;9(1):186. View the Nucleosome Regions tracks to see the whole genome annotation for nucleosome exclusion regions. View the Nucleosome Scores tracks to see the nucleosome exclusion scores which were calculated individually for each nucleotide. This annotation was contributed by Ahmed Radwan, Akmal Younis, Peter Luykx, and Sawsan Khuri, at the University of Miami, Miami, FL, USA. Contact Sawsan Khuri at [email protected]. Click on the chromosome you wish to display. Nucleosome Regions: 1 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 :25000000-26000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxr egions/chr1.gff> 2 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr2 :99000000-100000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx regions/chr2.gff> 3 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr3 :50000000-51000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxr egions/chr3.gff> 4 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr4 :100000000-101000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/n xregions/chr4.gff> 5 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr5 :50000000-51000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxr egions/chr5.gff> 6 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr6 :30000000-31000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxr egions/chr6.gff> 7 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr7 :150000000-151000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/n xregions/chr7.gff> 8 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr8 :22000000-23000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxr egions/chr8.gff> 9 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr9 :130000000-131000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/n xregions/chr9.gff> 10 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 0:72000000-73000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx regions/chr10.gff> 11 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 1:65000000-66000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx regions/chr11.gff> 12 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 2:120000000-121000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/ nxregions/chr12.gff> 13 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 3:19000000-20000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx regions/chr13.gff> 14 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 4:49000000-50000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx regions/chr14.gff> 15 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 5:20000000-21000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx regions/chr15.gff> 16 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 6:65000000-66000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx regions/chr16.gff> 17 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 7:40000000-41000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx regions/chr17.gff> 18 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 8:9000000-10000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxr egions/chr18.gff> 19 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 9:2000000-3000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxre gions/chr19.gff> 20 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr2 0:30000000-31000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx regions/chr20.gff> 21 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr2 1:46000000-47000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx regions/chr21.gff> 22 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr2 2:37000000-38000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx regions/chr22.gff> X <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chrX :47000000-48000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxr egions/chrX.gff> Y <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chrY :1000000-2000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxreg ions/chrY.gff> M <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg19&position=chrM :1-16571&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxregions/chr M.gff> . Nucleosome Scores: 1 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 :25000000-26000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxs cores/chr1.wig> 2 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr2 :99000000-100000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx scores/chr2.wig> 3 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr3 :50000000-51000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxs cores/chr3.wig> 4 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr4 :100000000-101000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/n xscores/chr4.wig> 5 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr5 :50000000-51000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxs cores/chr5.wig> 6 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr6 :30000000-31000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxs cores/chr6.wig> 7 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr7 :150000000-151000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/n xscores/chr7.wig> 8 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr8 :22000000-23000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxs cores/chr8.wig> 9 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr9 :130000000-131000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/n xscores/chr9.wig> 10 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 0:72000000-73000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx scores/chr10.wig> 11 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 1:65000000-66000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx scores/chr11.wig> 12 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 2:120000000-121000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/ nxscores/chr12.wig> 13 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 3:19000000-20000000hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxs cores/chr13.wig> 14 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 4:49000000-50000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx scores/chr14.wig> 15 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 5:20000000-21000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx scores/chr15.wig> 16 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 6:65000000-66000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx scores/chr16.wig> 17 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 7:40000000-41000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx scores/chr17.wig> 18 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 8:9000000-10000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxs cores/chr18.wig> 19 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr1 9:2000000-3000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxsc ores/chr19.wig> 20 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr2 0:30000000-31000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx scores/chr20.wig> 21 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr2 1:46000000-47000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx scores/chr21.wig> 22 <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chr2 2:37000000-38000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nx scores/chr22.wig> X <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chrX :47000000-48000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxs cores/chrX.wig> Y <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chrY :1000000-2000000&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxsco res/chrY.wig> M <http://genome.ucsc.edu/cgi-bin/hgTracks?org=human&db=hg18&position=chrM :1-16571&hgt.customText=http://umsis.miami.edu/~aradwan/nx/nxscores/chrM .wig> . --------------------------------------------------------------------- SECURITY/CONFIDENTIALITY WARNING: This message and any attachments are intended solely for the individual or entity to which they are addressed. 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