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Platform GPL8267 Query DataSets for GPL8267
Status Public on Mar 09, 2009
Title HudsonAlpha Illumina Homo sapiens Methyl-seq
Technology type other
Distribution virtual
Organism Homo sapiens
Manufacturer NIH
Manufacture protocol n/a
 
Description 1G Genome Analyzer sequencing machine
 
Submission date Mar 09, 2009
Last update date Jan 18, 2013
Contact name Rami Rauch
E-mail(s) rrauch@stanford.edu
Organization name Stanford U
Street address 300 Pasteaur Dr
City Stanford
State/province CA
ZIP/Postal code 94305-5317
Country USA
 

Data table header descriptions
ID
region chromosome
RANGE_GB
RANGE_START region start coordinate
RANGE_END region end coordinate
number of MspI sites above threshold in region
region length bp
CpGs in region number of CpGs in region
CpG density of region #CpGs in region/length of regions in bp
region overlaps CpG island? yes or no
region overlaps 7x Regulatory Potential? yes or no
region classification promoter=PROM, 5'UTR, coding exon=CODING, 3'UTR, INTRON, intergenic=INTGEN
Refseq id for overlapping gene
Gene symbol for overlapping gene
region overlaps with histone modifications bivalent, H3K4_only, H3K27_only, neither
region overlaps with promoter classifications HCP, ICP, LCP, NA
list of MspI/HpaII sites in region

Data table
ID region chromosome RANGE_GB RANGE_START RANGE_END number of MspI sites above threshold in region region length CpGs in region CpG density of region region overlaps CpG island? region overlaps 7x Regulatory Potential? region classification Refseq id for overlapping gene Gene symbol for overlapping gene region overlaps with histone modifications region overlaps with promoter classifications list of MspI/HpaII sites in region
1 chr1 NC_000001.9 744000 744037 2 37 4 0.108108108 no no INTGEN NA NA neither NA 744000 744037
2 chr1 NC_000001.9 752582 752656 2 74 11 0.148648649 yes yes INTGEN NA NA H3K4_only HCP 752582 752656
3 chr1 NC_000001.9 795274 795330 2 56 7 0.125 yes no INTGEN NA NA neither NA 795274 795330
4 chr1 NC_000001.9 799061 799101 2 40 2 0.05 no yes INTGEN NA NA neither NA 799061 799101
5 chr1 NC_000001.9 830102 830182 3 80 9 0.1125 yes no INTGEN NA NA neither NA 830102 830142 830182
6 chr1 NC_000001.9 830679 830716 2 37 5 0.135135135 no no INTGEN NA NA bivalent NA 830679 830716
7 chr1 NC_000001.9 831917 832072 4 155 6 0.038709677 no no INTGEN NA NA H3K27_only NA 831917 831981 832006 832072
8 chr1 NC_000001.9 835110 835293 4 183 19 0.103825137 yes no INTGEN NA NA H3K27_only NA 835110 835174 835239 835293
9 chr1 NC_000001.9 835600 835710 3 110 8 0.072727273 yes no INTGEN NA NA H3K27_only NA 835600 835673 835710
10 chr1 NC_000001.9 836081 836146 2 65 2 0.030769231 no yes INTGEN NA NA H3K27_only NA 836081 836146
11 chr1 NC_000001.9 838456 838525 2 69 4 0.057971014 no yes INTGEN NA NA H3K27_only NA 838456 838525
12 chr1 NC_000001.9 843476 843514 2 38 2 0.052631579 no no INTGEN NA NA H3K27_only NA 843476 843514
13 chr1 NC_000001.9 846162 846214 2 52 2 0.038461538 no yes INTGEN NA NA H3K27_only NA 846162 846214
14 chr1 NC_000001.9 846506 846556 2 50 5 0.1 no yes INTGEN NA NA H3K27_only NA 846506 846556
15 chr1 NC_000001.9 848842 848949 4 107 12 0.112149533 yes yes INTGEN NA NA H3K27_only NA 848842 848892 848910 848949
16 chr1 NC_000001.9 849068 849301 5 233 42 0.180257511 yes yes INTGEN NA NA neither NA 849068 849127 849192 849238 849301
17 chr1 NC_000001.9 849393 849439 2 46 8 0.173913043 yes yes PROM NM_152486 SAMD11 neither NA 849393 849439
18 chr1 NC_000001.9 849544 849590 2 46 10 0.217391304 yes no PROM NM_152486 SAMD11 neither NA 849544 849590
19 chr1 NC_000001.9 850217 850263 2 46 7 0.152173913 yes no PROM NM_152486 SAMD11 neither NA 850217 850263
20 chr1 NC_000001.9 850526 850562 2 36 6 0.166666667 yes no PROM NM_152486 SAMD11 neither NA 850526 850562

Total number of rows: 90612

Table truncated, full table size 10771 Kbytes.




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