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Status
Public on Jan 01, 2007
Title
ENCODE NimbleGen hg17 tiling array
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
Homo sapiens Manufacturer
NimbleGen Systems Inc.
Manufacture protocol
Tiling array; see NimbleGen website. Contains one 50-mer every 38 nts.
Description
391K element tiling array based on NCBI35 build of the human genome (hg17) and contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.
Web link
http://www.nimblegen.com/ Contributor(s)
Heintzman ND , Stuart RK , Hon G , Fu Y , Ching CW , Hawkins D , Barrera LO , Calcar SV , Qu C , Ching KA , Wang W , Weng Z , Green RD , Crawford GE , Ren B Submission date
Nov 14, 2006
Last update date
Jan 01, 2007
Contact name
Bing Ren
E-mail(s)
biren@ucsd.edu Organization name
Ludwig Institute for Cancer Research
Department
Department of Cellular and Molecular Medicine
Lab
Laboratory of Gene Regulation
Street address
9500 Gilman Drive
City
La Jolla
State/province
CA
ZIP/Postal code
92093-0653
Country
USA
Samples (128)
GSM144306 , GSM144307 , GSM144308 , GSM144310 , GSM144312 , GSM144313
GSM144314 ,
GSM144315 ,
GSM144316 ,
GSM144317 ,
GSM144318 ,
GSM144319 ,
GSM144320 ,
GSM144321 ,
GSM144322 ,
GSM144323 ,
GSM144324 ,
GSM144325 ,
GSM144326 ,
GSM144327 ,
GSM144328 ,
GSM144329 ,
GSM144330 ,
GSM144331 ,
GSM144332 ,
GSM144333 ,
GSM144334 ,
GSM144335 ,
GSM144336 ,
GSM144337 ,
GSM144338 ,
GSM144339 ,
GSM144340 ,
GSM144341 ,
GSM144342 ,
GSM144343 ,
GSM144344 ,
GSM144345 ,
GSM144346 ,
GSM144348 ,
GSM144349 ,
GSM144350 ,
GSM144351 ,
GSM144352 ,
GSM144353 ,
GSM144354 ,
GSM144355 ,
GSM144356 ,
GSM144357 ,
GSM144358 ,
GSM144359 ,
GSM144360 ,
GSM144361 ,
GSM144363 ,
GSM144364 ,
GSM144365 ,
GSM171726 ,
GSM171727 ,
GSM171728 ,
GSM171729 ,
GSM171730 ,
GSM171731 ,
GSM171732 ,
GSM171733 ,
GSM171734 ,
GSM171735 ,
GSM171736 ,
GSM171737 ,
GSM171738 ,
GSM171739 ,
GSM171740 ,
GSM171741 ,
GSM171742 ,
GSM171743 ,
GSM171744 ,
GSM171745 ,
GSM171746 ,
GSM171747 ,
GSM171748 ,
GSM171749 ,
GSM171750 ,
GSM171751 ,
GSM171752 ,
GSM171753 ,
GSM171754 ,
GSM171755 ,
GSM171756 ,
GSM171757 ,
GSM171758 ,
GSM194653 ,
GSM194654 ,
GSM194655 ,
GSM194656 ,
GSM194657 ,
GSM194658 ,
GSM194659 ,
GSM194660 ,
GSM194661 ,
GSM194662 ,
GSM194663 ,
GSM194664 ,
GSM194665 ,
GSM194666 ,
GSM194667 ,
GSM194668 ,
GSM194669 ,
GSM194670 ,
GSM194671 ,
GSM194672 ,
GSM194673 ,
GSM194674 ,
GSM194675 ,
GSM194676 ,
GSM194677 ,
GSM194678 ,
GSM194679 ,
GSM194680 ,
GSM194681 ,
GSM194682 ,
GSM200814 ,
GSM200815 ,
GSM200816 ,
GSM245281 ,
GSM245282 ,
GSM245283 ,
GSM245284 ,
GSM245285 ,
GSM245286 Series (6)
GSE6273 Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome
GSE7118 Ludwig Institute/UCSD ENCODE project March 2007 Release
GSE7872 Ludwig Institute/UCSD ENCODE project June 2007 Release
GSE8098 Differential roles of promoters, enhancers, and insulators in cell-type specific gene expression
GSE10112 Systematic evaluation of variability in simulated ChIP-chip experiments
GSE10114 Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets
Data table header descriptions ID PROBE_DESIGN_ID
PROBE_ID SEQ_ID encode region
SEQUENCE SEQUENCE UCSC hg17
RANGE_GB RefSeq genome accession for chromosome (NCBI35 build)
RANGE_START nucleotide start position
SPOT_ID identifies empty spots & controls
Data table ID PROBE_ID SEQ_ID SEQUENCE RANGE_GB RANGE_START SPOT_ID 1944_0297_0053
CHR07P090046790
ENm013
ATTATTAAACCACAGCGAAATAGATGACCAATTATTAAAGTTCTGTAGAA
NC_000007.11 90046790
1944_0299_0053
CHR19P059909061
ENm007
ACGGGGGTGTCTGGGCAGGAAGAATATCGTCAGGGTGAAATGAATGGTGA
NC_000019.8 59909061
1944_0301_0053
CHR18P023936402
ENr213
ATATCCTTGCTTTCTGATTCTATATATCCAGCCCTGTGAGCAAAGCTATG
NC_000018.8 23936402
1944_0303_0053
CHR19P059384053
ENm007
AGGGTCCCCCCCCTTTATTTTCCACTGGGGAGGGAGCCTGACTCACCGGC
NC_000019.8 59384053
1944_0305_0053
CHR06P041575413
ENr334
TTAGTGACGATCATAACCTCAGGCCCATCTGTCAAGGGGTTCTCCCAGCT
NC_000006.9 41575413
1944_0307_0053
CHR07P026749761
ENm010
TTACACATGTAATAAGATATTTATAGATATGTCAGTTAAACTTTCATATC
NC_000007.11 26749761
1944_0309_0053
CHR06P132687118
ENr222
AACAAGAGTTAAAAGATGAGTAGCCATATTGCCTGCAACCTTTGTGGACT
NC_000006.9 132687118
1944_0311_0053
CHR06P132226292
ENr222
GAAGGGTGAACAGAAAATATCTTAAATCCCAGACACGAAATGCTTAGCAA
NC_000006.9 132226292
1944_0313_0053
CHR10P055506421
ENr114
CTTATACAGATTTTTCAACAATCATTAACAAAGAAAATTTAGAAAAGGAC
NC_000010.8 55506421
1944_0315_0053
CHR07P089501604
ENm013
ACAATGTTTTTGCAAAATAATTAGGTGGCTAATTCAAAATTATTTAAGTA
NC_000007.11 89501604
1944_0317_0053
CHR20P033566483
ENr333
GAAAGGCTGGAGCCATTGCAACTGGAGGCCCAGCGGAGGAAGGGATCAAG
NC_000020.9 33566483
1944_0319_0053
CHR02P118327762
ENr121
TGCATGGCAGGGAAAGCTGAGAGACACTTGGTGCCCAGCCATATCCTCGG
NC_000002.9 118327762
1944_0321_0053
CHR11P130670158
ENr312
GGCTGTTGTTTGAAGACTTGTCTGAAGCTGGTTTTCTTCATTAGAAATAT
NC_000011.8 130670158
1944_0323_0053
CHR11P130636224
ENr312
GACAACCTGCCCCTCTCCTGCACACGCCTGCCTTTGAGAACTCCACTCTG
NC_000011.8 130636224
1944_0325_0053
CHR21P033419117
ENm005
ACCTTGCTACCCCACCAGACTGCAGTACACAGGCCGCATGTGGTAAGGTT
NC_000021.7 33419117
1944_0327_0053
CHR22P030444326
ENm004
GGCTGCCGAGAAGCTAAGAGTCAAATCTGATGTTTCATCACAGTAACAAA
NC_000022.8 30444326
1944_0329_0053
CHR22P031520410
ENm004
TACTGTGGTTGGGGAAGCAATAGAATCATACCCCATAAAACAATGAAAAC
NC_000022.8 31520410
1944_0331_0053
CHR13P029492762
ENr111
TCCTCCAAATAACAAGTCCTTAACGATCTTACTCAGAAACACCAATATGA
NC_000013.9 29492762
1944_0333_0053
CHR11P064131231
ENr332
CAGTGCCGGGGGCTCAGACATAATACTCCTTGTCTTTGTTCTTCTTGGCC
NC_000011.8 64131231
1944_0335_0053
CHR14P053044660
ENr311
ACACAGCTTCTATATTCCTTCAGAGTAAAAATCTGCTTTCCCATCTTTTG
NC_000014.7 53044660
391015 42491 Kbytes .Supplementary data files not provided
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