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Status
Public on Jan 12, 2009
Title
Nimblegen HG18 RefSeq promoter array
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
Homo sapiens Manufacturer
Nimblegen
Manufacture protocol
2006-07-18_HG18_RefSeq_promoter Promoter design based only on normal RefSeq genes (NM_) for human (HG18; NCBI Build 36). Includes 2200 bp upstream of transcriptional start and 500 bp downstream. Isothermal probes using dual tm/cycle restriction:, 50-75 bp, tm 76, 148 cycles, 15-mer frequency of 50. Interval spacing of 100 bp.
Catalog number
C4226-00-01
Submission date
Sep 30, 2008
Last update date
Oct 27, 2010
Contact name
W. Lee Kraus
E-mail(s)
lee.kraus@utsouthwestern.edu Organization name
UT Southwestern Medical Center
Street address
5323 Harry Hines Blvd.
City
Dallas
State/province
TX
ZIP/Postal code
75390-8511
Country
USA
Samples (65)
GSM327119 , GSM327121 , GSM327123 , GSM327124 , GSM327126 , GSM327127
GSM426766 ,
GSM426767 ,
GSM426768 ,
GSM426769 ,
GSM426770 ,
GSM426771 ,
GSM426772 ,
GSM426773 ,
GSM456177 ,
GSM456178 ,
GSM465647 ,
GSM465648 ,
GSM474860 ,
GSM474861 ,
GSM474862 ,
GSM474863 ,
GSM494384 ,
GSM494385 ,
GSM494386 ,
GSM494387 ,
GSM494388 ,
GSM494389 ,
GSM494390 ,
GSM494391 ,
GSM494392 ,
GSM494393 ,
GSM494394 ,
GSM494395 ,
GSM499983 ,
GSM499984 ,
GSM499985 ,
GSM508919 ,
GSM508920 ,
GSM508921 ,
GSM508922 ,
GSM508923 ,
GSM508924 ,
GSM808071 ,
GSM808072 ,
GSM808073 ,
GSM808074 ,
GSM841004 ,
GSM841005 ,
GSM892413 ,
GSM892414 ,
GSM892415 ,
GSM892416 ,
GSM892417 ,
GSM892418 ,
GSM892419 ,
GSM892420 ,
GSM892421 ,
GSM892422 ,
GSM1423102 ,
GSM1423103 ,
GSM1423104 ,
GSM1423105 ,
GSM1423106 ,
GSM1423107 Series (15)
GSE13051 Postrecruitment Regulation of RNA Pol II Directs Rapid Signaling Responses at the Promoters of Estrogen Target Genes
GSE17053 Epigenetic environment of histone H3.3 on promoters revealed by integration of imaging, ChIP-chip, and MeDIP-chip data
GSE18755 PADI4 ChIP-chip from MCF-7 cells
GSE19155 MLL and Pol2 Chip-chip in interphase and mitotic arrested cells
GSE19794 DNA methylation in progenitor cells: MeDIP study
GSE19795 DNA methylation in progenitor cells
GSE20019 ChIP-chip from the follicular lymphoma cell line RL with H3K4me3, H3K37me3 and Suz12
GSE20304 H3K9K14ac ChIP-chip in lung cancer cells treated with histone deacetylase inhibitor
GSE32599 H3Cit26 ChIP-chip from MCF-7 cells
GSE34050 ChIP-chip from DAOY cells stably expressing HA-MXD3 with anti-HA
GSE34101 Role of MXD3 in DAOY cell proliferation
GSE36402 ChIP-chip of lymphocytes using H3K9Ac, H3K4me3, H3K9me3, H3K27me3 and H4K16Ac antibodies
GSE36403 Profiles of Epigenetic Histone Post-translational Modifications at Type 1 Diabetes Susceptible Genes
GSE58961 Extensive remodeling of DC function by rapid maturation-induced epigenetic gene silencing [ChIP-chip]
GSE59365 Extensive remodeling of DC function by rapid maturation-induced epigenetic gene silencing
Data table header descriptions ID SEQ_ID DNA region encompassing the probe
GENE_SYMBOL Gene associated with probe
GENE_ACC GenBank accession number of gene
DIST_TSS Distance of probe center from transcriptional start site
CHROMOSOME Chromosome where probe is located
RANGE_GB RefSeq Accession.version for corresponding human_build36_HG18
SPOT_ID identifies random probes
RANGE_START Genomic start location of the probe
COUNT_PROBE Counts of probe on microarray
LENGTH Probe length in nucleotides
GC Probe GC content
SEQUENCE Sequence of probe
Data table ID SEQ_ID GENE_SYMBOL GENE_ACC DIST_TSS CHROMOSOME RANGE_GB SPOT_ID RANGE_START COUNT_PROBE LENGTH GC SEQUENCE CHR01P000056753
CHR1:56753-59453
OR4F5
NM_001005484 -2172
chr1
NC_000001.9 56753
3
56
0.34
GTCTTAACTACGTTAGCAAGAAATTCCTTTTGCTAAAGAATAGCATTCCTGAATTC
CHR01P000056853
CHR1:56753-59453
OR4F5
NM_001005484 -2071.5
chr1
NC_000001.9 56853
3
57
0.40
CCTCGGGTCAACCTCATCCTTGGCATATTTCATGTGAAGATATAACTTCAAGATTGT
CHR01P000056953
CHR1:56753-59453
OR4F5
NM_001005484 -1972.5
chr1
NC_000001.9 56953
3
55
0.33
TTTAAGGTCTATTCTAAATTGCACACTTTGATTCAAAAGAAACAGTCCAACCAAC
CHR01P000057053
CHR1:56753-59453
OR4F5
NM_001005484 -1869
chr1
NC_000001.9 57053
3
62
0.31
ACTGTCAATGATTAGTATGATTATATTTATTACCGTGCTAAGCAGAAGAGAAATGAAGTGAA
CHR01P000057153
CHR1:56753-59453
OR4F5
NM_001005484 -1775
chr1
NC_000001.9 57153
3
50
0.18
CTTAAAAATATTTAAGATCACTAAATTTTTATAGGACTTTAAAAACAGTA
CHR01P000057253
CHR1:56753-59453
OR4F5
NM_001005484 -1672.5
chr1
NC_000001.9 57253
3
55
0.31
AGAGAAAAGTGGAATTTCCAAGCACTATGAATTACTGTTCTTTAAAAAACAGCAA
CHR01P000057353
CHR1:56753-59453
OR4F5
NM_001005484 -1570
chr1
NC_000001.9 57353
3
60
0.38
TCTATACCTTCATGTCTCCCGTGGAATGTTAGTGATCAATTTCCACTTCTCTCTTTTACA
CHR01P000057453
CHR1:56753-59453
OR4F5
NM_001005484 -1470
chr1
NC_000001.9 57453
3
60
0.37
GTTAATATGGCTATGTCTCACTTTCAGGACACCTTTTATTTGTTACTTCTCTTCACTGCA
CHR01P000057553
CHR1:56753-59453
OR4F5
NM_001005484 -1375
chr1
NC_000001.9 57553
3
50
0.46
CAATTGAAATGGCTCTCAACTCATGCCCAGAAGTCAGTGTTCAGTCTCTC
CHR01P000057753
CHR1:56753-59453
OR4F5
NM_001005484 -1171
chr1
NC_000001.9 57753
2
58
0.31
ATTATCAGAGTTAAAGCCATCACAATGTTCCCAATTACTTAAAGACATTGGAATAACA
CHR01P000057853
CHR1:56753-59453
OR4F5
NM_001005484 -1071
chr1
NC_000001.9 57853
2
58
0.24
CAGTACCTTAATAATGGCTATTATATATTGACCATTACTATTTGCTAGAAAATTTATA
CHR01P000057953
CHR1:56753-59453
OR4F5
NM_001005484 -970
chr1
NC_000001.9 57953
2
60
0.38
TGCTATTATCACCTATATTTTCCAGATGTGGCCGTAAGACTGAAATCACTTAGGTGACTT
CHR01P000058053
CHR1:56753-59453
OR4F5
NM_001005484 -873
chr1
NC_000001.9 58053
2
54
0.41
TGAACACAGGCCTCCTAGCACACAAGCTCATATCTTAACTACTTTAATACGTTG
CHR01P000058153
CHR1:56753-59453
OR4F5
NM_001005484 -771.5
chr1
NC_000001.9 58153
1
57
0.37
CAACCACAACCTGCAGCTATTACCTATTGTTAGGCTTAAAATAATTACTTGGCTTCA
CHR01P000058253
CHR1:56753-59453
OR4F5
NM_001005484 -673
chr1
NC_000001.9 58253
3
54
0.20
AAATTAAACAATCATTCAAAATTTTTCAGTAGTTCTTGTCTCTATAATAAAACA
CHR01P000058353
CHR1:56753-59453
OR4F5
NM_001005484 -572
chr1
NC_000001.9 58353
3
56
0.32
CTATGAAAGTCCTTCACACTTTCTCTCATTTAAACTTTATTGCATTTTCCTCACTT
CHR01P000058556
CHR1:56753-59453
OR4F5
NM_001005484 -369.5
chr1
NC_000001.9 58556
3
55
0.31
CCAAATAACATGTGTGCTACAAACTGTTTTGTAGTTCAAAGAAAAAGGAGATAAA
CHR01P000058656
CHR1:56753-59453
OR4F5
NM_001005484 -269
chr1
NC_000001.9 58656
3
56
0.29
AATAATGGTATTTTATATTAGGAATAAACCTAACATTAATGGAGACACTGAGAAGC
CHR01P000058756
CHR1:56753-59453
OR4F5
NM_001005484 -167
chr1
NC_000001.9 58756
3
60
0.25
ATAGAATTATGATCTTGTTGAATTCTGAATGTCTTTAAGTAATAGATTATAGAAAGTCAC
CHR01P000058956
CHR1:56753-59453
OR4F5
NM_001005484 28
chr1
NC_000001.9 58956
3
50
0.44
GGTGACTGAATTCATTTTTCTGGGTCTCTCTGATTCTCAGGAACTCCAGA
386230 57844 Kbytes .Supplementary file Size Download File type/resource GPL7408_2006_07_18_HG18_RefSeq_promoter.ndf.gz
24.1 Mb
(ftp) (http) NDF
GPL7408_2006_07_18_HG18_RefSeq_promoter.pos.gz
3.0 Mb
(ftp) (http) POS
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