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Platform GPL8544 Query DataSets for GPL8544
Status Public on Mar 31, 2010
Title Human CpG Island Microarray 244K (Agilent-014791) with extended custom annotation
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Homo sapiens
Manufacturer Agilent Technologies
Manufacture protocol see manufacturer's web site at http://www.agilent.com/
Catalog number G4492A
Support glass
 
 
Contributor(s) Rehli M
Submission date May 12, 2009
Last update date Jan 17, 2013
Contact name Michael Rehli
E-mail(s) michael.rehli@klinik.uni-r.de
Organization name University Hospital Regensburg
Department Internal Med III
Street address F.-J.-Strauss-Allee 11
City Regensburg
ZIP/Postal code 93042
Country Germany
 
Samples (76) GSM402509, GSM402510, GSM402511, GSM402512, GSM402513, GSM402514 
Series (8)
GSE16078 Detection of transcription factor NRF1, YY1 and SP1 bound regions in human peripheral blood monocytes
GSE17455 Detection of aberrant DNA methylation in AML cell lines compared to normal human monocytes
GSE17510 Detection of aberrant DNA methylation in acute leukemia samples compared to normal human monocytes

Data table header descriptions
ID
CONTROL_TYPE Control type
PROBE ID Agilent probe ID
CHROMOSOMAL_LOCATION Chromosomal Location (based on March 2006 human reference sequence (NCBI Build 36.1))
GB_RANGE Chromosomal Location (based on March 2006 human reference sequence (NCBI Build 36.1))
SPOT_ID spot identifier
POSITIONAL_ANNOTATION Positional annotation
GB_ACC GenBank Accession
ANNOTATION
TSS_DISTANCE Distance to the nearest transcription start site (based on RefSeq)
NEAREST_UNIGENE_ACC Neares Unigene accession no.
NEAREST_REFSEQ_ACC Neares RefSeq accession no.
NEAREST_ENSEMBL_ACC Neares Ensembl accession no.
GENE_SYMBOL Entrez gene symbol
GENE_DESCRIPTION Gene description
NRF1_ChIP-MOTIF Sequence and relative position of NRF1 consensus motif (extracted from ChIP-on-Chip data)
YY1_ChIP-MOTIF Sequence and relative position of YY1 consensus motif (extracted from ChIP-on-Chip data)
SP1_ChIP-MOTIF Sequence and relative position of SP1 consensus motif (extracted from ChIP-on-Chip data)
GABP_MCIp-MOTIF Sequence and relative position of GABP consensus motif (extracted from MCIp-on-Chip data)
SP1_MCIp-MOTIF Sequence and relative position of SP1 consensus motif (extracted from MCIp-on-Chip data)
GFY_MCIp-MOTIF Sequence and relative position of GFY consensus motif (extracted from MCIp-on-Chip data)
NFY_MCIp-MOTIF Sequence and relative position of NFY consensus motif (extracted from MCIp-on-Chip data)
NRF1_MCIp-MOTIF Sequence and relative position of NRF1 consensus motif (extracted from MCIp-on-Chip data)
YY1_MCIp-MOTIF Sequence and relative position of YY1 consensus motif (extracted from MCIp-on-Chip data)
CACA_MCIp-MOTIF Sequence and relative position of CACA repeat motif (extracted from MCIp-on-Chip data)
GAGA_MCIp-MOTIF Sequence and relative position of GAGA repeat motif (extracted from MCIp-on-Chip data)
CTCF_ChIP-SEQ-MOTIF Sequence and relative position of CTCF consensus motif (extracted from published ChIP-Seq data)

Data table
ID CONTROL_TYPE PROBE ID CHROMOSOMAL_LOCATION GB_RANGE SPOT_ID POSITIONAL_ANNOTATION GB_ACC ANNOTATION TSS_DISTANCE NEAREST_UNIGENE_ACC NEAREST_REFSEQ_ACC NEAREST_ENSEMBL_ACC GENE_SYMBOL GENE_DESCRIPTION NRF1_ChIP-MOTIF YY1_ChIP-MOTIF SP1_ChIP-MOTIF GABP_MCIp-MOTIF SP1_MCIp-MOTIF GFY_MCIp-MOTIF NFY_MCIp-MOTIF NRF1_MCIp-MOTIF YY1_MCIp-MOTIF CACA_MCIp-MOTIF GAGA_MCIp-MOTIF CTCF_ChIP-SEQ-MOTIF
1 1 HsCGHBrightCorner HsCGHBrightCorner HsCGHBrightCorner
2 1 DarkCorner DarkCorner DarkCorner
3 1 DarkCorner DarkCorner DarkCorner
4 0 A_17_P16499695 chr11:107304186-107304230 NC_000011.8[107304186..107304230] promoter NM_017516 promoter (NM_017516) -279 Hs.354906 NM_017516 ENSG00000179331 RAB39 RAB39, member RAS oncogene family
5 0 A_17_P00917694 chr1:242960197-242960241 NC_000001.9[242960197..242960241] intergenic intergenic 77244 Hs.498317 NM_016076 ENSG00000121644 PPPDE1 PPPDE peptidase domain containing 1
6 0 A_17_P05822757 chr7:138694337-138694381 NC_000007.12[138694337..138694381] promoter NM_016019 promoter (NM_016019) -815 Hs.718441 NM_016019 ENSG00000146963 LUC7L2 LUC7-like 2 (S. cerevisiae)
7 0 A_17_P11201690 chr20:47368788-47368832 NC_000020.9[47368788..47368832] intergenic intergenic 38183 NR_003030 SNORD12 small nucleolar RNA, C/D box 12
8 0 A_17_P15518473 chr3:185430753-185430797 NC_000003.10[185430753..185430797] promoter NM_138345 promoter (NM_138345) -236 Hs.584997 XM_001716350 VWA5B2 von Willebrand factor A domain containing 5B2
9 0 A_17_P11189908 chr20:44180261-44180305 NC_000020.9[44180261..44180305] promoter NM_001250 promoter (NM_001250) -30 Hs.472860 NM_001250 ENSG00000101017 CD40 CD40 molecule, TNF receptor superfamily member 5 5(GACCCCGCCCCT,+,0.00) -11(GCGATTGGTC,-,0.00)
10 0 A_17_P17268257 chr22:22882260-22882304 NC_000022.9[22882260..22882304] intron (intron 29 of 36) NM_012295 intron (NM_012295, intron 29 of 36) -25162 Hs.131819 NM_019601 ENSG00000099994 SUSD2 sushi domain containing 2
11 0 A_17_P07299116 chr10:71231356-71231400 NC_000010.9[71231356..71231400] promoter NM_005203 promoter (NM_005203) -272 Hs.695934 NM_001130103 COL13A1 collagen, type XIII, alpha 1
12 0 A_17_P10258961 chr17:18104939-18104983 NC_000017.9[18104939..18104983] promoter NM_148886 promoter (NM_148886) -188 Hs.655555 NM_001144900 ENSG00000177427 SMCR7 Smith-Magenis syndrome chromosome region, candidate 7
13 0 A_17_P17240199 chr21:43655469-43655513 NC_000021.7[43655469..43655513] intergenic intergenic 15939 Hs.700423 NM_173354 ENSG00000142178 SIK1 salt-inducible kinase 1
14 0 A_17_P08342170 chr12:48219790-48219834 NC_000012.10[48219790..48219834] intron (intron 1 of 14) NM_012284 intron (NM_012284, intron 1 of 14) 605 Hs.64064 NM_012284 ENSG00000135519 KCNH3 potassium voltage-gated channel, subfamily H (eag-related), member 3
15 0 A_17_P15872316 chr6:149813757-149813801 NC_000006.10[149813757..149813801] exon (exon 7 of 7) NM_207360 exon (NM_207360, exon 7 of 7) 33944 Hs.632618 NM_207360 ENSG00000178199 ZC3H12D zinc finger CCCH-type containing 12D
16 0 A_17_P15436892 chr3:50248487-50248531 NC_000003.10[50248487..50248531] promoter NM_002070 promoter (NM_002070) -142 Hs.77269 NM_002070 ENSG00000114353 GNAI2 guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 2 -7(AGCCAATCAA,+,0.00)
17 0 A_17_P05821269 chr7:138317180-138317224 NC_000007.12[138317180..138317224] intergenic intergenic 54113 Hs.659143 NM_080660 ENSG00000146858 ZC3HAV1L zinc finger CCCH-type, antiviral 1-like
18 0 A_17_P07833726 chr11:62450280-62450324 NC_000011.8[62450280..62450324] intergenic intergenic -4714 Hs.632119 NM_000738 ENSG00000168539 CHRM1 cholinergic receptor, muscarinic 1
19 0 A_17_P00091682 chr1:23767434-23767478 NC_000001.9[23767434..23767478] intergenic intergenic -8547 Hs.76884 NM_002167 ENSG00000117318 ID3 inhibitor of DNA binding 3, dominant negative helix-loop-helix protein
20 0 A_17_P16463750 chr11:65944697-65944741 NC_000011.8[65944697..65944741] promoter NM_178864 promoter (NM_178864) -332 Hs.256036 NM_178864 ENSG00000174576 NPAS4 neuronal PAS domain protein 4

Total number of rows: 243504

Table truncated, full table size 53367 Kbytes.




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