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Platform GPL4112 Query DataSets for GPL4112
Status Public on Aug 17, 2006
Title Agilent-013863 Human Promoter ChIP-on-Chip Set, Microarray 1 of 10 (G4483A)
Technology type in situ oligonucleotide
Distribution commercial
Organism Homo sapiens
Manufacturer Agilent Technologies
Manufacture protocol see manufacturer's web site at http://www.agilent.com/
Catalog number G4483A
 
Description
The Human Expanded Promoter ChIP-on-chip microarray set contains high-resolution, high performance 60-mer oligonucleotide microarrays that allow the location analysis of DNA binding proteins to promoter regions spanning -8.0KB upstream to +2.0KB downstream of the transcriptional start sites. The ten slide set provides coverage for ~17,000 of the best defined human transcripts.

Arrays of this design have barcodes that begin with 16013863 or 2513863.

Orientation:
Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software.

The ID column represents the Agilent Feature Extraction feature number.

Rows and columns are numbered as scanned by an Axon Scanner (barcode on the bottom, DNA on the front surface).

To match data scanned on an Axon scanner, use the RefNumber column contained in the Agilent-provided GAL file as the ID_REF column in sample submissions.
 
Submission date Aug 17, 2006
Last update date Aug 17, 2006
Organization Agilent Technologies
E-mail(s) cag_sales-na@agilent.com
Phone 877-424-4536
URL http://www.agilent.com
Department
Street address
City Palo Alto
State/province CA
ZIP/Postal code 94304
Country USA
 

Data table header descriptions
ID Agilent feature number
COL Column
ROW Row
SPOT_ID Spot identifier
CONTROL_TYPE Control type
GB_ACC GenBankAccession
GENE_SYMBOL Gene Symbol
GENE_NAME Gene Name
ACCESSION_STRING Accession String
CHROMOSOMAL_LOCATION Chromosomal Location
CYTOBAND Cytoband
DESCRIPTION Description
GB_RANGE NCBI Build 35.1 Accession.Version[start..end]

Data table
ID COL ROW SPOT_ID CONTROL_TYPE GB_ACC GENE_SYMBOL GENE_NAME ACCESSION_STRING CHROMOSOMAL_LOCATION CYTOBAND DESCRIPTION GB_RANGE
1 103 430 HsCGHBrightCorner pos
2 103 428 NegativeControl neg
3 103 426 A_17_P00535871 FALSE NM_001766 CD1D ref|NM_001766|ref|CD1D:-879|ccds|CCDS1173.1:-2034|mgcs|BC027926:-879|ens|ENST00000335586:-1337 chr1:154961900-154961960 PROMOTER NC_000001.8[154961900..154961960]
4 103 424 A_17_P00549017 FALSE NM_004550 NDUFS2 ref|NM_004550|ref|NDUFS2:12930|mgcs|BC001456:9860|mgcs|BC008868:12930 chr1:157995083-157995131 INSIDE NC_000001.8[157995083..157995131]
5 103 422 A_17_P00363981 FALSE NM_018284 GBP3 ref|NM_018284|ref|GBP3:-639|ccds|CCDS717.1:-2779|mgcs|BC063819:-722 chr1:089201174-089201234 PROMOTER NC_000001.8[089201174..089201234]
6 103 420 A_17_P00836946 FALSE NM_031944 MIXL1 ref|NM_031944|ref|MIXL1:870|ens|ENST00000331353:870 chr1:222718957-222719017 INSIDE NC_000001.8[222718957..222719017]
7 103 418 A_17_P00179130 FALSE NM_182516 FLJ32011 ref|NM_182516|ref|FLJ32011:1607|ccds|CCDS537.1:-669|mgcs|BC101295:1601 chr1:046726071-046726123 INSIDE NC_000001.8[046726071..046726123]
8 103 416 LACC:GD24C_4_1 pos
9 103 414 A_17_P00263033 FALSE NM_005478 INSL5 ref|NM_005478|ref|INSL5:1105|ens|ENST00000304526:1105 chr1:066977825-066977885 INSIDE NC_000001.8[066977825..066977885]
10 103 412 A_17_P00135859 FALSE NM_017629 EIF2C4 ref|NM_017629|ref|EIF2C4:-4618|ens|ENST00000257131:-4618 chr1:035938278-035938327 PROMOTER NC_000001.8[035938278..035938327]
11 103 410 A_17_P00104753 FALSE NM_207397 CD164L2-GPR3 ref|NM_207397|ref|NM_005281|ref|CD164L2:-9068|ref|GPR3:-290|ccds|CCDS303.1:-1441|mgcs|BC032702:-290|ens|ENST00000311150:-9068 chr1:027402981-027403026 DIVERGENT_PROMOTER NC_000001.8[027402981..027403026]
12 103 408 A_17_P00747937 FALSE NM_181644 DKFZp761N1114 ref|NM_181644|ref|DKFZp761N1114:-829|mgcs|BC036549:-829 chr1:202268962-202269022 PROMOTER NC_000001.8[202268962..202269022]
13 103 406 A_17_P00531439 FALSE NM_198236 ARHGEF11 ref|NM_198236|ref|ARHGEF11:-2538|ref|NM_014784:-2538|ccds|CCDS1162.1:-3578 chr1:153830743-153830803 PROMOTER NC_000001.8[153830743..153830803]
14 103 404 A_17_P00439338 FALSE NM_014917 NTNG1 ref|NM_014917|ref|NTNG1:-3777|mgcs|BC030220:-3777 chr1:107390979-107391039 PROMOTER NC_000001.8[107390979..107391039]
15 103 402 A_17_P00593895 FALSE NM_002021 FMO1 ref|NM_002021|ref|FMO1:6378|mgcs|BC047129:-3055|ens|ENST00000314690:6378 chr1:167955668-167955728 INSIDE NC_000001.8[167955668..167955728]
16 103 400 A_17_P00137267 FALSE NM_014408 TRAPPC3 ref|NM_014408|ref|TRAPPC3:-1419|ens|ENST00000316156:-5312|mgcs|BC007662:-1419 chr1:036285557-036285602 PROMOTER NC_000001.8[036285557..036285602]
17 103 398 A_17_P00168480 FALSE NM_006279 ST3GAL3 ref|NM_006279|ref|ST3GAL3:609|ref|NM_174963:609 chr1:043842896-043842942 INSIDE NC_000001.8[043842896..043842942]
18 103 396 A_17_P00403500 FALSE NM_001001688 FLJ35409 ref|NM_001001688|ref|FLJ35409:155|ens|ENST00000328030:87 chr1:098222858-098222903 INSIDE NC_000001.8[098222858..098222903]
19 103 394 A_17_P00172886 FALSE NM_024587 TMEM53 ref|NM_024587|ref|TMEM53:841|mgcs|BC064520:841 chr1:044808321-044808381 INSIDE NC_000001.8[044808321..044808381]
20 103 392 A_17_P00776866 FALSE NM_015434 C1orf73 ref|NM_015434|ref|C1orf73:5691|mgcs|BC030716:5664 chr1:208591558-208591618 INSIDE NC_000001.8[208591558..208591618]

Total number of rows: 44290

Table truncated, full table size 7654 Kbytes.




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