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Platform GPL4113 Query DataSets for GPL4113
Status Public on Aug 17, 2006
Title Agilent-013864 Human Promoter ChIP-on-Chip Set, Microarray 2 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 16013864 or 2513864.

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_P02000824 FALSE NM_173351 OR6B3 ref|NM_173351|ref|OR6B3:-2653|ens|ENST00000328627:442304|ens|ENST00000355104:-5743|ens|ENST00000319423:-2644 chr2:240708110-240708155 PROMOTER NC_000002.9[240708110..240708155]
4 103 424 A_17_P01063480 FALSE NM_003353 UCN ref|NM_003353|ref|UCN:-442|ref|NM_187841:25973|ref|NM_002437:13859|ens|ENST00000296099:-442 chr2:027443201-027443246 PROMOTER NC_000002.9[027443201..027443246]
5 103 422 A_17_P01846782 FALSE NM_005896 IDH1 ref|NM_005896|ref|IDH1:16|ccds|CCDS2381.1:-3515|mgcs|BC012846:-880 chr2:208945274-208945319 INSIDE NC_000002.9[208945274..208945319]
6 103 420 A_17_P00960753 FALSE NM_003108 SOX11 ref|NM_003108|ref|SOX11:-6787|ens|ENST00000322002:-6787 chr2:005776586-005776632 PROMOTER NC_000002.9[005776586..005776632]
7 103 418 A_17_P01806059 FALSE NM_153031 FLJ32063 ref|NM_153031|ref|FLJ32063:996|ens|ENST00000295075:996 chr2:200161098-200161143 INSIDE NC_000002.9[200161098..200161143]
8 103 416 LACC:GD24C_4_1 pos
9 103 414 A_17_P02237210 FALSE NM_033010 PCBP4 ref|NM_033010|ref|PCBP4:-4311|ref|NM_080865:11823|ref|NM_033009:-5567|ref|NM_033008:250|ens|ENST00000337024:-4311 chr3:051976237-051976282 PROMOTER NC_000003.9[051976237..051976282]
10 103 412 A_17_P02188560 FALSE NM_001248 ENTPD3 ref|NM_001248|ref|ENTPD3:-422|mgcs|BC029869:-1266 chr3:040403247-040403302 PROMOTER NC_000003.9[040403247..040403302]
11 103 410 A_17_P01256902 FALSE NM_014882 ARHGAP25 ref|NM_014882|ref|ARHGAP25:2099|ref|NM_001007231:42064|mgcs|BC039591:1960 chr2:068915655-068915709 INSIDE NC_000002.9[068915655..068915709]
12 103 408 A_17_P01186820 FALSE NM_006794 GPR75 ref|NM_006794|ref|GPR75:5366|mgcs|BC067476:223 chr2:053993329-053993378 INSIDE NC_000002.9[053993329..053993378]
13 103 406 A_17_P00986509 FALSE NM_144583 ATP6V1C2 ref|NM_144583|ref|ATP6V1C2:840|mgcs|BC012142:-293 chr2:010813236-010813284 INSIDE NC_000002.9[010813236..010813284]
14 103 404 A_17_P01111509 FALSE NM_144713 FAM82A ref|NM_144713|ref|FAM82A:-1453|ens|ENST00000234195:-1453|ens|ENST00000357809:23663|mgcs|BC024243:20251 chr2:038087773-038087833 PROMOTER NC_000002.9[038087773..038087833]
15 103 402 A_17_P02062527 FALSE NM_003178 SYN2 ref|NM_003178|ref|SYN2:-7280|ref|NM_133625:-7280 chr3:012013554-012013614 PROMOTER NC_000003.9[012013554..012013614]
16 103 400 A_17_P02244716 FALSE NM_000720 CACNA1D ref|NM_000720|ref|CACNA1D:-1054|ens|ENST00000350061:-1172 chr3:053503039-053503084 PROMOTER NC_000003.9[053503039..053503084]
17 103 398 A_17_P01756160 FALSE NM_000090 COL3A1 ref|NM_000090|ref|COL3A1:1819|mgcs|BC028178:1806 chr2:189666393-189666453 INSIDE NC_000002.9[189666393..189666453]
18 103 396 A_17_P02268254 FALSE NM_007042 RPP14 ref|NM_007042|ref|RPP14:-3946|ref|NM_020676:64747|ccds|CCDS2888.1:-8001|ccds|CCDS2887.1:45742|mgcs|BC002441:-3977 chr3:058263065-058263125 PROMOTER NC_000003.9[058263065..058263125]
19 103 394 A_17_P00933000 FALSE NM_030645 SH3BP5L-ZNF672 ref|NM_030645|ref|NM_024836|ref|SH3BP5L:-7826|ref|ZNF672:-4549|mgcs|BC008872:-4741|mgcs|BC017254:-8805|ens|ENST00000343022:-7148 chr1:245337701-245337761 DIVERGENT_PROMOTER NC_000001.8[245337701..245337761]
20 103 392 A_17_P01963367 FALSE NM_000751 CHRND ref|NM_000751|ref|CHRND:7182|mgcs|BC093923:7210 chr2:233223578-233223638 INSIDE NC_000002.9[233223578..233223638]

Total number of rows: 44290

Table truncated, full table size 7588 Kbytes.




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