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Platform GPL6611 Query DataSets for GPL6611
Status Public on Mar 19, 2008
Title Agilent-013910 Mouse Proximal Promoter ChIP-on-Chip Set, Microarray 1 of 2 (G4482A)
Technology type in situ oligonucleotide
Distribution commercial
Organism Mus musculus
Manufacturer Agilent Technologies
Manufacture protocol see manufacturer's web site at http://www.agilent.com/
Catalog number G4482A
 
Description
The Mouse Proximal 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 -1.0KB upstream to +0.3KB downstream of the transcriptional start sites. The two slide set provides coverage for ~17,000 of the best defined mouse transcripts.

Arrays of this design have barcodes that begin with 16013910 or 2513910.

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 Mar 19, 2008
Last update date Mar 20, 2008
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
 
Samples (4) GSM392063, GSM392064, GSM392065, GSM392066
Series (1)
GSE15634 Methylation changes occurring in early postnatal liver development

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 RefSeq location (mm8, NCBI Build 36)

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 MmCGHBrightCorner pos
2 103 428 NegativeControl neg
3 103 426 A_68_P04627885 FALSE NM_011847 Dnajb6 ref|NM_011847|ref|Dnajb6:-846|ref|NM_001037940:-925|ens|ENSMUST00000065372.3:843 chr5:030065855-030065906 PROMOTER NC_000071.4[030065855..030065906]
4 103 424 LACC:GD230 pos
5 103 422 A_68_P03589477 FALSE NM_026125 C1qdc2 ref|NM_026125|ref|C1qdc2:-967|ref|NM_021402:17520|mgc|BC026939:-1001 chr4:154805122-154805178 PROMOTER NC_000070.4[154805122..154805178]
6 103 420 A_68_P01772124 FALSE NM_207264 BC052040 ref|NM_207264|ref|BC052040:-112|mgc|BC052040:-69 chr2:115273082-115273127 PROMOTER NC_000068.5[115273082..115273127]
7 103 418 A_68_P01641589 FALSE NM_012032 Serinc3 ref|NM_012032|ref|Serinc3:-978|ens|ENSMUST00000076667.1:1260|mgc|BC022901:-1029 chr2:163337521-163337580 PROMOTER NC_000068.5[163337521..163337580]
8 103 416 A_68_P06922247 FALSE NM_027187 Rnaseh2a-Prdx2 ref|NM_027187|ref|NM_011563|ref|Rnaseh2a:-2983|ref|Prdx2:-653|ref|NM_008416:9754|mgc|BC086783:-1244|mgc|BC029252:-2953 chr8:087859071-087859127 DIVERGENT_PROMOTER NC_000074.4[087859071..087859127]
9 103 414 A_68_P00866607 FALSE mgc|BC057872:586|ens|ENSMUST00000102107.1:4287|ens|ENSMUST00000069652.4:43020 chr1:186948020-186948079 NC_000067.4[186948020..186948079]
10 103 412 A_68_P01078010 FALSE NM_010555 Il1r2 ref|NM_010555|ref|Il1r2:-998|mgc|BC032962:-1022 chr1:040028286-040028345 PROMOTER NC_000067.4[040028286..040028345]
11 103 410 A_68_P05042239 FALSE NM_207025 Tas2r123 ref|NM_207025|ref|Tas2r123:-361|ref|NM_053212:-8657|mgc|BC140256:-360 chr6:132812444-132812503 PROMOTER NC_000072.4[132812444..132812503]
12 103 408 A_68_P02667459 FALSE NM_175183 Atxn7l2 ref|NM_175183|ref|Atxn7l2:-8|ref|NM_008596:15657|ens|ENSMUST00000056587.4:-2859 chr3:108338976-108339020 PROMOTER NC_000069.4[108338976..108339020]
13 103 406 A_68_P02556607 FALSE NM_001081411 Sclt1 ref|NM_001081411|ref|Sclt1:708|mgc|BC043136:675 chr3:041838326-041838385 INSIDE NC_000069.4[041838326..041838385]
14 103 404 A_68_P04810844 FALSE NM_001007590 Gm447 ref|NM_001007590|ref|Gm447:-969|ref|NM_011435:12807|ens|ENSMUST00000101208.1:8670|ens|ENSMUST00000094792.2:59125|mgc|BC025881:-969 chr5:052664836-052664880 PROMOTER NC_000071.4[052664836..052664880]
15 103 402 A_68_P04597809 FALSE NM_016869 Corin ref|NM_016869|ref|Corin:-1140|mgc|BC093485:-875|ens|ENSMUST00000087216.3:18881 chr5:072784454-072784513 PROMOTER NC_000071.4[072784454..072784513]
16 103 400 A_68_P02019836 FALSE NM_001033960 Rabgap1 ref|NM_001033960|ref|Rabgap1:87965|ref|NM_146121:96934|ens|ENSMUST00000066055.2:87965 chr2:037362199-037362256 INSIDE NC_000068.5[037362199..037362256]
17 103 398 A_68_P07305548 FALSE NM_029751 Rpl18a-Mtap1s ref|NM_029751|ref|NM_173013|ref|Rpl18a:-362|ref|Mtap1s:-8212|ref|NM_053248:-5050|ens|ENSMUST00000019405.1:-8207|mgc|BC037146:-376 chr8:073826734-073826793 DIVERGENT_PROMOTER NC_000074.4[073826734..073826793]
18 103 396 A_68_P03868404 FALSE NM_009711 Artn ref|NM_009711|ref|Artn:-119|ref|NM_009176:205008|mgc|BC140274:-2199|ens|ENSMUST00000097913.1:-412 chr4:117427792-117427836 PROMOTER NC_000070.4[117427792..117427836]
19 103 394 A_68_P05982377 FALSE NM_177382 Cyp2r1 ref|NM_177382|ref|Cyp2r1:-546|mgc|BC108961:-546 chr7:114354672-114354727 PROMOTER NC_000073.4[114354672..114354727]
20 103 392 A_68_P06316193 FALSE NM_010096 Ebf3 ref|NM_010096|ref|Ebf3:544|mgc|BC067018:513 chr7:137152222-137152266 INSIDE NC_000073.4[137152222..137152266]

Total number of rows: 44290

Table truncated, full table size 7659 Kbytes.




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