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Platform GPL4091 Query DataSets for GPL4091
Status Public on Aug 15, 2006
Title Agilent-014693 Human Genome CGH Microarray 244A (Feature number version)
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 G4411B
 
Description
This microarray is Agilent’s premium product for human DNA copy-number profiling. Over 236,000 60-mer oligonucleotide probes, specifically optimized for copy-number measurement, span coding and non-coding genomic sequences with median spacing of 7.4 kb and 16.5 kb respectively. This microarray is designed for use with Agilent’s optimized assay protocols, enabling researchers to use nanogram levels of total genomic DNA without complexity reduction.

Arrays of this design have barcodes that begin with 16014693 or 2514693.

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.

*** A different version of this platform with the Agilent Probe names in the ID column is assigned accession number GPL9128.
 
Submission date Aug 15, 2006
Last update date Oct 26, 2016
Organization Agilent Technologies
E-mail(s) [email protected]
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 (2690) GSM183878, GSM183879, GSM183880, GSM183881, GSM183882, GSM183883 
Series (113)
GSE7603 Human TALL tumor vs Normal Human DNA
GSE7615 Cancer Process Study
GSE7822 A comparison of DNA copy number profiling platforms using a panel of melanoma cell lines
Relations
Alternative to GPL9128

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
1 267 912 HsCGHBrightCorner pos
2 267 910 DarkCorner pos
3 267 908 DarkCorner pos
4 267 906 A_16_P20527812 FALSE chr16:076331867-076331926 hs|q23.1 NC_000016.8[076331867..076331926]
5 267 904 A_16_P01708709 FALSE NM_138295 PKD1L1 polycystic kidney disease 1 like 1 ref|NM_138295|ref|NM_025031 chr7:047626734-047626793 hs|p12.3 Homo sapiens polycystic kidney disease 1 like 1 (PKD1L1), mRNA. NC_000007.11[047626734..047626793]
6 267 902 A_16_P36062310 FALSE NM_005235 ERBB4 v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian) ref|NM_005235 chr2:213225788-213225847 hs|q34 Homo sapiens v-erb-a erythroblastic leukemia viral oncogene homolog 4 (avian) (ERBB4), mRNA. NC_000002.9[213225788..213225847]
7 267 900 A_16_P21111448 FALSE NM_001008409 TTLL9 tubulin tyrosine ligase-like family, member 9 ref|NM_001008409 chr20:029932639-029932698 hs|q11.21 Homo sapiens tubulin tyrosine ligase-like family, member 9 (TTLL9), mRNA. NC_000020.9[029932639..029932698]
8 267 898 A_16_P03325298 FALSE NM_032933 C18orf45 chromosome 18 open reading frame 45 ref|NM_032933 chr18:019174920-019174979 hs|q11.2 Homo sapiens chromosome 18 open reading frame 45 (C18orf45), mRNA. NC_000018.8[019174920..019174979]
9 267 896 A_14_P106403 FALSE NM_005920 MEF2D MADS box transcription enhancer factor 2, polypeptide D (myocyte enhancer factor 2D) ref|NM_005920 chr1:153264534-153264593 hs|q22 Homo sapiens MADS box transcription enhancer factor 2, polypeptide D (myocyte enhancer factor 2D) (MEF2D), mRNA. NC_000001.8[153264534..153264593]
10 267 894 A_14_P129311 FALSE chrX:053705063-053705122 hs|p11.22 NC_000023.8[053705063..053705122]
11 267 892 A_16_P16560117 FALSE chr3:197830673-197830732 hs|q29 NC_000003.9[197830673..197830732]
12 267 890 A_16_P18390323 FALSE chr8:090877274-090877333 hs|q21.3 NC_000008.9[090877274..090877333]
13 267 888 A_16_P16752813 FALSE chr4:085811081-085811140 hs|q21.23 NC_000004.9[085811081..085811140]
14 267 886 A_14_P122429 FALSE NM_153447 NALP5 NACHT, leucine rich repeat and PYD containing 5 ref|NM_153447 chr19:061207075-061207134 hs|q13.43 Homo sapiens NACHT, leucine rich repeat and PYD containing 5 (NALP5), mRNA. NC_000019.8[061207075..061207134]
15 267 884 A_16_P01164612 FALSE NM_001044 SLC6A3 solute carrier family 6 (neurotransmitter transporter, dopamine), member 3 ref|NM_001044 chr5:001482655-001482714 hs|p15.33 Homo sapiens solute carrier family 6 (neurotransmitter transporter, dopamine), member 3 (SLC6A3), mRNA. NC_000005.8[001482655..001482714]
16 267 882 A_16_P00541510 FALSE NM_020943 KIAA1604 KIAA1604 protein ref|NM_020943 chr2:180654806-180654865 hs|q31.3 Homo sapiens KIAA1604 protein (KIAA1604), mRNA. NC_000002.9[180654806..180654865]
17 267 880 A_16_P03187952 FALSE chr16:080764256-080764315 hs|q23.3 NC_000016.8[080764256..080764315]
18 267 878 A_16_P03803240 FALSE NM_014893 NLGN4Y neuroligin 4, Y-linked ref|NM_014893 chrY:015325617-015325676 hs|q11.221 Homo sapiens neuroligin 4, Y-linked (NLGN4Y), mRNA. NC_000024.7[015325617..015325676]
19 267 876 A_16_P17174549 FALSE NM_018046 AGGF1 angiogenic factor with G patch and FHA domains 1 ref|NM_018046 chr5:076371203-076371262 hs|q13.3 Homo sapiens angiogenic factor with G patch and FHA domains 1 (AGGF1), mRNA. NC_000005.8[076371203..076371262]
20 267 874 A_16_P16167777 FALSE NM_003615 SLC4A7 solute carrier family 4, sodium bicarbonate cotransporter, member 7 ref|NM_003615 chr3:027444336-027444395 hs|p24.1 Homo sapiens solute carrier family 4, sodium bicarbonate cotransporter, member 7 (SLC4A7), mRNA. NC_000003.9[027444336..027444395]

Total number of rows: 243504

Table truncated, full table size 45984 Kbytes.






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