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Platform GPL10154 Query DataSets for GPL10154
Status Public on Mar 10, 2010
Title Agilent-021365 SurePrint G3 Human CNV Microarray 2x400K (Feature Number version)
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/
 
Description Agilent's SurePrint G3 Human CNV Microarray, 2x400K

Arrays of this design have barcodes that begin with 16021365 or 2521365.

Data table annotations based on build hg18:NCBI36:Mar2006.

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 09, 2010
Last update date May 27, 2015
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 (21) GSM2094807, GSM2094808, GSM2094809, GSM2094810, GSM2094811, GSM2094812 
Series (5)
GSE79402 CNV Identification: Prostate Cancer (PCa) vs Benign Prostatic Hyperplasia (BPH) Human DNA Samples
GSE79604 Copy number variation between BJ cells and BJ-derived iPS cells
GSE79762 New non-transmissible measles virus vector for establishment of iPS cells
Relations
Alternative to GPL20249

Data table header descriptions
ID Agilent feature number
COL Column
ROW Row
NAME Agilent Probe Name
SPOT_ID Spot identifier
CONTROL_TYPE Control type
GB_ACC GenBank or RefSeq Accession
GENE_SYMBOL Gene Symbol
GENE_NAME Gene Name
ACCESSION_STRING Accession String
CHROMOSOMAL_LOCATION Chromosomal Location
RANGE_GB RefSeq.version of chromosome (NBCI Build 36)
RANGE_START Start position (relative to the RANGE_GB accession)
RANGE_END End position (relative to the RANGE_GB accession)
CYTOBAND Cytoband
DESCRIPTION Description

Data table
ID COL ROW NAME SPOT_ID CONTROL_TYPE GB_ACC GENE_SYMBOL GENE_NAME ACCESSION_STRING CHROMOSOMAL_LOCATION RANGE_GB RANGE_START RANGE_END CYTOBAND DESCRIPTION
1 528 796 HsCGHBrightCorner pos
2 528 794 DarkCorner pos
3 528 792 DarkCorner pos
4 528 790 A_18_P10006582 FALSE NM_022114 PRDM16 PR domain containing 16 ref|NM_022114|ref|NM_199454 chr1:3278991-3279050 NC_000001.9 3278991 3279050 hs|p36.32 Homo sapiens PR domain containing 16 (PRDM16), transcript variant 1, mRNA.
5 528 788 A_16_P00424001 FALSE AK126003 gb|AK126003 chr2:88890044-88890091 NC_000002.10 88890044 88890091 hs|p11.2 Homo sapiens cDNA FLJ44015 fis, clone TESTI4025731.
6 528 786 A_16_P17052534 FALSE AK289547 gb|AK289547 chr5:20454552-20454611 NC_000005.8 20454552 20454611 hs|p14.3 Homo sapiens cDNA FLJ78636 complete cds, highly similar to Homo sapiens cadherin 18, type 2 (CDH18), mRNA.
7 528 784 A_16_P02180308 FALSE CR615044 gb|CR615044 chr9:128311835-128311886 NC_000009.10 128311835 128311886 hs|q33.3 full-length cDNA clone CS0DC007YC03 of Neuroblastoma Cot 25-normalized of Homo sapiens (human).
8 528 782 A_16_P18104390 FALSE chr7:125017404-125017463 NC_000007.12 125017404 125017463 hs|q31.33
9 528 780 A_16_P03807850 FALSE ens|ENST00000382271 chrY:26907147-26907206 NC_000024.8 26907147 26907206 hs|q11.23
10 528 778 A_18_P15971453 FALSE ens|ENST00000338780 chr7:6716710-6716760 NC_000007.12 6716710 6716760 hs|p22.1
11 528 776 A_16_P01397877 FALSE chr5:172935656-172935715 NC_000005.8 172935656 172935715 hs|q35.2
12 528 774 A_16_P39859222 FALSE NM_001136103 TMEM132C transmembrane protein 132C ref|NM_001136103 chr12:127710075-127710119 NC_000012.10 127710075 127710119 hs|q24.32 Homo sapiens transmembrane protein 132C (TMEM132C), mRNA.
13 528 772 A_16_P39584277 FALSE NM_002723 PRB4 proline-rich protein BstNI subfamily 4 ref|NM_002723 chr12:11352427-11352471 NC_000012.10 11352427 11352471 hs|p13.2 Homo sapiens proline-rich protein BstNI subfamily 4 (PRB4), mRNA.
14 528 770 A_16_P17228102 FALSE chr5:98695939-98695998 NC_000005.8 98695939 98695998 hs|q21.1
15 528 768 A_18_P15802626 FALSE chr6:115249983-115250042 NC_000006.10 115249983 115250042 hs|q22.1
16 528 766 A_18_P12612849 FALSE chr17:22344374-22344418 NC_000017.9 22344374 22344418 hs|q11.1
17 528 764 A_18_P12400002 FALSE NM_000296 PKD1 polycystic kidney disease 1 (autosomal dominant) ref|NM_000296|ref|NM_001009944 chr16:2103973-2104017 NC_000016.8 2103973 2104017 hs|p13.3 Homo sapiens polycystic kidney disease 1 (autosomal dominant) (PKD1), transcript variant 2, mRNA.
18 528 762 A_16_P18603818 FALSE NM_018225 SMU1 smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) ref|NM_018225 chr9:33038355-33038414 NC_000009.10 33038355 33038414 hs|p13.3 Homo sapiens smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans) (SMU1), mRNA.
19 528 760 A_16_P03015333 FALSE chr15:39594908-39594967 NC_000015.8 39594908 39594967 hs|q15.1
20 528 758 A_16_P01847946 FALSE BC022082 gb|BC022082|gb|BC038783 chr8:946340-946384 NC_000008.9 946340 946384 hs|p23.3 Homo sapiens cDNA clone IMAGE:4824304.

Total number of rows: 420288

Table truncated, full table size 71425 Kbytes.




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