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Platform GPL7626 Query DataSets for GPL7626
Status Public on Nov 19, 2008
Title INSERM/UEVE Homo sapiens 5.1K CGH-Integragen 3
Technology type spotted DNA/cDNA
Distribution non-commercial
Organism Homo sapiens
Manufacturer Integragen
Manufacture protocol IntegraChip genome-wide BAC arrays of 4,898 BAC clones (600-kb median spacing) were hybridized by the manufacturer, IntegraGen (Evry, France). The genomic positions of all clones on the array have been determined by BAC end sequencing.
A genomic DNA labeling kit (Enzo, Farmingdale, NY) was used to label the sample DNA with Cy5 or with Cy3. The labeled products were purified with QiaQuick polymerase chain reaction (PCR) purification kits (Qiagen, Valencia, CA). After addition of tRNA (48 mg) plus a quantity of human Cot DNA (Invitrogen, Carlsbad, CA) equal to 50 times the mass of the labeled DNAs, the resulting products were concentrated by vacuum centrifugation, resuspended in 43 mL of hybridization solution (Ambion, Austin, TX) and deposited on the array under a coverslip. Hybridization in a sealed chamber (Corning Life Sciences, Acton, MA) was for 66 hours at 55_C, and then washed. Slides were scanned (Agilent Technologies, Santa Clara, CA), data were extracted with GenePix 6 (Axon InstrumentseMolecular Devices, Sunnyvale, CA), and copy number analysis was performed with GenoCensus (IntegraGen), which includes block Loess normalization.
Contributor(s) Perrier AL
Submission date Nov 12, 2008
Last update date Nov 19, 2008
Contact name Anselme Louis Perrier
Phone +33 1 69 90 85 23
Fax +33 1 69 90 85 21
Organization name INSERM/UEVE UMR 861,
Department I-Stem, AFM
Street address 5 rue desbrueres
City Evry cedex
ZIP/Postal code 91000
Country France
Samples (2) GSM341589, GSM341592
Series (1)
GSE13565 Human ES cells reveal recurrent genomic instability at 20q11.21

Data table header descriptions
SeqRegion Chromosome, human genome build 36
Start Genomic position in base pairs, first base of the clone, human genome build 36
End enomic position in base pairs, last base of the clone, human genome build 36

Data table
ID SeqRegion Start End CLONE_ID SPOT_ID
CURIE-16G11 (CURIE-16G11) chr11 9.163276E7 9.1782976E7 chr11:91632760-91782976
DBACA-3B11 (RP11-411H5) chr1 1.01859312E8 1.02009416E8 RP11-411H5
DBACA-14D03 (RP11-192M1) chr1 2.24121936E8 2.24272112E8 RP11-192M1
IGGAP-23E10 (RP11-586I21) chr4 7.4067312E7 7.4267928E7 RP11-586I21
ADELA-9G05 (RP11-685N10) chr11 9.374352E7 9.3936088E7 RP11-685N10
DBACA-15C11 (RP11-335H4) chrX 9.4570632E7 9.4723656E7 RP11-335H4
BPADA-8E03 (RP11-14N24) chr4 1.30912088E8 1.31082688E8 RP11-14N24
DBACA-15B05 (RP11-526P6) chr12 1.26685624E8 1.26835776E8 RP11-526P6
IGGAP-24C11 (RP11-807F23) chrY 7501442.0 7685773.0 RP11-807F23
CURIE-14G10 (RP11-122A4) chr14 5.1983828E7 5.2137968E7 RP11-122A4
CURIE-14C08 (RP11-100C2) chr5 8.2457016E7 8.2613136E7 RP11-100C2
IGGAP-24D04 (RP11-683L23) chr18 5996.0 173625.0 RP11-683L23
DBACA-18A03 (CTB-40M15) chr2 1.7206768E8 1.72186064E8 chr2:172067680-172186064
IGGAP-22E07 (RP11-242B20) chr4 1.90768192E8 1.9093144E8 RP11-242B20
APADA-2B07 (RP11-379B8) chr6 8.2540272E7 8.2690472E7 RP11-379B8
BPADA-9F10 (BPADA-9F10) chr19 2.3940352E7 2.4108004E7 chr19:23940352-24108004
DBACA-21F02 (CTA-190C6) chr11 6.9152232E7 6.9302728E7 chr11:69152232-69302728
ADELA-4B07 (RP11-41F5) chr3 2.373027E7 2.3880384E7 RP11-41F5
ADELA-4A11 (RP11-481K16) chr4 1.44727312E8 1.44877568E8 RP11-481K16
ADELA-10B08 (RP11-139K6) chr17 2.866489E7 2.8815872E7 RP11-139K6

Total number of rows: 5152

Table truncated, full table size 357 Kbytes.

Download family Format
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Supplementary data files not provided

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