GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Platform GPL7630 Query DataSets for GPL7630
Status Public on Nov 19, 2008
Title INSERM/UEVE Homo sapiens 5.9K CGH-Integragen5878
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 (1) GSM341669
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
ADELA-4G09 (ADELA-4G09) chr4 1.3298137E7 1.3448216E7 chr4:1.3298137E7-1.3448216E7
ADELA-4G08 (RP11-23D24) chr3 1.55310096E8 1.55460208E8 RP11-23D24
ADELA-4G07 (ADELA-4G07) chr13 4.6549072E7 4.6699216E7 chr13:4.6549072E7-4.6699216E7
ADELA-4G06 (RP11-77I5) chr3 6808278.0 6958405.0 RP11-77I5
ADELA-4G05 (RP11-472A3) chr2 1.72519232E8 1.72669376E8 RP11-472A3
BPADA-11D09 (RP11-273J1) chr6 2.2030688E7 2.2211536E7 RP11-273J1
ADELA-4G04 (RP11-34G16) chr2 9.5675784E7 9.5863024E7 RP11-34G16
BPADA-11D08 (RP11-258C19) chrX 5.3159416E7 5.3337608E7 RP11-258C19
ADELA-4G03 (RP11-458N5) chr2 2.5288896E7 2.5485936E7 RP11-458N5
BPADA-4A09 (BPADA-4A09) chrX 4.6046792E7 4.6234648E7 chrX:4.6046792E7-4.6234648E7
BPADA-11D07 (RP11-242D1) chr14 5.8786424E7 5.895724E7 RP11-242D1
ADELA-4G02 (RP11-25F14) chr4 1.44261456E8 1.444268E8 RP11-25F14
BPADA-4A08 (BPADA-4A08) chrX 9.088756E7 9.1050944E7 chrX:9.088756E7-9.1050944E7
BPADA-11D06 (BPADA-11D06) chr12 7249224.0 7381991.0 chr12:7249224.0-7381991.0
ADELA-4G01 (RP11-513B7) chr1 1.90420368E8 1.90579536E8 RP11-513B7
BPADA-4A07 (BPADA-4A07) chr7 9.987364E7 1.00023816E8 chr7:9.987364E7-1.00023816E8
BPADA-11D05 (RP11-211I3) chr19 4784121.0 4960176.0 RP11-211I3
BPADA-4A06 (RP11-29N19) chr14 7.6156912E7 7.6307088E7 RP11-29N19
BPADA-11D04 (RP11-196B15) chr6 7898423.0 8078606.0 RP11-196B15
BPADA-4A05 (BPADA-4A05) chr2 1.6570272E8 1.65852896E8 chr2:1.6570272E8-1.65852896E8

Total number of rows: 5878

Table truncated, full table size 422 Kbytes.

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp

Supplementary data files not provided

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap