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Platform GPL11395 Query DataSets for GPL11395
Status Public on Jan 01, 2014
Title qChipPre BAC Version
Technology type spotted DNA/cDNA
Distribution non-commercial
Organism Homo sapiens
Manufacturer qGenomics. CRG microarray facility
Manufacture protocol 1. Selected BAC clones were grown in 200uL of 2xYT medium supplemented with suitable antibiotic (either cloramphenicol or kanamycin) in a 96 deep-well plate, for 24 hours at 37
2. with gentle shaking (320rpm). We added 40 uL of glicerol 87% (v/v) to the grown bacterial culture, shaked to ensure mixing and preserved at -80ºC.
3. We grew new plates from the glicerinated ones before extracting DNA from clones using a Millipore kit (Montage BAC96 Miniprep Kit, P36392, Rev. 08/01). BAC-end sequences
4. were obtained from the purified product.
5. The extracted DNA was amplified by DOP-PCR (R1 & R2, Fiegler et al., 2003, Genes, Chromosomes and Cancer, 36, 361-374).
6. Amplified products were purified using the Kit Montage PCR96 Plates, Millipore ref. MSNU03010.
7. Quantitation of the purified product was done with PicoGreen dsDNA Quantitation Kit (Molecular Probes, P-7589).
8. DNA was subjected to evaporation using a speed-vac, prior to adjust final concentration at 400ng/uL in spotting buffer (DMSO 50% v/v in water). DNA was then denatured at 99C
9. for 2 minutes. 8uL were placed on a spotting plate before depositing it on the surface of UltraGAPS Slides (Corning, 40015), using a VersArray Chip Writer spotter (BioRad).
 
 
Submission date Jan 07, 2011
Last update date Jan 01, 2014
Contact name Lluis Armengol
Organization name qGenomics
Street address Doctor Aiguader, 88
City BARCELONA
State/province Catalonia
ZIP/Postal code 08003
Country Spain
 
Samples (956) GSM653343, GSM653344, GSM653345, GSM653346, GSM653347, GSM653348 
Series (1)
GSE26654 use of aCGH in a large series of prenatal samples

Data table header descriptions
ID Unique identificator
CLONE_ID
Name alternateProbeName
cyto cytogenetic location of probe
pos reference position in hg18
chr chromosome
charact text position
TYPE type of clone
SPOT_ID

Data table
ID CLONE_ID Name cyto pos chr charact TYPE SPOT_ID
1 RP11-142D8 RP11-142D8_23019958_Chr14q11.2_pericentromer Chr14q11.2 23019958 14 pericentromer TEST
2 RP11-142D8 RP11-142D8_23019958_Chr14q11.2_pericentromer Chr14q11.2 23019958 14 pericentromer TEST
3 RP11-144H7 RP11-144H7_176912367_Chr2q31.1_flanqueja Chr2q31.1 176912367 2 flanqueja TEST
4 RP11-144H7 RP11-144H7_176912367_Chr2q31.1_flanqueja Chr2q31.1 176912367 2 flanqueja TEST
5 RP11-146M24 RP11-146M24_4709924_Chr2p25.2_telomer Chr2p25.2 4709924 2 telomer TEST
6 RP11-146M24 RP11-146M24_4709924_Chr2p25.2_telomer Chr2p25.2 4709924 2 telomer TEST
7 RP11-147I5 RP11-147I5_19315928_Chr17p11.2_flanqueja Chr17p11.2 19315928 17 flanqueja TEST
8 RP11-147I5 RP11-147I5_19315928_Chr17p11.2_flanqueja Chr17p11.2 19315928 17 flanqueja TEST
9 RP11-148A22 RP11-148A22_50259009_Chr5q11.1_pericentromer Chr5q11.1 50259009 5 pericentromer TEST
10 RP11-148A22 RP11-148A22_50259009_Chr5q11.1_pericentromer Chr5q11.1 50259009 5 pericentromer TEST
11 RP11-149G17 RP11-149G17_133706184_Chr11q25_telomer Chr11q25 133706184 11 telomer TEST
12 RP11-149G17 RP11-149G17_133706184_Chr11q25_telomer Chr11q25 133706184 11 telomer TEST
13 RP11-155J5 RP11-155J5_10456943_ChrYp11.2_subtelomer ChrYp11.2 10456943 24 subtelomer XY
14 RP11-155J5 RP11-155J5_10456943_ChrYp11.2_subtelomer ChrYp11.2 10456943 24 subtelomer XY
15 RP11-155L6 RP11-155L6_127363553_Chr12q24.32_subtelomer Chr12q24.32 127363553 12 subtelomer TEST
16 RP11-155L6 RP11-155L6_127363553_Chr12q24.32_subtelomer Chr12q24.32 127363553 12 subtelomer TEST
17 RP11-155N8 RP11-155N8_37919186_Chr10p11.21_pericentromer Chr10p11.21 37919186 10 pericentromer TEST
18 RP11-155N8 RP11-155N8_37919186_Chr10p11.21_pericentromer Chr10p11.21 37919186 10 pericentromer TEST
19 RP11-156D15 RP11-156D15_25235374_Chr20p11.21_pericentromer Chr20p11.21 25235374 20 pericentromer TEST
20 RP11-156D15 RP11-156D15_25235374_Chr20p11.21_pericentromer Chr20p11.21 25235374 20 pericentromer TEST

Total number of rows: 9216

Table truncated, full table size 820 Kbytes.




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Supplementary data files not provided
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