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Sample GSM147888 Query DataSets for GSM147888
Status Public on Feb 15, 2007
Title BT474_replicate1
Sample type genomic
 
Channel 1
Source name Promega Human Male DNA
Organism Homo sapiens
Characteristics Normal Male DNA Promega
Biomaterial provider Promega (Cat# G1471)
Extracted molecule genomic DNA
Extraction protocol DNA provided by Promega Part Number G1471
Label Cy5
Label protocol 0.5ug of DNA was labelled using standard agilent protocols from http://www.opengenomics.com/oligoaCGHLiterature.aspx (
Agilent Oligonucleotide Array-Based CGH for Genomic DNA Analysis, Version 4.0. Part number is G4410-90010
 
Channel 2
Source name BT474
Organism Homo sapiens
Characteristics breast ductal carcinoma cell line
Biomaterial provider ATCC (Cat# HTB-20D)
Extracted molecule genomic DNA
Extraction protocol DNA provided by ATCC Part Number HTB-20D
Label Cy3
Label protocol 0.5ug of DNA was labelled using standard agilent protocols from http://www.opengenomics.com/oligoaCGHLiterature.aspx (
Agilent Oligonucleotide Array-Based CGH for Genomic DNA Analysis, Version 4.0. Part number is G4410-90010)
 
 
Hybridization protocol Standard Agilent Protocols from http://www.opengenomics.com/oligoaCGHLiterature.aspx
Agilent Oligonucleotide Array-Based CGH for Genomic DNA Analysis, Version 4.0. Part number is G4410-90010.
Scan protocol Agilent DNA Microarray Scanner p/n G2565BA.
Scan Region: 61x21.6 mm
Scan Resolution 5 micron
Dye Channel Red & Green
Red and Green PMT 100%
Description Part of a two entry flip fluor record
Data processing Value represent LOG10 Ratio (CH1/CH2) generated by Standard Agilent Protocols from http://www.opengenomics.com/oligoaCGHLiterature.aspx
 
Submission date Nov 30, 2006
Last update date Feb 14, 2007
Contact name Bradley P Coe
E-mail(s) [email protected]
Organization name BC Cancer Research Centre
Department Cancer Genetics and Developmental Biology
Lab Wan Lam Lab
Street address 675 West 10th Ave
City Vancouver
State/province BC
ZIP/Postal code V5Z1L3
Country Canada
 
Platform ID GPL4544
Series (1)
GSE6415 Resolving the resolution of array CGH

Data table header descriptions
ID_REF
VALUE Channel 1 (red) / Channel 2 (green) LOG10 Ratio
CH2_SIG_MEAN Channel 2 (green) Foreground Mean Signal
CH1_SIG_MEAN Channel 1 (red) Foreground Mean Signal
CH2_BKD_MEAN Channel 2 (green) Background Mean Signal
CH1_BKD_MEAN Channel 1 (red) Background Mean Signal
CH2_SATURATION Channel 2 (green) Saturation
CH1_SATURATION Channel 1 (red) Saturation
CH2_NONUNIFORM Channel 2 (green) Spot Non-Uniformity
CH1_NONUNIFORM Channel 1 (red) Spot Non-Uniformity

Data table
ID_REF VALUE CH2_SIG_MEAN CH1_SIG_MEAN CH2_BKD_MEAN CH1_BKD_MEAN CH2_SATURATION CH1_SATURATION CH2_NONUNIFORM CH1_NONUNIFORM
1 4.088834932e-002 9.281935e+002 2.067516e+003 3.488006e+001 4.961416e+001 0 0 0 0
2 0.000000000e+000 4.798413e+001 5.961905e+001 3.570760e+001 4.937817e+001 0 0 0 0
3 -8.548898412e-002 4.873846e+001 6.064615e+001 3.538889e+001 4.981548e+001 0 0 0 0
4 -1.112130286e-001 2.143833e+002 3.304167e+002 3.475787e+001 5.033465e+001 0 0 0 0
5 2.501276982e-003 1.571875e+002 2.920781e+002 3.512331e+001 5.116763e+001 0 0 0 0
6 -5.394492381e-003 2.220000e+002 4.198615e+002 3.510516e+001 5.083939e+001 0 0 0 0
7 -4.403058492e-001 7.309538e+002 5.735231e+002 3.573346e+001 5.030934e+001 0 0 0 0
8 1.228002463e-001 1.834219e+002 4.370625e+002 3.542262e+001 4.942659e+001 0 0 0 0
9 4.332944354e-003 1.845397e+002 3.495238e+002 3.497358e+001 5.060189e+001 0 0 0 0
10 1.586078890e-001 1.372462e+002 3.321077e+002 3.474761e+001 5.072658e+001 0 0 0 0
11 -1.701935008e-001 2.355000e+002 3.247419e+002 3.529222e+001 5.005313e+001 0 0 0 0
12 3.018709043e-002 1.735000e+002 3.424677e+002 3.497852e+001 4.946484e+001 0 0 0 0
13 -4.198083716e-002 2.463788e+002 4.352121e+002 3.431287e+001 4.959604e+001 0 0 0 0
14 7.944006349e-002 2.068750e+002 4.582500e+002 3.477099e+001 5.026336e+001 0 0 0 0
15 2.709201952e-001 8.116129e+001 1.966935e+002 3.530000e+001 4.996154e+001 0 0 0 0
16 -4.222226783e-001 5.078030e+002 4.195758e+002 3.479423e+001 5.037500e+001 0 0 0 0
17 7.758190320e-002 1.832581e+002 3.981935e+002 3.515879e+001 5.074669e+001 0 0 0 0
18 -1.373685235e-001 2.540323e+002 3.722258e+002 3.463126e+001 5.063727e+001 0 0 0 0
19 -2.153559075e-001 3.275231e+002 4.126308e+002 3.464147e+001 5.012597e+001 0 0 0 0
20 1.293152987e-001 1.460328e+002 3.378033e+002 3.491013e+001 5.060038e+001 0 0 0 0

Total number of rows: 243347

Table truncated, full table size 20923 Kbytes.




Supplementary data files not provided
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