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Sample GSM1619963 Query DataSets for GSM1619963
Status Public on Feb 28, 2015
Title Sample 5_TC25.28
Sample type genomic
 
Channel 1
Source name blood mononuclear cells
Organism Homo sapiens
Characteristics sample type: human DNA reference pool XY
cell type: blood mononuclear cells
Extracted molecule genomic DNA
Extraction protocol Qiagen
Label Cye5-dUTP
Label protocol According to manufacturer's instructions (Agilent)
 
Channel 2
Source name iPSC gene corrected
Organism Homo sapiens
Characteristics cell line/clone id: clone 25 Talen 28
cell type: iPSC gene corrected from sample 3
Extracted molecule genomic DNA
Extraction protocol Qiagen
Label Cye3-dUTP
Label protocol According to manufacturer's instructions (Agilent)
 
 
Hybridization protocol According to manufacturer's instructions (Agilent)
Scan protocol Microarray slides were scanned immediately after washing using an Agilent microarray scanner G2505B at a resolution of 2 ┬Ám
Description Sample 5
Data processing Feature extraction and Genomic Workbench (Agilent)
Genome: hg19
Aberration Algorithm: ADM-2
Threshold: 7.0
Fuzzy Zero: ON
GC Correction: ON
Window Size: 2Kb
Centralization (legacy): OFF
Diploid Peak Centralization: ON
Manually Reassign Peaks: OFF
Combine Replicates (Intra Array): ON
Combine Replicates (Inter Array): OFF
Array Level Filter: NONE
Aberration Filter: ( Minimum Number of Probes for Amplification >= 3
AND Minimum Size (Kb) of Region for Amplification >= 0.0
AND Minimum Avg. Absolute Log Ratio for Amplification >= 0.0 )
OR ( Minimum Number of Probes for Deletion >= 3
AND Minimum Size (Kb) of Region for Deletion >= 0.0
AND Minimum Avg. Absolute Log Ratio for Deletion >= 0.0 )
Feature Level Filter: gIsSaturated = true OR rIsSaturated = true OR gIsFeatNonUnifOL = true OR rIsFeatNonUnifOL = true OR LogRatio = 0
Design Level Filter: Homology = 0 OR IsPseudoautosomal = 1
Genomic Boundary: OFF
Show Flat Intervals: OFF
 
Submission date Feb 26, 2015
Last update date Feb 28, 2015
Contact name Doris Johanna Steinemann
E-mail(s) steinemann.doris@mh-hannover.de
Phone +495115324669
Organization name Hannover Medical School
Department Institute of Human Genetics
Lab Array-Lab
Street address Carl-Neuberg-Str.1
City Hannover
ZIP/Postal code 30625
Country Germany
 
Platform ID GPL9777
Series (1)
GSE66337 X-CGD iPS cells before and after genome editing by designer nucleases

Data table header descriptions
ID_REF
VALUE ADM2-normalized log2 ratio Cy3/Cy5

Data table
ID_REF VALUE
1 2.513295894e-002
2 -6.771898791e-001
3 -5.047922117e-001
4 -1.371491058e-004
5 -5.840692578e-002
6 5.814531637e-002
7 -3.102636295e-002
8 2.254047887e-003
9 1.515110698e-002
10 -8.423466952e-002
11 -2.800748594e-002
12 1.455343770e-002
13 -8.624354349e-002
14 1.535321403e-003
15 -6.404477624e-003
16 -3.981478127e-002
17 -5.591828177e-003
18 6.416905017e-002
19 8.176061663e-002
20 4.869304325e-004

Total number of rows: 420288

Table truncated, full table size 9947 Kbytes.




Supplementary file Size Download File type/resource
GSM1619963_TC25_28-izmp2013_252185018988_S01_CGH_1100_Jul11_1_2.txt.gz 43.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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