|
| 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 µm
|
| 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 |
|
