|
| Status |
Public on Nov 26, 2013 |
| Title |
HDF-GM00285 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
HDF-GM00285
|
| Organism |
Homo sapiens |
| Characteristics |
karyotype: Ring chromosome 13
|
| Biomaterial provider |
Coriell; http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM00285
|
| Growth protocol |
Cell lines were grown according to standard conditions.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted from GM00285 and GM05563 fibroblasts and iPSCs using the Qiagen QIAmp DNA micro Kit. DNA quality and quantity was assessed using a Nanodrop Spectrophotometer.
|
| Label |
Cy5
|
| Label protocol |
One μg of DNA is fragmented with restriction enzymes and the test DNA labeled with Cyanine 5dUTP and reference DNA with Cyanine 3-dUTP by ExoKlenow fragment. Labeled DNA is then purified using Millipore Amicon Ultracel-30 filters and the labeling efficiency determined by the NanoDrop spectrophotometer (see Table 2).
|
| |
|
| Channel 2 |
| Source name |
Control-Male 1
|
| Organism |
Homo sapiens |
| Characteristics |
karyotype: Normal
|
| Growth protocol |
Cell lines were grown according to standard conditions.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted from GM00285 and GM05563 fibroblasts and iPSCs using the Qiagen QIAmp DNA micro Kit. DNA quality and quantity was assessed using a Nanodrop Spectrophotometer.
|
| Label |
Cy3
|
| Label protocol |
One μg of DNA is fragmented with restriction enzymes and the test DNA labeled with Cyanine 5dUTP and reference DNA with Cyanine 3-dUTP by ExoKlenow fragment. Labeled DNA is then purified using Millipore Amicon Ultracel-30 filters and the labeling efficiency determined by the NanoDrop spectrophotometer (see Table 2).
|
| |
|
| |
| Hybridization protocol |
The labeled DNA is prepared for hybridization with human Cot1 DNA and placed on the Sureprint G3 human CGH + SNP 4x180k microarray and hybridized at 65ºC for ~ 24hours.
|
| Scan protocol |
The arrays are washed and scanned at 3μM resolution on an Agilent G2565CA High Resolution Scanner.
|
| Data processing |
Data was processed through Agilent’s Feature Extraction software version 11.0.1.1 using the protocol CGH_1100_Jul11 and the 029830_D_F_20100916 grid file.
|
| |
|
| Submission date |
Nov 20, 2013 |
| Last update date |
Dec 05, 2013 |
| Contact name |
Yohei Hayashi |
| E-mail(s) |
yohei.hayashi@riken.jp
|
| Organization name |
RIKEN
|
| Department |
BioResource Research Center
|
| Lab |
iPS Cell Advanced Characterization and Development
|
| Street address |
3-1-1 Koyadai
|
| City |
Tsukuba |
| State/province |
Ibaraki |
| ZIP/Postal code |
305-0074 |
| Country |
Japan |
| |
|
| Platform ID |
GPL11358 |
| Series (1) |
| GSE52585 |
Chromosomal status of GM00285 and GM05563 fibroblast and iPSCs |
|
