|
| Status |
Public on Jan 20, 2012 |
| Title |
Epstein-Barr virus–transformed human lymphoblastoid cell lines_male pooled |
| Sample type |
RNA |
| |
|
| Source name |
human lymphoblastoid cell lines
|
| Organism |
Homo sapiens |
| Characteristics |
gender: male
phenotype: normal
|
| Growth protocol |
LCLs were established from normal adults, including ten males (18 to 48 years old) and five females (17 to 45 years old), with B95-8 supernatant. LCLs were maintained in culture with RPMI1640 medium with 10% FCS.
For female LCLs, to separate Xp active and Xm active clones, serial dilution and re-expansion was performed. DNA was extracted from each clone and X chromosome activation state was examined by HUMARA analysis.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Same amounts of Xp active and Xm active female LCL clones from five females and the same amounts of LCL clones from ten males were pooled respectively. Total RNA was isolated by Trizol Reagents (invitrogen).
|
| Label |
Cy3
|
| Label protocol |
Labeling was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
|
| |
|
| Hybridization protocol |
Hybridization was performed by NimbleGen Systems Inc., Madison, WI, USA following their standard operating protocol. See www.nimblegen.com.
|
| Scan protocol |
Scanning was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
|
| Description |
This sample is pooled LCLs from normal 10 human male.
|
| Data processing |
The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction as implemented in the NimbleScan software package, version 2.4.27 (Roche NimbleGen, Inc.).
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| |
|
| Submission date |
Jan 19, 2012 |
| Last update date |
Jan 20, 2012 |
| Contact name |
Yo Niida |
| E-mail(s) |
niida@staff.kanazawa-u.ac.jp
|
| Organization name |
Kanazawa Univ.
|
| Street address |
13-1 Takaramachi
|
| City |
Kanazawa |
| State/province |
Ishikawa |
| ZIP/Postal code |
920-8641 |
| Country |
Japan |
| |
|
| Platform ID |
GPL15143 |
| Series (1) |
| GSE35207 |
Expression analysis of Epstein-Barr virus–transformed human lymphoblastoid cell lines (LCLs) between male and female. |
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