|
| Status |
Public on Feb 05, 2013 |
| Title |
BDK_donor11 (array A) |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
donor 11
|
| Organism |
Homo sapiens |
| Characteristics |
gender: male
disease: atopic dermatitis
|
| Treatment protocol |
third or fourth passaged cells in log phase cultures
|
| Growth protocol |
cultured in Defined Keratinocyte-SFM medium （DK-SFM, GIBCO/Invitrogen Co., CA） at 37°C in a humidified atmosphere containing 5% CO2
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Trizol (Invitrogen, CA) and purified using RNeasy kit (QIAGEN, Hilden, Germany) following manufacturer's instructions
|
| Label |
Cy5
|
| Label protocol |
4 µg of total RNA were labeled with Cy3 or Cy5 monoreactive dyes (Amersham, Buckinghamshire, UK) using RNA Transcript SureLABEL™ Core Kit (TaKaRa Bio) according to the manufacture’s instructions
|
| |
|
| Channel 2 |
| Source name |
Reference RNA
|
| Organism |
Homo sapiens |
| Characteristics |
sample type: a mixture of NHEK total RNA and Universal Human Reference RNA (Stratagene Corporation, CA, USA)
|
| Treatment protocol |
third or fourth passaged cells in log phase cultures
|
| Growth protocol |
cultured in Defined Keratinocyte-SFM medium （DK-SFM, GIBCO/Invitrogen Co., CA） at 37°C in a humidified atmosphere containing 5% CO2
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Trizol (Invitrogen, CA) and purified using RNeasy kit (QIAGEN, Hilden, Germany) following manufacturer's instructions
|
| Label |
Cy3
|
| Label protocol |
4 µg of total RNA were labeled with Cy3 or Cy5 monoreactive dyes (Amersham, Buckinghamshire, UK) using RNA Transcript SureLABEL™ Core Kit (TaKaRa Bio) according to the manufacture’s instructions
|
| |
|
| |
| Hybridization protocol |
hybridization buffer : 50% formamide-6 x SSC-0.2% SDS-5 x denhardt’s-0.2 mg/ml denatured salmon sperm, hybridization : at 70°C for 16 h, washing : three times with 2× SSC, 0.2% SDS at 65°C for 10 min, and rinsed once with 0.05 × SSC at room temperature
|
| Scan protocol |
Scanned on an Affymetrix 428 Array Scanner
Images were quantified using ImaGene version 6.0 (Biodiscovery Inc., CA, USA)
|
| Description |
bulge–derived keratinocytes
|
| Data processing |
LOWESS normalized, background subtracted data obtained from log2 of processed Red signal/processed Green signal. Probes with poor-quality signals (S/N <1.2) and having null data at the frequency of more than 35% in all samples were filtered out using the microarray data analysis software, Expressionist (GeneData AG, Basel, Switzerland).
|
| |
|
| Submission date |
Nov 21, 2008 |
| Last update date |
Feb 05, 2013 |
| Contact name |
Yoshie Yoshikawa |
| E-mail(s) |
yoshiey@hyo-med.ac.jp
|
| Phone |
+81-798-45-6587
|
| Organization name |
Hyogo College of Medicine
|
| Department |
Genetics
|
| Street address |
1-1 Mukogawa-cho
|
| City |
Nishinomiya |
| State/province |
Hyogo |
| ZIP/Postal code |
663-8501 |
| Country |
Japan |
| |
|
| Platform ID |
GPL7687 |
| Series (1) |
| GSE13709 |
Profiling of genes expressed in cultured human keratinocytes established from the bulge region of hair follicles. |
|
