|
| Status |
Public on Dec 09, 2011 |
| Title |
7-day Cy/Cy rat kidney |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
7-day +/+ rat kidney
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Han:SPRD
genotype/variation: +/+
age: 7 days old
tissue: Kidney
|
| Growth protocol |
Rats were allowed free access to water and food throughout the study.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from kidneys of 3- and 7-day-old rats using a monophasic solution of phenol/guanidine isothiocyanate and TRIzol® reagent (Invitrogen Co., Carlsbad, CA, USA) in accordance with their manual, and the samples were incubated with RNase-free DNase I (Ambion, TX, USA). The quality and concentration of each sample was confirmed by spectrophotometry (NanoDropTM ND-1000; Asahi glass Co. Ltd., Tokyo, Japan).
|
| Label |
Cy3
|
| Label protocol |
200 ng aliquots of total RNA obtained from kidneys of 3- or 7-day-old rats were labeled using an Agilent Low RNA Input Fluorescent Linear Amplification Kit (Agilent Technologies, Inc., Santa Clara, CA, USA) according to the manufacturer’s instructions.
|
| |
|
| Channel 2 |
| Source name |
7-day Cy/Cy rat kidney
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: Han:SPRD
genotype/variation: Cy/Cy
age: 7 days old
tissue: Kidney
|
| Growth protocol |
Rats were allowed free access to water and food throughout the study.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from kidneys of 3- and 7-day-old rats using a monophasic solution of phenol/guanidine isothiocyanate and TRIzol® reagent (Invitrogen Co., Carlsbad, CA, USA) in accordance with their manual, and the samples were incubated with RNase-free DNase I (Ambion, TX, USA). The quality and concentration of each sample was confirmed by spectrophotometry (NanoDropTM ND-1000; Asahi glass Co. Ltd., Tokyo, Japan).
|
| Label |
Cy5
|
| Label protocol |
200 ng aliquots of total RNA obtained from kidneys of 3- or 7-day-old rats were labeled using an Agilent Low RNA Input Fluorescent Linear Amplification Kit (Agilent Technologies, Inc., Santa Clara, CA, USA) according to the manufacturer’s instructions.
|
| |
|
| |
| Hybridization protocol |
1 μg aliquots of Cy3-labeled RNA obtained from age-matched +/+ kidneys and Cy5-labeled RNA from +/+, Cy/+, or Cy/Cy kidneys were mixed and hybridized onto Agilent Rat Oligo Microarrays (product no. G4130A) according to the manufacturer’s hybridization protocol.
|
| Scan protocol |
The microarray slides were examined with an Agilent microarray scanner and software (scanner model G2565BA).
|
| Data processing |
Data analysis was performed with Agilent Feature Extraction software (version A.7.1.1) using default settings and Excel 2003 (Microsoft).
|
| |
|
| Submission date |
Jul 22, 2010 |
| Last update date |
Dec 09, 2011 |
| Contact name |
Kugita Masanori |
| E-mail(s) |
m-kugi@fujita-hu.ac.jp
|
| Organization name |
Fujita Health University
|
| Department |
Center of Animal Models for Human Diseases
|
| Street address |
kutsukake-cho Denngakugakubo 1-98
|
| City |
Toyoake |
| State/province |
Aichi |
| ZIP/Postal code |
470-1192 |
| Country |
Japan |
| |
|
| Platform ID |
GPL4135 |
| Series (1) |
| GSE23079 |
Global gene expression profiling in early-stage polycystic kidney disease in the Han:SPRD Cy rat identifies a role for RXR signaling |
|
