|
Status |
Public on Feb 28, 2013 |
Title |
Mouse liver PB vs. Control 1.5X cDNA 8 |
Sample type |
RNA |
|
|
Channel 1 |
Source name |
Phenobarbital-exposed mouse liver, 1.5X cDNA input, replicate 2.2
|
Organism |
Mus musculus |
Characteristics |
age: 42 days gender: male strain: B6C3F1 organ: liver exposure: Phenobarbital cdna input: 1.5X
|
Treatment protocol |
Mice were exposed to PB in drinking water (or drinking water alone) for ~4 weeks
|
Growth protocol |
16-year-old FFPE liver tissue blocks were used
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was extracted using the Qiagen FFPE Rneasy kit; cDNA was synthesized using the WTA2 kit (Sigma)
|
Label |
Cy5
|
Label protocol |
cDNA was labeled using the KREAtech ULS genomic DNA labeling kit (Agilent)
|
|
|
Channel 2 |
Source name |
Control mouse liver, 1.5X cDNA input, replicate 2.2
|
Organism |
Mus musculus |
Characteristics |
age: 42 days gender: male strain: B6C3F1 organ: liver exposure: none cdna input: 1.5X
|
Treatment protocol |
Mice were exposed to PB in drinking water (or drinking water alone) for ~4 weeks
|
Growth protocol |
16-year-old FFPE liver tissue blocks were used
|
Extracted molecule |
total RNA |
Extraction protocol |
RNA was extracted using the Qiagen FFPE Rneasy kit; cDNA was synthesized using the WTA2 kit (Sigma)
|
Label |
Cy3
|
Label protocol |
cDNA was labeled using the KREAtech ULS genomic DNA labeling kit (Agilent)
|
|
|
|
Hybridization protocol |
1X (samples 1-8) or 1.5X (samples 9-16) cDNA was blocked with Agilent CGH-block and GE-blocking agent and hybridized to Agilent SurePrint GE 8x60 1.5 Mouse microarrays for 17 hours at 65C at 20rpm
|
Scan protocol |
Arrays were washed and scanned on an Agilent G2505B Scanner according to manufacturer’s recommendations.Â
|
Description |
Pos_2_4_Dye_Cy5_Sample_53 Pos_2_4_Dye_Cy3_Sample_38
|
Data processing |
Agilent FE software, version 11 (one color protocol: GE1_1100_Jul11, or two-color protocol: GE2_1100_Jul11).
|
|
|
Submission date |
Sep 19, 2012 |
Last update date |
Feb 28, 2013 |
Contact name |
Anna Francina Jackson |
E-mail(s) |
francina.jackson@hc-sc.gc.ca
|
Organization name |
Health Canada
|
Department |
Environmental Health Center
|
Lab |
Dr. Carole Yauk
|
Street address |
50 Colombine Drive, Tunney's Pasture
|
City |
Ottawa |
State/province |
Ontario |
ZIP/Postal code |
K1A 0K9 |
Country |
Canada |
|
|
Platform ID |
GPL13912 |
Series (1) |
GSE40990 |
Preparation of archival formalin-fixed paraffin-embedded mouse liver samples for use with the Agilent gene expression microarray platform |
|