|
| Status |
Public on Jun 01, 2013 |
| Title |
prg-1 (pk2290); daf-2 (e1370) Early vs. Late |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Caenorhabditis elegans Bristol N2 prg-1 (pk2298); daf-2 (e1370) Late
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
strain: Bristol N2
genotype: Substitution early stop mutant prg-1, missense substitution mutant daf-2
phenotype: Normal
|
| Treatment protocol |
Unstarved worms on plates recently depleted of food were harvested using M9 buffer, rinsed with additional M9 and then used in the extraction protocol.
|
| Growth protocol |
All Caenorhabditis elegans samples were grown and propagated on NGM plates seeded with OP50 E. coli and maintained at 20ºC
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was harvested using TRIzol Reagent Protocol (Life Technologies).
|
| Label |
Cy5
|
| Label protocol |
Labeling was performed using NimbleGen Cy3-Cy5 Random 9mer System, following their standard operating protocol. See www.nimblegen.com.
|
| |
|
| Channel 2 |
| Source name |
Caenorhabditis elegans Bristol N2 prg-1 (pk2298); daf-2 (e1370) Early
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
strain: Bristol N2
genotype: Substitution early stop mutant prg-1, missense substitution mutant daf-2
phenotype: Normal
|
| Treatment protocol |
Unstarved worms on plates recently depleted of food were harvested using M9 buffer, rinsed with additional M9 and then used in the extraction protocol.
|
| Growth protocol |
All Caenorhabditis elegans samples were grown and propagated on NGM plates seeded with OP50 E. coli and maintained at 20ºC
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was harvested using TRIzol Reagent Protocol (Life Technologies).
|
| Label |
Cy3
|
| Label protocol |
Labeling was performed using NimbleGen Cy3-Cy5 Random 9mer System, following their standard operating protocol. See www.nimblegen.com.
|
| |
|
| |
| Hybridization protocol |
Hybridization was performed using NimbleGen hybridization, following their standard operating protocol. See www.nimblegen.com.
|
| Scan protocol |
Scanning was performed using NimbleGen hybridization, following their standard operating protocol. See www.nimblegen.com. Scan parameters were specifically calibrated to capture the repeatitive elements.
|
| Description |
Comparison of total RNA expression levels between early generation lines and their late generation progeny
|
| Data processing |
For each probe, the log2 [Cy5]/[Cy3] ratio is transformed to a z-score by subtracting the mean log2 ratio and dividing by the standard deviation of log2 ratios
|
| |
|
| Submission date |
Sep 04, 2012 |
| Last update date |
Jun 01, 2013 |
| Contact name |
Eric A. Miska |
| E-mail(s) |
e.miska@gurdon.cam.ac.uk
|
| Phone |
44-1223-767221
|
| Organization name |
University of Cambridge
|
| Department |
Wellcome Trust/Cancer Research UK Gurdon Institute, The Henry We
|
| Lab |
Miska
|
| Street address |
Tennis Court Rd
|
| City |
Cambridge |
| ZIP/Postal code |
CB2 1QN |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL8647 |
| Series (2) |
| GSE40569 |
Expression analysis of Caenorhabditis elegans Bristol N2 prg-1 and Bristol N2 prg-1; daf-2 double mutant |
| GSE40573 |
Reduced insulin/IGF-1-like signaling restores germ cell immortality in Caenorhabditis elegans Piwi mutants |
|
