|
| Status |
Public on Aug 06, 2013 |
| Title |
nhr-8(hd117)_L3_25degC_NoAddedCholesterol_rep1 |
| Sample type |
RNA |
| |
|
| Source name |
nhr-8(hd117)_L3_25degC_NoAddedCholesterol
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
genotype/variation: nhr-8(hd117) mutant
developmental stage: mid-L3 larval
temperature: 25 deg C
growth media: NGM with no added cholesterol
|
| Treatment protocol |
Growth of animals was at 25 degrees C on NGM plates with no added cholesterol. An overnight LB culture of E. coli OP50, washed 3 times with M9 buffer, was used to seed the plates. The bacterial lawn was allowed to grown overnight before use.
|
| Growth protocol |
Seven independent synchronized populations of N2 and nhr-8(hd117) animals were grown from eggs on low cholesterol plates at 25 degrees C until mid-L3 larval stage and collected for microarray RNA expression analysis.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was prepared using a QIAGEN RNeasy purification kit.
|
| Label |
Cy3
|
| Label protocol |
Cyanine-3 (Cy3) labeled cRNA was prepared from RNA without amplification
|
| |
|
| Hybridization protocol |
Hybridization and processing was according to the Agilent microarray protocol.
|
| Scan protocol |
Scanning was performed with an Agilent microarray scanner.
|
| Description |
Gene expression at mid-L3 larval stage of C. elegans nhr-8(hd117) mutant animals grown at 25 deg C on NGM media (no cholesterol added) and seeded with E. coli strain OP50
|
| Data processing |
Expression data was read in the statistical programming environment R and processed for background correction and quantile normalization and summarized for genes that differed in expression between N2 vs nhr-8(hd117) using the Bioconductor Limma package.
|
| |
|
| Submission date |
Jul 10, 2013 |
| Last update date |
Aug 06, 2013 |
| Contact name |
Daniel Magner |
| Organization name |
Max Planck Institute for Biology of Aging
|
| Lab |
Adam Antebi
|
| Street address |
Joseph-Stelzmann-Str. 9b
|
| City |
Cologne |
| ZIP/Postal code |
D-50931 |
| Country |
Germany |
| |
|
| Platform ID |
GPL7727 |
| Series (1) |
| GSE48675 |
Comparison of gene expression profiles between N2 wild-type C. elegans and an nhr-8(hd117) mutant |
|
