|
| Status |
Public on Aug 13, 2012 |
| Title |
Hpl1 Hpl2 KO 2 |
| Sample type |
RNA |
| |
|
| Source name |
Hpl1 Hpl2 KnockOut Mutant Replicate 2
|
| Organism |
Caenorhabditis elegans |
| Characteristics |
strain: N2
genotype: hpl-1(tm1624),hpl-2(tm1489)
tissue: whole organism
|
| Growth protocol |
For the microarray studies 80 to 100 L4 and young adult worms raised at 21°C were used.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the standard Trizol method following the manufacturer’s protocol.
|
| Label |
Cy3
|
| Label protocol |
600 ng of total RNA were reverse-transcribed and amplified, thereby incorporating Cyanine 3-CTP nucleotides, using the Low RNA Input Fluorescent Linear Amplification Kit according to the manufacturer's recommendations (Agilent One-Color Microarray-Based Gene Expression Analysis, protocol version 5.5, February 2007; Agilent Technologies).
|
| |
|
| Hybridization protocol |
After a two-hour reaction, 1.5 μg of purified, Cy3-labeled cRNA were hybridized to an oligonucleotide C. elegans Microarray (015061, 4x44K, Agilent Technologies) for 17 hours at 65˚C, then washed according to manufacturer's protocol.
|
| Scan protocol |
Slides were scanned using an Agilent G2505B scanner, and data were extracted using the Feature Extraction software version 9.5 (Agilent Technologies).
|
| Description |
Hpl1 Hpl2 KnockOut Mutant Replicate 2
|
| Data processing |
Median signal intensities from the Feature Extraction Software were converted to log2 and quantile normalized using the R package “limma”.
|
| |
|
| Submission date |
Oct 31, 2011 |
| Last update date |
Aug 13, 2012 |
| Contact name |
Gabriela Salinas |
| E-mail(s) |
Gabriela.Salinas-Riester@medizin.uni-goettingen.de
|
| Organization name |
Universitaetsmedizin Goettingen
|
| Department |
Department of Pathology
|
| Lab |
NGS Integrative Genomics
|
| Street address |
Kreuzbergring 57
|
| City |
Goettingen |
| State/province |
Lower-Saxony |
| ZIP/Postal code |
37075 |
| Country |
Germany |
| |
|
| Platform ID |
GPL7727 |
| Series (1) |
| GSE33339 |
Transcriptional repression of Hox genes by binding of HP1 and methylated H1 to H3K27me3 in C. elegans |
|
