|
| Status |
Public on Feb 04, 2021 |
| Title |
CR134aff8 scramble (control) |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Reference pool
|
| Organism |
Mus musculus |
| Characteristics |
tissue: ipsilateral hippocampus
gender: male
life stage: Adult
strain: C57/Bl6J
treatment: scramble for 24h
|
| Treatment protocol |
Mice were treated with Antagomir-134 or Scramble (control) (intraperitoneal; 30mg/kg) for 24h after intra-amygdala kainic acid-induced status epilepticus
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Trizol using per sample 800ul of Trizol, 200ul of chloroform, 450ul of isopropanol to precipitate the RNA, 75% of Ethanol for the whashes and RNase-free water to resuspend the RNA.
|
| Label |
cy3
|
| Label protocol |
Microarray experiments were performed 8 times, of each samplegroup two samples were labeled with cy5 and co-hybridized with referencepool RNA labeled with cy3, and two samples were labeled and hybridized in the opposite way. Microarrays used were Mouse Whole Genome GE 4x44K v1 (Agilent Technologies, Belgium) representing 41174 M. musculus 60-mer probes in a 4x44K layout.
|
| |
|
| Channel 2 |
| Source name |
Brain
|
| Organism |
Mus musculus |
| Characteristics |
tissue: ipsilateral hippocampus
gender: male
life stage: Adult
strain: C57/Bl6J
|
| Treatment protocol |
Mice were treated with Antagomir-134 or Scramble (control) (intraperitoneal; 30mg/kg) for 24h after intra-amygdala kainic acid-induced status epilepticus
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Trizol using per sample 800ul of Trizol, 200ul of chloroform, 450ul of isopropanol to precipitate the RNA, 75% of Ethanol for the whashes and RNase-free water to resuspend the RNA.
|
| Label |
cy5
|
| Label protocol |
Microarray experiments were performed 8 times, of each samplegroup two samples were labeled with cy5 and co-hybridized with referencepool RNA labeled with cy3, and two samples were labeled and hybridized in the opposite way. Microarrays used were Mouse Whole Genome GE 4x44K v1 (Agilent Technologies, Belgium) representing 41174 M. musculus 60-mer probes in a 4x44K layout.
|
| |
|
| |
| Hybridization protocol |
RNA amplifications and labeling were performed on an automated system (Caliper Life Sciences NV/SA, Belgium) with 3 ug total RNA from each sample.
|
| Scan protocol |
Hybridized slides were scanned on an Agilent scanner (G2565BA) at 100% laser power, 30% PMT. After automated data extraction using Imagene 8.0 (BioDiscovery), Loess normalization was performed (Yang et al., 2002) on mean spot-intensities. Gene-specific dye bias was corrected based on a within-set estimate as described in Margaritis et al 2009.
|
| Description |
Biological replicate 4 of 4. Mouse treated with Scramble for 24h after intra-amygdala kainic acid-induced status epilepticus
|
| Data processing |
Data was normalized on mean spot-intensity (by Loess) and gene-specifi dye bias was corrected based on a within-set estimate.
|
| |
|
| Submission date |
Feb 03, 2021 |
| Last update date |
Feb 04, 2021 |
| Contact name |
Cristina Reschke |
| E-mail(s) |
cristinarreschke@rcsi.ie
|
| Phone |
+353871607758
|
| Organization name |
Royal College of Surgeons in Ireland
|
| Street address |
123 St Stephens Green, Dublin 2
|
| City |
Dublin |
| ZIP/Postal code |
Dublin 2 |
| Country |
Ireland |
| |
|
| Platform ID |
GPL29690 |
| Series (1) |
| GSE166097 |
Murine hippocampus: Scramble (control) vs Antagomir-134 |
|
