|
| Status |
Public on May 14, 2020 |
| Title |
muscle_WT_Untreated_P7_rep1 |
| Sample type |
RNA |
| |
|
| Source name |
tibialis anterior of WT at P7
|
| Organism |
Mus musculus |
| Characteristics |
tissue: tibialis anterior
age: P7
genotype: Wild-Type
treatment: none
strain: FVB/N
|
| Treatment protocol |
Smn-/-;SMN2 mice received a facial intravenous injection at postnatal day (P) 0 and P2 of Pip6a-scrambled or Pip6a-PMO (10 μg/g)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted by guanidinium thiocyantate-acid-phenol-chloroform extraction using TRIzol Reagent (Life Technologies) as per manufacturer’s instructions
|
| Label |
biotin
|
| Label protocol |
Biotin
|
| |
|
| Hybridization protocol |
Samples were hybridized using standard Affymetrix hybridization kit materials
|
| Scan protocol |
Arrays were scanned in an Affymetrix Scanner 3000
|
| Description |
GeneChip Mouse Transcriptome Assay 1.0 arrays were used (Affymetrix core facility, Karolinska Institute) with 100 ng of RNA per sample
|
| Data processing |
Annotations for the Mouse Transcript Array 1.0 at the transcript level were obtained from the Affymetrix website (http://www.affymetrix.com/products_services/arrays/specific/mo_trans_assay. affx#1_4). Background correction and RMA normalization at the probe level using oligo R package. We summarized the data in ensemble transcript IDs using the average normalized data. For differential expression analysis, we used limma R package and considered a transcript differentially expressed if their FDR <0.05. A gene was considered differentially expressed if at least one of the associated transcripts was differentially expressed.
normalized data file includes: RMA signal intensities summarized at the transcript level (Ensembl Transcript IDs)
|
| |
|
| Submission date |
May 13, 2020 |
| Last update date |
May 14, 2020 |
| Contact name |
Jimena Monzón-Sandoval |
| E-mail(s) |
[email protected]
|
| Organization name |
UK Dementia Research Institute at Cardiff University
|
| Street address |
Maindy Road
|
| City |
Cardiff |
| ZIP/Postal code |
CF24 4HQ |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL20258 |
| Series (2) |
| GSE150517 |
Expression profiles of skeletal muscle from Taiwanese Smn-/-;SMN2 spinal muscular atrophy mouse model treated with Pip6a-PMO |
| GSE150563 |
Combining multi-omics and drug perutbation profiles to identify novel treatments that improve disease phenotypes in spinal muscular atrophy |
|
