|
| Status |
Public on Dec 01, 2014 |
| Title |
Celf1muscle_12h_A4331 |
| Sample type |
SRA |
| |
|
| Source name |
Celf1muscle_12h
|
| Organism |
Mus musculus |
| Characteristics |
strain background: FVB
age: 20-22 weeks
genotype/variation: MDAFrtTA/TRECUGBP1
genotype/variation: containing tet-inducible Celf1 cassette
fed with: 2 g/kg doxycycline
time point: 12 hours
tissue: gastrocnemius muscle
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Mice between 20 and 22 weeks old were fed 2 g/kg doxycycline to induce Celf1 expression in muscle All food was removed from cages 2-3 hours prior to addition of dox food. At the indicated time point, the mouse was sacrificed, and the gastrocnemius muscles were dissected. Samples were frozen in liquid nitrogen prior to RNA extraction. Total RNA from the ventricle tissue was prepared by lysis in guanidium isothiocyanate, followed by phenol/chloroform extraction, and prepared for RNA sequencing.
Poly(A)+ RNA was selected by oligo-dT magnetic beads, and prepared for paired end RNA sequencing using Illumina paired end sequencing primers.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Data processing |
Reads were aligned to the mm9 mouse genome and splice junctions using tophat/bowtie.
RPKM values were computed by counting the number of reads mapping to constitutive exons.
Genome_build: mm9
Supplementary_files_format_and_content: RPKM values in matrix format (Entrez IDs as gene identifiers).
|
| |
|
| Submission date |
Sep 30, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Eric T Wang |
| Organization name |
University of Florida
|
| Street address |
2033 Mowry Rd
|
| City |
Gainesville |
| State/province |
FL |
| ZIP/Postal code |
32610 |
| Country |
USA |
| |
|
| Platform ID |
GPL9250 |
| Series (2) |
| GSE61890 |
Functional Antagonism Between CELF and Mbnl Proteins in Cytoplasm and Nucleus [muscle] |
| GSE61893 |
Functional Antagonism Between CELF and Mbnl Proteins in Cytoplasm and Nucleus |
|
| Relations |
| Reanalyzed by |
GSE80797 |
| BioSample |
SAMN03084618 |
| SRA |
SRX717325 |
