|
| Status |
Public on Mar 08, 2016 |
| Title |
WTSoma1 |
| Sample type |
SRA |
| |
|
| Source name |
E18.5 mouse cortical neurons
|
| Organism |
Mus musculus |
| Characteristics |
compartment: soma
mbnl1/2: WT
|
| Growth protocol |
Double knockout mice were kept as constituitve MBNL1 knockouts and conditional (Nestin/Cre) MBNL2 knockouts
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Cells were fractionated into soma / neurite fractions through the use of porous transwell inserts 48 hrs after dissection.
Nugen Low Input Library Prep
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Alignment to mm9 with STAR
Gene expression estimates using Cuffdiff with UCSC mm9 annotation
Alternative splicing estimates with MISO
Genome_build: mm9, supplemented with alternative isoforms identified in Merkin et al (Science) 2012
|
| |
|
| Submission date |
Mar 07, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Matthew Taliaferro |
| Organization name |
University of Colorado Anschutz Medical Campus
|
| Department |
Biology
|
| Street address |
12801 E 17th Ave, RC1 South Room 10403D
|
| City |
Aurora |
| State/province |
CO |
| ZIP/Postal code |
80045 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE67828 |
Profiling of soma and neurite transcriptomes |
|
| Relations |
| BioSample |
SAMN04536597 |
| SRA |
SRX1617816 |
