|
| Status |
Public on Jun 13, 2014 |
| Title |
Ribo-Seq MSI1, DOX (E12.5) |
| Sample type |
SRA |
| |
|
| Source name |
NSCs
|
| Organism |
Mus musculus |
| Characteristics |
developmental stage: E12.5
time point: 72 hours
treatment: DOX 1ug/ml
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Ribosome profiling library
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
monosome protected RNA
Ribo-Seq, single end
ribo_KH2MSI1_DOX
ribo_oe1_ensGene.cds_only.rpkm.txt
|
| Data processing |
Alignment to mouse genome (mm9) using Bowtie/Tophat followed by calculation of RPKM using constitutive exons of protein-coding (CDS-containing) genes.
Genome_build: mm9
Supplementary_files_format_and_content: RPKM values for samples. Contains the gene ID (Ensembl), the read counts in the set of constitutive exons, the length of the region being considered (sum of lengths of constitutive exons), and the RPKM value.
|
| |
|
| Submission date |
Jun 12, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Yarden Katz |
| Organization name |
MIT
|
| Department |
Dept. of Biology and Whitehead Institute
|
| Lab |
Jaenisch/Burge lab
|
| Street address |
9 Cambridge Center
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02142 |
| Country |
USA |
| |
|
| Platform ID |
GPL13112 |
| Series (1) |
| GSE58423 |
Musashi proteins are post-transcriptional regulators of the epithelial-luminal cell state |
|
| Relations |
| BioSample |
SAMN02851525 |
| SRA |
SRX591769 |
