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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Jun 13, 2014 |
| Title |
MSI1, No Dox (E12.5) |
| Sample type |
SRA |
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| Source name |
NSCs
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| Organism |
Mus musculus |
| Characteristics |
developmental stage: E12.5
time point: 72 hours
treatment: No Dox
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| Extracted molecule |
total RNA |
| Extraction protocol |
Poly(A)+ RNA was selected by oligo-dT magnetic beads, and prepared for paired end RNA sequencing using Illumina paired end sequencing primers.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
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| Description |
RNA-Seq, paired end
E12.5_MSI1_NoDox
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| 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.
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| 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
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| Street address |
9 Cambridge Center
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| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02142 |
| Country |
USA |
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| Platform ID |
GPL13112 |
| Series (1) |
| GSE58423 |
Musashi proteins are post-transcriptional regulators of the epithelial-luminal cell state |
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| Relations |
| BioSample |
SAMN02851511 |
| SRA |
SRX591758 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM1410660_MSI1_NoDox.combined.rpkm.txt.gz |
273.4 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Processed data provided as supplementary file |
| Raw data are available in SRA |
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