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Series GSE38990 Query DataSets for GSE38990
Status Public on Aug 01, 2012
Title The polyA+ transcriptomes of mouse embryonic stem cells and their derived neural precursors from strand-specific RNA-Seq
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We have examined the nuclear (nuc) and cytoplasmic (cyt) polyA+ transcriptomes of undifferentiated mouse embryonic stem cells (un) and cells differentiated to neural precursors (d5) using strand-specific RNA-Seq. The 46C mouse embryonic stem cell line was used for this study.
 
Overall design Two cell types were examined: undifferentiated mouse embryonic stem cells (un) and cells differentiated to neural precursors (d5). For each cell type, cells were fractionated to nuclear and cytoplasmic components. RNAs were extracted from each component and were fragmented enzymatically for library construction. For each cell type and component, strand-specific RNA-Seq libraries were generated using at least two different fragmentation protocols.
 
Contributor(s) Onodera CS, Underwood JG, Katzman S, Jacobs F, Greenberg D, Salama SR, Haussler D
Citation(s) 22937057
Submission date Jun 28, 2012
Last update date May 15, 2019
Contact name Courtney Onodera
E-mail(s) courtney.onodera@ucsf.edu
Organization name University of California, San Francisco
Street address 1450 Third St, HD374
City San Francisco
State/province CA
ZIP/Postal code 94158
Country USA
 
Platforms (1)
GPL9318 AB SOLiD System 3.0 (Mus musculus)
Samples (11)
GSM953359 Barcode_B01_rna_46c_un_cyt_pa_p1_10
GSM953360 Barcode_B03_rna_46c_un_cyt_pa_p1_60
GSM953361 Barcode_B04_rna_46c_un_cyt_pa_r3_10
Relations
BioProject PRJNA169557
SRA SRP013997

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE38990_RAW.tar 1.7 Gb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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