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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
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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.
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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.
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Contributor(s) |
Onodera CS, Underwood JG, Katzman S, Jacobs F, Greenberg D, Salama SR, Haussler D |
Citation(s) |
22937057 |
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Submission date |
Jun 28, 2012 |
Last update date |
May 15, 2019 |
Contact name |
Courtney Onodera |
E-mail(s) |
courtney.onodera@ucsf.edu
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Organization name |
University of California, San Francisco
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Street address |
1450 Third St, HD374
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City |
San Francisco |
State/province |
CA |
ZIP/Postal code |
94158 |
Country |
USA |
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Platforms (1) |
GPL9318 |
AB SOLiD System 3.0 (Mus musculus) |
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Samples (11)
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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 |
GSM953362 |
Barcode_B06_rna_46c_un_nuc_pa_p1_60 |
GSM953363 |
Barcode_B07_rna_46c_un_nuc_pa_r3_10 |
GSM953364 |
Barcode_B08_rna_46c_d5_cyt_pa_p1_10 |
GSM953365 |
Barcode_B09_rna_46c_d5_cyt_pa_p1_60 |
GSM953366 |
Barcode_B10_rna_46c_d5_cyt_pa_r3_10 |
GSM953367 |
Barcode_B11_rna_46c_d5_nuc_pa_p1_10 |
GSM953368 |
Barcode_B12_rna_46c_d5_nuc_pa_p1_60 |
GSM953369 |
Barcode_B13_rna_46c_d5_nuc_pa_r3_10 |
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Relations |
BioProject |
PRJNA169557 |
SRA |
SRP013997 |