|
| Status |
Public on Dec 10, 2012 |
| Title |
UC San Diego Friedmann Kang Neuronal Differentiation DSD3 SNM |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
The gene expression pattern of spherical neural masses (SNM) derived from HPRT knockdown murine D3 stem cells during neuronal differentiation to final neurons was invesitigated by RNA-Seq based gene expression analysis and the results were interpreted by GO, GSEA and signaling pathway analyses with Avadis NGS and PANTHER Classification System.
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| |
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| Overall design |
For RNA-Seq experiment, total RNAs of HPRT knockdown and control SNMs were extracted time-sequentially during the SNM differentiation such as differentiation-day 0, 1, 2, 3, 4, 6, 8, 10, 12, and 14 to final neurons, and each prepared library applied to the HiSeq 2000 sequencer of Illumina for 50 cycles of single lane run.
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| |
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| Contributor(s) |
Kang TH, Friedmann T |
| Citation(s) |
24130677 |
| |
| Submission date |
Nov 30, 2012 |
| Last update date |
Sep 11, 2019 |
| Contact name |
Tae Hyuk Kang |
| E-mail(s) |
t2kang@ucsd.edu
|
| Phone |
853-534-1419
|
| Fax |
858-534-1422
|
| Organization name |
University of California, San Diego
|
| Department |
Pediatrics
|
| Lab |
Dr. Friedmann's laboratory
|
| Street address |
9500 Gilman Drive # 0634
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
|
| Samples (20)
|
|
| Relations |
| BioProject |
PRJNA182732 |
| SRA |
SRP017396 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE42662_Control_0_and_1_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_Control_10_and_12_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_Control_12_and_14_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_Control_1_and_2_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_Control_2_and_3_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_Control_3_and_4_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_Control_4_and_6_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_Control_6_and_8_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_Control_8_and_10_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_HPRT_KD_0_and_1_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_HPRT_KD_10_and_12_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_HPRT_KD_12_and_14_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_HPRT_KD_1_and_2_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_HPRT_KD_2_and_3_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_HPRT_KD_3_and_4_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_HPRT_KD_4_and_6_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_HPRT_KD_6_and_8_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_HPRT_KD_8_and_10_day.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_Readme.txt |
728 b |
(ftp)(http) |
TXT |
| GSE42662_SNM_0_day_Control_and_HPRT_knockdown.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_SNM_10_day_Control_and_HPRT_knockdown.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_SNM_12_day_Control_and_HPRT_knockdown.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_SNM_14_day_Control_and_HPRT_knockdown.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_SNM_1_day_Control_and_HPRT_knockdown.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_SNM_2_day_Control_and_HPRT_knockdown.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_SNM_3_day_Control_and_HPRT_knockdown.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_SNM_4_day_Control_and_HPRT_knockdown.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_SNM_6_day_Control_and_HPRT_knockdown.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
| GSE42662_SNM_8_day_Control_and_HPRT_knockdown.txt.gz |
1.4 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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