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| Status |
Public on Aug 31, 2020 |
| Title |
Next Generation Sequencing Facilitates Quantitative Analysis of Runx2fl/fl and Gli1-CreERT2;Runx2fl/fl Mouse Molar Transcriptomes |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Purpose: To study the function of Runx2 on mouse tooth root development. The goals of this study are to compare NGS-derived molar transcriptome profiling (RNA-seq) bwtween Runx2fl/fl and Gli1-CreERT2;Runx2fl/fl mice to identify the potential downstream target of Runx2. Methods: molar mRNA profiles from PN7.5 Runx2fl/fl and Gli1-CreERT2;Runx2fl/fl mice (induction at PN3.5) were generated by deep sequencing, using Novaseq. Results: Using an optimized data analysis workflow, we mapped about 68 million sequence reads per sample to the mouse genome ( mm10) and identified 80,214 transcripts with Partek E/M workflow. 427 differentially regulated genes were identified (＞1.8-fold, p＜0.05), of which 219 were upregulated and 208 were downregulated.
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| Overall design |
Methods: molar mRNA profiles from PN7.5 Runx2fl/fl and Gli1-CreERT2;Runx2fl/fl mice (induction at PN3.5) were generated by deep sequencing, using 2x50 sequencing with Novaseq, each group had 4 samples.
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| Contributor(s) |
Wen Q, Chai Y |
| Citation missing |
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| |
| Submission date |
Jun 01, 2020 |
| Last update date |
Aug 31, 2020 |
| Contact name |
Quan Wen |
| E-mail(s) |
qw_354@usc.edu
|
| Organization name |
University of Southern California
|
| Street address |
2250 Alcazar St. CSA 123
|
| City |
Los Angeles |
| State/province |
Ca |
| ZIP/Postal code |
90033 |
| Country |
USA |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (8)
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| Relations |
| BioProject |
PRJNA636368 |
| SRA |
SRP265493 |
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