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| Status |
Public on Sep 12, 2018 |
| Title |
Single cell RNA Sequencing Analysis of Gene Expression Profile in Dgcr8 Conditional KO Embryonic Hearts |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Purpose: To compare the single cell transcriptome of wild type and Mesp1Cre+/Dgcr8-/- embryonic heart at embryonic stage E9.5
Methods: For single cell sample preparation, Ventricular part of E9.5 heart tubes were dissected and digested into single cells by 0.04% Trypsin combined with 0.05% Collagenase IV, and then transferred into DMEM containing 10% fetal bovine serum for termination. After washed in PBS without Ca2+, the single cells were manually transferred into cell lysis buffer with a mouth pipette. Total RNA was reverse transcribed and amplified using Smart-seq2 protocol (Picelli et al., 2014), followed by Tn5 tagmentation and PCR enrichment to generate libraries using TruePrep DNA Library Prep Kit V2 for illumina (Vazyme, TD501-503) according to the manufacturer’s suggested protocol. Clean reads were mapped to mouse genome (mm10) using Salmon.
Results: Genes significantly differentially expressed in the E9.5 Dgcr8 cKO single cardiomyocyte compared with wild type group were identified.
Conclusions: Dgcr8 cKO caused important gene expression changes in E9.5 cardiomyocytes at single cell level
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| Overall design |
Perform single cell RNA-seq of wild type and Mesp1Cre+/Dgcr8-/- embryonic heart at embryonic stage E9.5
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| Contributor(s) |
Doe J |
| Citation(s) |
30128894 |
| |
| Submission date |
Feb 07, 2018 |
| Last update date |
Mar 19, 2019 |
| Contact name |
Jie Na |
| E-mail(s) |
[email protected]
|
| Phone |
+86-18618192150
|
| Organization name |
Tsinghua University
|
| Department |
Basic Medical Sciences, School of Medicine
|
| Lab |
D115 School of Medicine
|
| Street address |
Tsinghua University
|
| City |
Beijing |
| State/province |
Beijing |
| ZIP/Postal code |
100084 |
| Country |
China |
| |
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| Platforms (1) |
| GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
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| Samples (170)
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| This SubSeries is part of SuperSeries: |
| GSE96648 |
Transcriptome analysis of mouse primitive heart with Dgcr8 deletion |
|
| Relations |
| BioProject |
PRJNA433327 |
| SRA |
SRP132358 |
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