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| Status |
Public on May 22, 2018 |
| Title |
Next Generation Sequencing Facilitates Quantitative Analysis of the control 3T3-L1 (3T3-L1-NC) and LIGHT (tnfsf14) overexpression 3T3-L1 cells (3T3-L1-LIGHT) before and after differentiation into beige adipocytes |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose: The goals of this study are to compare NGS-derived 3T3-L1-NC transcriptome profiling (RNA-seq) to LIGHT overexpression 3T3-L1 cells and find out the DEGs
Methods: mRNA profiles of 3T3-L1-NC and 3T3-L1-LIGHT before and after differentiation into beige adipocytes were generated by deep sequencing, in triplicate, using Illumina HiSeq. The sequence reads that passed quality filters were analyzed at the transcript isoform level.
Results: Using an optimized data analysis workflow, we mapped about 6.53 Gb data per sample. The average genome mapping rate is 87.27% and the average gene mapping rate is 80.18%. 18,255 genes were identified in which 17,367 of them are known genes and 1,001 of them are novel genes. 13,086 novel transcipts were identified in which 9,304 of them are previously unknown splicing event for known genes, 1,001 of them are novel coding transcripts without any known features, and the remaining 2,781 are long noncoding RNA.
Conclusions: Our study represents the first detailed analysis of the impact of LIGHT on gene expression in process of beige adipocytes biogenesis with biologic replicates, generated by RNA-seq technology.
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| Overall design |
mRNA profiles of 3T3-L1-NC and 3T3-L1-LIGHT before and after differentiation into beige adipocytes were generated by deep sequencing, in triplicate, using Illumina HiSeq.
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| Contributor(s) |
Kou Y, Wang Y |
| Citation(s) |
30148680 |
| Submission date |
May 21, 2018 |
| Last update date |
Sep 02, 2020 |
| Contact name |
Yanbo Kou |
| E-mail(s) |
fightingkyb@163.com
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| Organization name |
Xuzhou Medical University
|
| Lab |
Jiangsu Key Laboratory of Immunity and Metabolism
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| Street address |
Tongshan Road No. 209
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| City |
Xuzhou |
| ZIP/Postal code |
221004 |
| Country |
China |
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| Platforms (1) |
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| Samples (12)
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| Relations |
| BioProject |
PRJNA472244 |
| SRA |
SRP148550 |
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