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| Status |
Public on May 14, 2019 |
| Title |
RNA-sequencing of adipocyte and stromal vascular cells (SVCs) of epididymal and inguinal adipose tissue from high-fat diet (HFD)-fed mice |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
We report the transcriptomes of adipocytes and SVCs derived from HFD-fed obese mouse epididymal adipose tissue (EAT) or inguinal adipose tissues (IAT). By the comparisons of transcriptome of adipocyte and SVC from EAT and IAT, we find that the gene clusters of gamma-aminobutyric acid (GABA) signaling among the three-hundred fourteen pathways annotated in the Kyoto Encyclopedia of Genes and Genomes (KEGG) database was differentially regulated in SVCs from IAT compared to SVCs from EAT. Q-RT-PCR analyses confirmed the reliability and high degree of sensitivity of gene the RNA-sequencing results. Further, when the SVC from IAT with the SVC from EAT were compared, six pathways were included in the Pareto optimal set, excluding pathways below 1.0 and –log10(0.05) for the x and y-axis, respectively. Selected pathways and their differentially expressed genes were visualized as a bipartite graph using Cytoscape software to reveal that differentially regulated GABA signaling pathways could be associated with immune cell adhesions.
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| |
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| Overall design |
Examination of 12 samples derived from EAT and IAT
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| |
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| Contributor(s) |
Hwang I, Jo K, Kim S, Kim JB |
| Citation missing |
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| |
| Submission date |
Apr 11, 2019 |
| Last update date |
May 16, 2019 |
| Contact name |
Jae Bum Kim |
| E-mail(s) |
jaebkim@snu.ac.kr
|
| Phone |
+82-2-880-4409
|
| Organization name |
Seoul National University
|
| Department |
School of Biological Sciences
|
| Lab |
Lab. of Adipocyte and Metabolism Research
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| Street address |
Bldg 105-Rm. 333, Seoul National University, San 56-1, Sillim Dong, Kwanak-Gu
|
| City |
Seoul |
| ZIP/Postal code |
156-742 |
| Country |
South Korea |
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| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
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| Samples (12)
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| Relations |
| BioProject |
PRJNA532414 |
| SRA |
SRP192077 |
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