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Series GSE140110 Query DataSets for GSE140110
Status Public on Nov 08, 2019
Title Effect of SHP2 inhibition on hepatic stellate cell transcriptome.
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Hepatic stellate cell autophagy inhibits extracellular vesicle release to attenuate liver fibrosis.
Primary human hepatic stellate cells were treated with PDGF or PDGF + SHP2 inhibitor. RNA was purified and submitted for sequencing to Mayo Clinic Genomics Core. After applying the filters FDR>0.05, Log2(FC)>1 and RPKM>15, we ended up with nearly 300 genes differentially regulated between the two conditions. Ingenuity Pathway Analysis revealed that Ostheoarthritis was the first pathway to be differentially regulated. From this pathway, REDD1 (DDIT4 transcript), an mTOR inhibitor, was further explored, especially in the context of extracellular vesicle release.
Overall design Primary human hepatic stellate cells were treated with PDGF or PDGF + SHP099 for 48 hours.
Contributor(s) Kostallari E
Citation(s) 29360139
Submission date Nov 07, 2019
Last update date Nov 12, 2019
Contact name Aditya Bhagwate
Organization name Mayo Clinic
Street address 200 1st Street SW
City Rochester
State/province MN
ZIP/Postal code 55905
Country USA
Platforms (1)
GPL21290 Illumina HiSeq 3000 (Homo sapiens)
Samples (6)
GSM4154556 43_HSC_PDGFbb_1
GSM4154557 44_HSC_PDGFbb_2
GSM4154558 45_HSC_PDGFbb_3
BioProject PRJNA588282
SRA SRP229114

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Supplementary file Size Download File type/resource
GSE140110_HSC_PDGFbb_vs_HSC_PDGFbb_plus_SHP099.diffexp.rpkm.tsv.gz 4.2 Mb (ftp)(http) TSV
GSE140110_HSC_PDGFbb_vs_HSC_PDGFbb_plus_SHP099.raw.tsv.gz 1.5 Mb (ftp)(http) TSV
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Raw data are available in SRA
Processed data are available on Series record

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