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Series GSE135280 Query DataSets for GSE135280
Status Public on Mar 20, 2020
Title Whole transcriptomes analyses of HEK293FT cell line treated with ISLR secreted supernatant or empty vector control supernatant
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Purpose: To explore the molecular mechanisms of ISLR protein, RNA sequencing was performed to analyze the geome-wide change of ISLR secreted supernatant treated HEK293FT cells compared to those of control supernatant treated cells.
Methods: Total mRNA was extracted from HEK293FT cells in triplicate respectively. Then RNA quality was assessed using an Agilent Bioanalyzer 2100 and the sample reads were sequenced using Illumina Hiseq 4000 platform. As a reasult, we got the transcript data using Hisat2 followed by Stringtie. qRT–PCR validation was performed using TaqMan and SYBR Green assays.
Results: We mapped about 60 million sequence reads per sample to the human genome and identified about 58,000 transcripts in HEK293FT cells. Many transcripts showed different expression between ISLR secreted supernatant and control treated HEK293FT cells, with a fold change ≥2 and p value <0.05. Gene set enrichment analysis (GSEA) showed a significantly positive enrichment of Hippo target genes.
Conclusion: Our study present the datiled transcripts analysis of HEK293FT cells, with biologic replicates. Based on RNA-seq transcriptome characterization , we conclude a molecular mechanism of ISLR regulating multiple pathways related to tissue repair.
Overall design Total mRNA was extracted from HEK293FT cells treated with ISLR secreted supernatant or empty vector control supernatant in triplicate. The quality was assessed using Agilent 2100, and the profiles were sequenced on the Illumina NovaSeq 6000.
Contributor(s) Tang Y, Xu J, Yu Z
Citation(s) 32128839
Submission date Aug 02, 2019
Last update date Jun 19, 2020
Contact name yang tang
Organization name Shanghai Institute of Biochemistry and Cell Biology
Street address Yueyang Road 320
City shanghai
ZIP/Postal code 200031
Country China
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (6)
GSM4002651 NC_1
GSM4002652 NC_2
GSM4002653 NC_3
BioProject PRJNA558232
SRA SRP217111

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Supplementary file Size Download File type/resource
GSE135280_ISLR_transcript.tpm.xls.gz 3.5 Mb (ftp)(http) XLS
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