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Series GSE72991 Query DataSets for GSE72991
Status Public on Sep 05, 2021
Title Heme-Oxygenase 1 is a Master Regulator of Cell Fate Following Oxidative Stress Response in Endothelial Cells
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Purpose: Excess oxidative stress (OS) impairs endothelial function and plays an important role in vascular diseases, diabetes, and neuronal disorders. Several consequences of OS including cell recovery and apoptosis have been described previously. In this study, we report systems model of the temporal dynamics of the oxidative stress response in Human Umbilical Vein Endothelial Cells (HUVECs) and characterize HMOX1 as a master regulator in orchestrating the response to oxidative stress.
Methods: Following stress induction by hydrogen peroxide (HP), we carried out dose-dependent phenotypic assays and time series measurements of transcripts in HUVECs. To explore the role of HMOX1, HUVECs were transfected with scrambled siRNA or si-HMOX1 and then treated with hydrogen peroxide. Total RNA was collected from Scrambled-untreated, scrambled-H2O2, and si-HMOX1-H2O2 samples for RNAseq. Novel findings were validated by qPCR and functional assays.
Results: In this study we have identified three phases of stress response (acute response from 1-2 hours, the transition from 4-6 hours, and the chronic stress response from 8-16 hours). We observe stable cell cycle arrest and impaired DNA replication/repair from 8-16 hours along with and increased resistance to apoptosis from 2-16 hours. Knockdown of HMOX1 prior to HP treatment releases the resistance to apoptosis. Similarly, many cellular processes switch their direction of regulation in HMOX1 deficient cells upon HP treatment (i.e. autophagy, mitochondria, cell surface signaling, expression of histone modifying enzymes and long-noncoding RNAs etc).
Conclusions: Endothelial cell fate decisions are critically important for vascular health. In this study we provide a temporal model characterizing the transition from the acute stress response to the chronic response. The nexus of cell function and dysfunction is characterized by the concurrent activation of survival and death pathways. We explore the master regulatory role of HMOX1 and identify novel mechanisms by which HMOX1 may regulate cell fate decisions.
 
Overall design After treatment with HP, samples were collected at 0 (control), 1, 2, 4, 6, 8, 10, 12, 14, and 16 hour time points in duplicate. Two biological replicates are included per time point.

After transfection with either scrambled or si-HMOX1 siRNA for 48 hours, cells were treated with HP for 6 hours before they were collected for RNAseq. Two biological replicates are included per treatment group.


 
Contributor(s) Raghunandan S, Ramachandran S, Ke E, Miao Y, Lal R, Chen Z, Subramaniam S
Citation(s) 34595164
Submission date Sep 14, 2015
Last update date Oct 06, 2021
Contact name Shankar Subramaniam
Organization name University of California, San Diego
Department Bioengineering
Lab Bioinformatics and Systems Biology
Street address 9500 Gilman Drive
City La Jolla
State/province California
ZIP/Postal code 92093-0427
Country USA
 
Platforms (2)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (26)
GSM1876301 Control_1
GSM1876302 Control_2
GSM1876303 1h_1
Relations
BioProject PRJNA295525
SRA SRP063663

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE72991_OS_HMOX1_Knockdown_RawGeneCounts.csv.gz 604.1 Kb (ftp)(http) CSV
GSE72991_OS_TimeCourse_RawGeneCounts.csv.gz 1.1 Mb (ftp)(http) CSV
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Raw data are available in SRA
Processed data are available on Series record

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