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Series GSE67901 Query DataSets for GSE67901
Status Public on Aug 15, 2015
Title Expression dynamics in mammalian cells responding to protein misfolding stress
Organism Homo sapiens
Experiment type Expression profiling by array
Summary We have employed whole genome microarray expression profiling to track the transcriptome expression change under DTT induced protein misfolding stress.
The relative importance of gene expression regulation at the mRNA versus the protein-level is a matter of ongoing debate. We present an in-depth analysis of a cervical cancer cell line responding to protein misfolding stress induced by dithiothreitol treatment, quantifying the dynamics of mRNA and protein concentrations for >3,500 genes over a time-course 30 hours. While the early phase of the experiment (<two hours) was marked by apoptosis, surviving cells were marked by a strong response to unfolded proteins and stress of the endoplasmatic reticulum, specifically during the intermediate phase (two to eight hours). Using statistical time series analysis, we detected significant changes in the regulatory parameters at the RNA-level, caused by transcription and mRNA degradation, and at the protein-level, caused by translation and protein degradation. mRNA- and protein-level regulation were of equal importance (XX and YYY%, respectively), but displayed different magnitudes and dynamics: mRNA fold changes were much smaller on average than those of the proteins. While our method did not capture immediate changes, we found the strongest regulatory response between two and eight hours after the treatment. mRNA-level regulation showed a spike around this time interval, while protein-level regulation was delayed and continued at slower pace until the end of the experiment.
Overall design RNA expression in HeLa cell line was measured at 0, 0.5, 1, 2, 8, 16, 24, 30 hrs after exposure to 2.5mM DTT. Two biological replicates were conducted.
Contributor(s) Cheng Z, Krueger S, Rock T, Vogel C
Citation(s) 26792871
Submission date Apr 15, 2015
Last update date Nov 27, 2018
Contact name Zhe Cheng
Phone 2129983658
Organization name New York University
Department Bilogy Department
Lab Christine Vogel lab
Street address 12 Waverly Place, 4th Floor
City New York
State/province New York
ZIP/Postal code 10003
Country USA
Platforms (1)
GPL13607 Agilent-028004 SurePrint G3 Human GE 8x60K Microarray (Feature Number version)
Samples (16)
GSM1657704 R1t1
GSM1657705 R2t0.5
GSM1657706 R2t16
BioProject PRJNA281173

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Supplementary file Size Download File type/resource
GSE67901_RAW.tar 54.6 Mb (http)(custom) TAR (of TXT)
GSE67901_normalized_ENSG_IDs.txt.gz 1.2 Mb (ftp)(http) TXT
GSE67901_normalized_ENSG_IDs_log_filtered_LOWESSsmoothed.txt.gz 2.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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