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Series GSE103000 Query DataSets for GSE103000
Status Public on Mar 13, 2018
Title Impact of B16F0 exosomes on the transcriptome of CTLL2 cytotoxic T cells
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary While recent clinical studies demonstrate the promise of cancer immunotherapy, a barrier for broadening the clinical benefit is identifying how tumors locally suppress cytotoxic immunity. As an emerging mode of intercellular communication, exosomes secreted by malignant cells can deliver a complex payload of coding and non-coding RNA to cells within the tumor microenvironment. Here, we quantified the RNA payload within tumor-derived exosomes and the resulting dynamic transcriptomic response to cytotoxic T cells upon exosome delivery to better understand how tumor-derived exosomes can alter immune cell function. Exosomes derived from B16F0 melanoma cells were enriched for a subset of coding and non-coding RNAs that did not reflect the abundance in the parental cell. Upon exosome delivery, RNAseq revealed the dynamic changes in the transcriptome of CTLL2 cytotoxic T cells. In analyzing transiently co-expressed gene clusters, pathway enrichment suggested that the B16F0 exosomal payload altered mitochondrial respiration, which was confirmed independently, and upregulated genes associated with the Notch signaling pathway. Interestingly, exosomal miRNA appeared to have no systematic effect on downregulating target mRNA levels.
Overall design CTLL2 cells were grown in complete media for 24 hrs, and then stimulated with fresh B16F0 exosomes resuspended in PBS, to a final exosome concentration of 0.2 mg/ml. The transcriptome of untreated CTLL2 cells was assayed at 0, 0.5, 2, 4, and 8 hours after cells were placed in fresh media. There are 4 biological replicates at the 0 hour time point and 3 biological replicates at the 0.5, 2, 4, and 8 hour time points. The transcriptome of CTLL2 cells treated with B16F0 exosomes was assayed at 0.5, 2, 4, and 8 hours after addition of fresh media containing B16F0 exosomes. There were 3 biological replicates performed at each time point.
Contributor(s) Klinke DJ
Citation(s) 29399967
NIH grant(s)
Grant ID Grant title Affiliation Name
R01 CA193473 Integrative systems approach to identify local oncogenic modulation of the IL12 axis WEST VIRGINIA UNIVERSITY RESEARCH CORPORATION David John Klinke
Submission date Aug 23, 2017
Last update date May 15, 2019
Contact name David John Klinke
Phone 304-293-9346
Organization name West Virginia University
Department Chemical Engineering
Street address P.O. Box 6102
City Morgantown
State/province WV
ZIP/Postal code 26506-6102
Country USA
Platforms (1)
GPL18480 Illumina HiSeq 1500 (Mus musculus)
Samples (28)
GSM2752322 untreated CTLL2 cells 0 hr rep 1
GSM2752323 untreated CTLL2 cells 0 hr rep 2
GSM2752324 untreated CTLL2 cells 0 hr rep 3
This SubSeries is part of SuperSeries:
GSE102951 Expression data from parental B16F0 cells and B16F0 exosomes
BioProject PRJNA399762
SRA SRP116047

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
GSE103000_RNAseq_All_normalized_counts.csv.gz 2.8 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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