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Series GSE88830 Query DataSets for GSE88830
Status Public on Dec 31, 2017
Title CD8 T cell phenotype following antigen education by lymphatic endothelial cells versus mature dendritic cells
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary The goal of this study is to analyze differences in gene expression of CD8 T cells that are antigen-educated by lymphatic stromal cells versus traditional antigen-presenting cells. Naive antigen-specific CD8 T cells reactive against the model antigen ovalbumin (OVA) were isolated from spleens of OT-I transgenic mice. They were then co-cultured with OVA-pulsed mature dendritic cells (mDCs) versus lymphatic endothelial cells (LECs) for up to 3d. Each day, OT-I cells were isolated and prepared for RNAseq analysis to determine differences in gene expression as a function of antigen-presenting cell. Naive, LEC-educated, or DC-educated OT-I transcriptomes are provided here.

Grant ID - AdG-323053
Agency - European Research Council (ERC)
Grant Title - LYMPHIMMUNE - Flow in the tumor microenvironment: Linking mechanobiology with immunology

Grant ID - R01CA219304
Agency - US National Institutes of Health (NIH)
Grant Title - Paradoxical roles of tumor lymphangiogenesis on tumor immunity and implications for immunotherapy
Overall design lymphatic endothelial cells versus mature dendritic cells
Contributor(s) Vokali E, Yu SS, Swartz MA
Citation(s) 31988323
NIH grant(s)
Grant ID Grant title Affiliation Name
R01 CA219304 Paradoxical roles of tumor lymphangiogenesis on tumor immunity and implications for immunotherapy - Resubmission 01 UNIVERSITY OF CHICAGO Melody Ann Swartz
BioProject PRJNA347820
Submission date Oct 17, 2016
Last update date Jan 29, 2020
Contact name Shann S Yu
Organization name University of Chicago
Department PME-Immunoengineering Center
Street address 5640 S Ellis Ave, Eckhardt Research Center
City Chicago
State/province IL
ZIP/Postal code 60637
Country USA
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (21)
GSM2349863 Naive OT-I CD8 T Cells
GSM2349864 Naive OT-I CD8 T Cells 2
GSM2349865 Naive OT-I CD8 T Cells 3
SRA SRP091421

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE88830_PRJNA347820_Genes_Counts_RPKMs.xls.gz 16.0 Mb (ftp)(http) XLS
GSE88830_PRJNA347820_Transcripts_Counts_RPKMs.xls.gz 19.5 Mb (ftp)(http) XLS
GSE88830_genes_differential_DC_d1-DC_d2.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_DC_d1-DC_d3.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_DC_d2-DC_d3.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_LEC_d1-DC_d1.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_LEC_d1-DC_d2.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_LEC_d1-DC_d3.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_LEC_d1-LEC_d2.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_LEC_d1-LEC_d3.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_LEC_d2-DC_d1.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_LEC_d2-DC_d2.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_LEC_d2-DC_d3.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_LEC_d2-LEC_d3.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_LEC_d3-DC_d1.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_LEC_d3-DC_d2.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_LEC_d3-DC_d3.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_Naive_1-DC_d1.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_Naive_1-DC_d2.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_Naive_1-DC_d3.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_Naive_1-LEC_d1.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_Naive_1-LEC_d2.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_genes_differential_Naive_1-LEC_d3.txt.gz 1.1 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_DC_d1-DC_d2.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_DC_d1-DC_d3.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_DC_d2-DC_d3.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_LEC_d1-DC_d1.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_LEC_d1-DC_d2.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_LEC_d1-DC_d3.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_LEC_d1-LEC_d2.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_LEC_d1-LEC_d3.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_LEC_d2-DC_d1.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_LEC_d2-DC_d2.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_LEC_d2-DC_d3.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_LEC_d2-LEC_d3.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_LEC_d3-DC_d1.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_LEC_d3-DC_d2.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_LEC_d3-DC_d3.txt.gz 2.7 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_Naive_1-DC_d1.txt.gz 2.8 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_Naive_1-DC_d2.txt.gz 2.8 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_Naive_1-DC_d3.txt.gz 2.8 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_Naive_1-LEC_d1.txt.gz 2.8 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_Naive_1-LEC_d2.txt.gz 2.8 Mb (ftp)(http) TXT
GSE88830_transcripts_differential_Naive_1-LEC_d3.txt.gz 2.8 Mb (ftp)(http) TXT
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