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Series GSE32952 Query DataSets for GSE32952
Status Public on Oct 13, 2011
Title Gene expression profiles of T cell fraction enriched for donor antigen-reactive T cells in skin allografted recipient mice (I)
Organism Mus musculus
Experiment type Expression profiling by array
Summary Measurement of specific gene expression in clinical samples is a promising approach for monitoring the recipient immune status to the graft in organ transplantation. Identification of biomarker genes closely associated with tolerance or rejection is critical for this monitoring protocol. Unlike previous studies, our microarray analysis focused on donor antigen-reactive T cells, which were prepared by collecting CD69+ T cells from cocultures of recipient peripheral T cells and donor antigen-presenting cells. A comparison of different recipient groups enabled us to identify several tolerance- and rejection-correlated biomarker genes, including previously unknown genes. By measuring biomarker gene expression in the CD69+ T cell fraction using quantitative reverse-transcription polymerase chain reaction, we were able to precisely detect the immune status of recipients relative to their graft.
 
Overall design Full-thickness donor (BDF1; C57BL/6 x DBA/2) tail skin was grafted onto recipient (C57BL/6) mice. Tolerance to the graft was induced by donor specific transfusion combined with administration of anti-CD40L Ab (MR-1). Total T lymphocytes were prepared from spleen and lymph nodes of tolerant recipient mice on day 21 and 100 after skin transplantation, untreated recipient mice on day 7, and ungrafted, healthy C57BL/6 mice and used as early tolerant, tolerant, rejecting and naïve T lymphocyte samples, respectively. In order to isolate alloantigen-reactive cells, T lymphocytes were cocultured with donor BM-DCs for 20-21 hours and then separated into two subpopulations based on CD69 expression using fluorescence cell sorter. Total RNA was extracted from these CD69+ and CD69- T cells and subjected to microarray using Illunima MouseRef-8 Expression BeadChip. All data analysis and visualization of differentially expressed genes was conducted using Illumina BeadStudio v3.1.3 (Gene Expression Module v3.3.8), Array Assist 5.5.1 (Stratagene) and R 2.4.1(www.r-project.org). Candidate tolerance genes were defined as the common genes satisfying the following criteria; 1) 1.5 fold or higher expression in CD69+ T cells isolated from tolerant recipients than those from naïve mice, 2) 1.5 fold or higher expression in CD69+ T cells than CD69- T cells from tolerant mice, 3) 500 or higher average signal measured in CD69+ T cells from tolerant mice. The criteria for candidate rejection genes were 1) 1.5 fold or higher expression in CD69+ T cells isolated from rejecting recipients than those from tolerant mice, 2) 1.5 fold or higher expression in CD69+ T cells than CD69- T cells from rejecting mice, 3) 500 or higher average signal measured in CD69+ T cells from rejecting mice.
 
Contributor(s) Lim D, Park Y, Kim S, Jung E, Jeong S, Shin S, Park C, Han D, Kim S
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Submission date Oct 13, 2011
Last update date Jun 14, 2018
Contact name Dong-Gyun Lim
E-mail(s) dglim@nmc.or.kr
Organization name National Medical Center, Research Institute
Street address 245 Eulji-ro, Jung-gu
City Seoul
ZIP/Postal code 100-799
Country South Korea
 
Platforms (1)
GPL6885 Illumina MouseRef-8 v2.0 expression beadchip
Samples (8)
GSM815926 Naïve CD69+ T cells
GSM815927 Naïve CD69- T cells
GSM815928 Tolerance CD69+ T cells
This SubSeries is part of SuperSeries:
GSE32955 Gene expression profiles of T cell fraction enriched for donor antigen-reactive T cells in skin allografted recipient mice
Relations
BioProject PRJNA154411

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
GSE32952_RAW.tar 3.1 Mb (http)(custom) TAR
GSE32952_non-normalized_data.txt.gz 1.4 Mb (ftp)(http) TXT
Raw data are available on Series record
Processed data included within Sample table

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