NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE153591 Query DataSets for GSE153591
Status Public on Jan 21, 2021
Title Glycolytic metabolism of pathogenic T cells enables early detection of GvHD by 13C-MRI.
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Graft-versus-host disease (GvHD) is a prominent barrier to allogeneic hematopoietic stem cell transplantation (HSCT). Definitive diagnosis of GvHD is invasive and biopsies of involved tissues pose a high risk of bleeding and infection. Our previous studies in a chronic GvHD mouse model demonstrated that alloreactive CD4+ T cells are distributed to target organs ahead of overt symptoms, meanwhile CD4+ T cell activation is tied to increased glycolysis. We aimed to compare the gene expression of allogeneic (mismatched) naive (Tn) and effector memory (Tem) CD4+ T cell subsets early post transplant. Specifically, we hypothesized that allogeneic CD4 effector memory T cells would show upregulated expression of genes related to glycolysis. We found that almost all enzymes of glycolysis were upregulated in effector memory CD4 T cells compared to naive cells, including transporters for glucose. In contrast, enzymes of the tricarboxylic acid cycle were not uniformly elevated.
 
Overall design FACS-purified CD45+ CD4+ cells were isolated from syngeneic and allogeneic transplanted mice (n= 3 each) in a model of chronic GvHD on day 14 from the liver. After sorting, cells were counted, tested for viability and a target of 6000 cells was loaded onto the 10X system. The cells were processed according to the instructions for the 5' sequencing kit.
 
Contributor(s) Buxbaum NP, Kelly M, Assmann JC
Citation(s)
  • Assmann JC, Farthing DE, Saito K, Maglakelidze N et al. Glycolytic metabolism of pathogenic T cells enables early detection of GVHD by 13C-MRI. Blood 2021 Jan 7;137(1):126-137. PMID: 32785680
Submission date Jun 30, 2020
Last update date Jan 21, 2021
Contact name Nataliya Prokopenko Buxbaum
E-mail(s) nbuxbaum@mail.nih.gov
Phone 2407606157
Organization name NCI, NIH
Department ETIB
Street address 10 Center Drive, CRC, 3-3288
City Bethesda
State/province Maryland
ZIP/Postal code 20892
Country USA
 
Platforms (1)
GPL21626 NextSeq 550 (Mus musculus)
Samples (6)
GSM4647712 SCAF724_A1
GSM4647713 SCAF725_A2
GSM4647714 SCAF726_A3
Relations
BioProject PRJNA643283
SRA SRP269434

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
GSE153591_SCAF724_A1.zip.gz 37.1 Mb (ftp)(http) ZIP
GSE153591_SCAF725_A2.zip.gz 38.5 Mb (ftp)(http) ZIP
GSE153591_SCAF726_A3.zip.gz 35.6 Mb (ftp)(http) ZIP
GSE153591_SCAF727_B1.zip.gz 52.6 Mb (ftp)(http) ZIP
GSE153591_SCAF728_B2.zip.gz 49.1 Mb (ftp)(http) ZIP
GSE153591_SCAF729_B3.zip.gz 47.5 Mb (ftp)(http) ZIP
GSE153591_all_clusters_conserved_marker.csv.gz 939.7 Kb (ftp)(http) CSV
GSE153591_all_clusters_differentially_expressed_genes.csv.gz 651.7 Kb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap
External link. Please review our privacy policy.