Transcriptomics,Genomics

Dataset Information

41

Celiac disease T cell clone response to CD3/CD28 stimulation


ABSTRACT: To identify the CD4+ T cell cytokines responsible for the proliferation of the Lin-IEL lines CD4+ T cell clone L10, which recognises DQ2-glia-α1, one of the immunodominant T cell epitopes in celiac disease, was stimulated for 3 hours in IMDM with plate-bound CD3/CD28-specific (2.5 µg/ml each) or control antibodies coated onto 6-well non-tissue culture treated plates. Three independent biological replicates were performed, each time including 6 million Ficoll-purified live cells per condition. RNA was purified from these cells using the RNAeasy mini kit (Qiagen, Venlo, the Netherlands). cDNA was amplified using the Applause WT-Amp system (NuGEN technologies, Bemmel, the Netherlands) and biotin-labelled with the Encore Biotin Module (NuGEN). Human Gene 1.0 ST arrays (Affymetrix, High Wycombe, UK) were employed to quantify global gene expression. Overall design: CD4+ T clone L10 cells, isolated from a duodenal biopsy of a celiac disease patient (Petersen et al., 2014, Nat. Struct. Biol. 21:480-488) were stimulated for 3 hours in IMDM with plate-bound CD3/CD28-specific (2.5 µg/ml each) or control antibodies. Three independent biological replicates were performed, each time including 6 million Ficoll-purified live cells per condition.

INSTRUMENT(S): [HuGene-1_0-st] Affymetrix Human Gene 1.0 ST Array [transcript (gene) version]

SUBMITTER: Martijn H Brugman  

PROVIDER: GSE73599 | GEO | 2016-09-30

SECONDARY ACCESSION(S): PRJNA297406

REPOSITORIES: GEO

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Publications

CD4 T-cell cytokines synergize to induce proliferation of malignant and nonmalignant innate intraepithelial lymphocytes.

Kooy-Winkelaar Yvonne M C YM   Bouwer Dagmar D   Janssen George M C GM   Thompson Allan A   Brugman Martijn H MH   Schmitz Frederike F   de Ru Arnoud H AH   van Gils Tom T   Bouma Gerd G   van Rood Jon J JJ   van Veelen Peter A PA   Mearin M Luisa ML   Mulder Chris J CJ   Koning Frits F   van Bergen Jeroen J  

Proceedings of the National Academy of Sciences of the United States of America 20170103 6


Refractory celiac disease type II (RCDII) is a severe complication of celiac disease (CD) characterized by the presence of an enlarged clonal population of innate intraepithelial lymphocytes (IELs) lacking classical B-, T-, and natural killer (NK)-cell lineage markers (Lin-IELs) in the duodenum. In ∼50% of patients with RCDII, these Lin-IELs develop into a lymphoma for which no effective treatment is available. Current evidence indicates that the survival and expansion of these malignant Lin-IEL  ...[more]

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