Sample Set Annotation Tool: Gene expression profiling of effector and regulatory T-cells from peripheral blood of rheumatoid arthritis (RA) patients and healthy volunteers-GSE65010

Study Design
Assay
Sample Info
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Analysis

Purpose

Conflicting evidence exists regarding the suppressive capacity of Tregs from the peripheral blood (PB) of patients with rheumatoid arthritis (RA). Our aim was to determine whether Tregs are intrinsically defective in RA using a wide range of read-out assays. Methods: CD3+CD4+CD25+CD127low Tregs from CD45RO+ and CD45RA+ compartments of PB from patients with RA and healthy controls (HC) were analysed for phenotype, cytokine expression profile (ex vivo and after in vitro stimulation), suppression of effector T-cell proliferation and cytokine production, suppression of monocyte-derived cytokine/chemokine production, and gene expression profiling. Results: No differences were observed between patients with RA and HC regarding Treg frequency, ex vivo phenotype (CD4, CD25, CD127, CD39, CD161) or pro-inflammatory cytokine profile (IL-17, IFN-gamma, TNF-alpha). FOXP3 expression was increased in Tregs from RA blood. The ability of Tregs to suppress T-cell proliferation or cytokine (IFN-gamma, TNF-alpha) production upon co-culture with autologous CD45RO+ effector T-cells and monocytes was not significantly different between patients with RA and HC. CD45RO+ Tregs from RA blood showed a slightly impaired ability to suppress production of some cytokines/chemokines by autologous LPS-activated monocytes (IL-1-beta, IL-1Ra, IL-7, CCL3, CCL4), but this was not true for all patients and other cytokines/chemokines (TNF-alpha, IL-6, IL-8, IL-12, IL-15, CCL5) were suppressed in the majority of patients similarly to HC. Finally, gene expression profiling of CD45RA+ or CD45RO+ Tregs from PB revealed no statistically significant differences between patients with RA and HC. Conclusions: Our findings suggest that Tregs isolated from PB of patients with RA are not intrinsically defective.

Hypothesis

Experimental Design

Sorted regulatory and effector T-cells were isolated from peripheral blood (6 healthy controls and 6 patients with rheumatoid arthritis). Total RNA was isolated and profiled using Affy HG-U133_Plus_2 chips.

Experimental Variables

Controls

Methods

Additional Information

Walter GJ, Fleskens V, Frederiksen KS, Rajasekhar M et al. Phenotypic, Functional, and Gene Expression Profiling of Peripheral CD45RA+ and CD45RO+ CD4+CD25+CD127(low) Treg Cells in Patients With Chronic Rheumatoid Arthritis. Arthritis Rheumatol 2016 Jan;68(1):103-16. PMID: 26314565

Expected Samples:

48 Samples Loaded: 48

Species

Human (Homo sapiens)

Sample Source

Regulatory T Cells

Disease

Rheumatoid Arthritis

Treatment Protocol

Growth Protocol

Extraction Protocol

Storage Conditions

Sample Set Spreadsheet

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Sample ID	!Sample_title	cell type	donor	disease state
GSM1585731	HC1 Memory T effector	purified Memory T effectors	HC1	healthy control
GSM1585732	HC2 Naive Treg	purified Naive Tregs	HC2	healthy control
GSM1585733	HC2 Naive T effector	purified Naive T effectors	HC2	healthy control
GSM1585734	HC1 Naive Treg	purified Naive Tregs	HC1	healthy control
GSM1585735	HC1 Naive T effector	purified Naive T effectors	HC1	healthy control

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Sample ID	!Sample Title	Cell type	Donor	Disease state
GSM1585731	HC1 Memory T effector	purified Memory T effectors	HC1	healthy control
GSM1585732	HC2 Naive Treg	purified Naive Tregs	HC2	healthy control
GSM1585733	HC2 Naive T effector	purified Naive T effectors	HC2	healthy control
GSM1585734	HC1 Naive Treg	purified Naive Tregs	HC1	healthy control
GSM1585735	HC1 Naive T effector	purified Naive T effectors	HC1	healthy control
GSM1585736	HC1 Memory Treg	purified Memory Tregs	HC1	healthy control
GSM1585737	HC2 Memory Treg	purified Memory Tregs	HC2	healthy control
GSM1585738	HC2 Memory T effector	purified Memory T effectors	HC2	healthy control
GSM1585739	HC3 Naive Treg	purified Naive Tregs	HC3	healthy control
GSM1585740	HC3 Naive T effector	purified Naive T effectors	HC3	healthy control
GSM1585741	HC3 Memory Treg	purified Memory Tregs	HC3	healthy control
GSM1585742	HC3 Memory T effector	purified Memory T effectors	HC3	healthy control
GSM1585743	HC4 Naive Treg	purified Naive Tregs	HC4	healthy control
GSM1585744	HC4 Naive T effector	purified Naive T effectors	HC4	healthy control
GSM1585745	HC4 Memory Treg	purified Memory Tregs	HC4	healthy control
GSM1585746	HC4 Memory T effector	purified Memory T effectors	HC4	healthy control
GSM1585747	HC5 Naive Treg	purified Naive Tregs	HC5	healthy control
GSM1585748	HC5 Naive T effector	purified Naive T effectors	HC5	healthy control
GSM1585749	HC5 Memory Treg	purified Memory Tregs	HC5	healthy control
GSM1585750	HC5 Memory T effector	purified Memory T effectors	HC5	healthy control
GSM1585751	HC6 Naive Treg	purified Naive Tregs	HC6	healthy control
GSM1585752	HC6 Naive T effector	purified Naive T effectors	HC6	healthy control
GSM1585753	HC6 Memory Treg	purified Memory Tregs	HC6	healthy control
GSM1585754	HC6 Memory T effector	purified Memory T effectors	HC6	healthy control
GSM1585755	RA 206 Naive Treg	purified Naive Tregs	RA 206	rheumatoid arthritis
GSM1585756	RA 206 Naive T effector	purified Naive T effectors	RA 206	rheumatoid arthritis
GSM1585757	RA 206 Memory Treg	purified Memory Tregs	RA 206	rheumatoid arthritis
GSM1585758	RA 206 Memory T effector	purified Memory T effectors	RA 206	rheumatoid arthritis
GSM1585759	RA 207 Naive Treg	purified Naive Tregs	RA 207	rheumatoid arthritis
GSM1585760	RA 207 Naive T effector	purified Naive T effectors	RA 207	rheumatoid arthritis
GSM1585761	RA 207 Memory Treg	purified Memory Tregs	RA 207	rheumatoid arthritis
GSM1585762	RA 207 Memory T effector	purified Memory T effectors	RA 207	rheumatoid arthritis
GSM1585763	RA 208 Naive Treg	purified Naive Tregs	RA 208	rheumatoid arthritis
GSM1585764	RA 208 Naive T effector	purified Naive T effectors	RA 208	rheumatoid arthritis
GSM1585765	RA 208 Memory Treg	purified Memory Tregs	RA 208	rheumatoid arthritis
GSM1585766	RA 208 Memory T effector	purified Memory T effectors	RA 208	rheumatoid arthritis
GSM1585767	RA 209 Naive Treg	purified Naive Tregs	RA 209	rheumatoid arthritis
GSM1585768	RA 209 Naive T effector	purified Naive T effectors	RA 209	rheumatoid arthritis
GSM1585769	RA 209 Memory Treg	purified Memory Tregs	RA 209	rheumatoid arthritis
GSM1585770	RA 209 Memory T effector	purified Memory T effectors	RA 209	rheumatoid arthritis
GSM1585771	RA 211 Naive Treg	purified Naive Tregs	RA 211	rheumatoid arthritis
GSM1585772	RA 211 Naive T effector	purified Naive T effectors	RA 211	rheumatoid arthritis
GSM1585773	RA 211 Memory Treg	purified Memory Tregs	RA 211	rheumatoid arthritis
GSM1585774	RA 211 Memory T effector	purified Memory T effectors	RA 211	rheumatoid arthritis
GSM1585775	RA 212 Naive Treg	purified Naive Tregs	RA 212	rheumatoid arthritis
GSM1585776	RA 212 Naive T effector	purified Naive T effectors	RA 212	rheumatoid arthritis
GSM1585777	RA 212 Memory Treg	purified Memory Tregs	RA 212	rheumatoid arthritis
GSM1585778	RA 212 Memory T effector	purified Memory T effectors	RA 212	rheumatoid arthritis

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SIDRA