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| Status |
Public on May 15, 2024 |
| Title |
Chromatin Accessibility Analysis of LIRIL2R-Deficient and LIRIL2R-Sufficient Induced Regulatory T Cells |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Factors that determine the epigenetic landscape of regulatory T cells (Tregs), which is critical for their function, remain poorly understood. Long intergenic noncoding RNAs (LincRNA)s are important for shaping and maintaining the epigenetic landscape in different cell types. We identified a novel uncharacterised lincRNA, which we named LincRNA regulator of IL2RA (LIRIL2R), that is upregulated during early differentiation of human Tregs. RNA sequencing (RNA-seq) and data independent (DIA) proteomic analysis of LIRIL2R-deficient Tregs, with genome-wide chromatin occupancy analysis, identified IL2RA as direct LIRIL2R target. This nuclear lincRNA directly binds upstream of IL2RA locus and regulates its transcription by facilitating the accessibility of the locus. LIRIL2R-deficient Tregs had reduced expression of Treg-related genes, including FOXP3, IL2RA, STAT5, CTLA4 and PDCD1, as well as reduced suppressive capacity. Modulating LIRIL2R expression may hold promise for better therapeutic strategies against autoimmunity and cancer.
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| Overall design |
CD4 T cells were isolated from human umbilical cord blood. Cells were treated with either contrl non targeting (NT) antisense loked nucleic acid oligos (LNAs) or LNAs targeting LIRIL2R. The cells were differentiated under iTreg conditions for 24/72 hours and ATAC-seq was performed.
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| Contributor(s) |
Khan MM, Andrabi SB, Khan MH, Rasool O, Kalim UU, Junttila S, Elo LL, Lahesmaa R |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Dec 26, 2022 |
| Last update date |
May 16, 2024 |
| Contact name |
Riitta Lahesmaa |
| E-mail(s) |
rilahes@utu.fi
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| Organization name |
University of Turku
|
| Department |
Turku Bioscience
|
| Lab |
Lahesmaa lab
|
| Street address |
Tykistökatu 6A
|
| City |
Turku |
| ZIP/Postal code |
20520 |
| Country |
Finland |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (36)
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| This SubSeries is part of SuperSeries: |
| GSE221759 |
Long Noncoding RNA LIRIL2R Modulates FOXP3 Levels and Suppressive Function of Human CD4+ Regulatory T Cells by Regulating IL2RA |
|
| Relations |
| BioProject |
PRJNA915967 |
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