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Genome-wide screening for ELF4-binding sites.

ABSTRACT: ELF4 (also known as MEF) is a member of the ETS family of transcriptional factors. While an oncogenic role has been demonstrated for ELF4 mainly in hematopoietic malignancies, its definitive function in human carcinogenesis is not clear yet. Here we demonstrate that a wide array of human tumors carry somatic, loss-of-function mutations in ELF4 for its transcriptional activity, and restoring its function exerts anti-proliferative effects. To further explore the tumor suppressive function of ELF4, its binding sites were searched among the human genome with the use of chromatin immunoprecipitation coupled with sequencing (ChIP-seq).

ORGANISM(S): Homo sapiens

PROVIDER: GSE53357 | GEO | 2016/03/01

SECONDARY ACCESSION(S): PRJNA231834

REPOSITORIES: GEO

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Genome-wide screening for ELF4-binding sites.

Project description:ELF4 (also known as MEF) is a member of the ETS family of transcriptional factors. While an oncogenic role has been demonstrated for ELF4 mainly in hematopoietic malignancies, its definitive function in human carcinogenesis is not clear yet. Here we demonstrate that a wide array of human tumors carry somatic, loss-of-function mutations in ELF4 for its transcriptional activity, and restoring its function exerts anti-proliferative effects. To further explore the tumor suppressive function of ELF4, its binding sites were searched among the human genome with the use of chromatin immunoprecipitation coupled with sequencing (ChIP-seq). Examination of binding site for FLAG-immunoprecipitated mock, ELF4 (WT) and ELF4 (L211M) with each input sample as a control.

2016-03-01 | E-GEOD-53357 | biostudies-arrayexpress

Human autoinflammatory disease reveals ELF4 as a transcriptional regulator of inflammation

Project description:Transcription factors specialized to limit the destructive potential of inflammatory immune cells remain ill-defined. We discovered loss-of-function variants in the X-linked ETS transcription factor gene ELF4 in multiple unrelated male patients with early-onset mucosal autoinflammation and inflammatory bowel disease (IBD) characteristics including fevers and ulcers that responded to IL-1, TNF, or IL-12p40 blockade. Using cells from patients and two newly generated mouse models, we uncovered hyperinflammatory responses of ELF4-mutant macrophages to a range of innate stimuli. Mechanistically, Elf4 in macrophages both sustained expression of anti-inflammatory genes such as Il1rn and limited upregulation of inflammation amplifiers, including S100A8, Lcn2, Trem1, and neutrophil chemoattractants. Indeed, therapeutic Trem1 blockade reversed inflammation and intestine pathology in Elf4-mutant mice challenged with lipopolysaccharide in vivo. Thus, the ELF4 transcription factor restrains inflammation and protects against mucosal disease, a discovery with broad translational relevance for human inflammatory diseases such as IBD.

2021-07-29 | GSE175569 | GEO

Gene expression signatures for ELF4

Project description:To elucidate how ELF4 confers anti-growth activity, gene expression profiles were compared between wildtype- and mutant-expressing T3M-1 Cl-10 cells with the use of DNA microarrays. T3M-1 Cl-10 cells were infected with a mock retrovirus or virus generated from pMXS-ires-EGFP expressing ELF4 or ELF4(L211M), and EGFP?positive fractions were purified with a cell sorter. Thus gene expression profiling of purely mock/ELF4/ELF4(L211M)-expressing cells was performed with SurePrint G3 Human Gene Expression 8×60K v2 Microarray.

2013-12-04 | E-GEOD-52855 | biostudies-arrayexpress

Control of CD8+ T cell proliferation by the transcription factor ELF4

2009-03-24 | GSE15324 | GEO

Gene expression signatures for ELF4

2013-12-04 | GSE52855 | GEO

RNA-seq of colon tissue from wild type and Elf4-/- mice with colitis

Project description:ELF4 is a transcription factor, and to identify its potential targets, the inflamed colons of wild type and Elf4 deficient mice were subjected to whole genome RNA sequencing.

2019-10-16 | GSE121305 | GEO

Transcription profiling of mouse CD8+ T cells from wild type and Elf4-/- mice left untreated or activated in vitro by culturing on anti-CD3 coated plates and anti-CD28 in media

Project description:Transcription factors that regulate quiescence, proliferation, and homing of lymphocytes are critical for effective immune system function. In the present study, we demonstrated that the transcription factor ELF4 directly activates the tumor suppressor KLF4 downstream of T cell receptor (TCR) signaling to induce cell cycle arrest in naÃ¯ve CD8+ T cells. Elf4- and Klf4-deficient mice accumulated CD8+CD44hi T cells during steady-state conditions and generated more memory T cells after immunization. The homeostatic expansion of CD8+CD44hi T cells in Elf4-null mice resulted in a redistribution of cells to non-lymphoid tissue due to reduced expression of the transcription factor KLF2, and the surface proteins CCR7 and CD62L. This work describes the combinatorial role of lymphocyte-intrinsic factors in the control of T cell homeostasis, activation and homing. Experiment Overall Design: CD8 T cells were purified from spleen of wild type and Elf4-/- mice and CD8 T cells were left untreated or activated in vitro by culturing on anti-CD3 coated plates and anti-CD28 in media (RPMI 10% FBS supplemented with 5% T-stim) for 3.5 days. Experiment Overall Design: RNAs isolated from wild type and Elf4 -/- CD8+ T cells were used in Affimetrix oligonucleotide arrays either untreated or after 3.5 days of activation.

2009-03-28 | E-GEOD-15324 | biostudies-arrayexpress

Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and ELF4-/- CACO2 cells Transcriptomes

Project description:Conclusion: RNA sequencing of Wild Type and ELF4-/- CACO2 cells.

2022-05-18 | GSE192922 | GEO

ELF4 is a target of miR-124 and promotes neuroblastoma proliferation and undifferentiated state

Project description:We performed RNA-seq to identify the transcriptional targets of ELF4 in BE-(2)-C neuroblastoma cells.

2019-10-01 | GSE125772 | GEO

A distinct microRNA signature for definitive endoderm derived from human embryonic stem cells

Project description:This SuperSeries is composed of the following subset Series: GSE16678: MicroRNA expression data from differentiation of human Cyt49 ESCs into definitive endoderm in feeder-free conditions GSE16681: mRNA expression data from differentiation of human ESCs into definitive endoderm, Cyt49 on matrigel GSE16687: MicroRNA expression data from differentiation of human Cyt49 ESCs into definitive endoderm on MEF feeder layers GSE16689: MicroRNA expression data from differentiation of human H9 ESCs into definitive endoderm on MEF feeder layers Refer to individual Series

2010-07-30 | E-GEOD-16690 | biostudies-arrayexpress

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