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OCT-2 is associated with pro-metastatic epigenomic properties of triple-negative breast cancer cells [ChIP-seq]

ABSTRACT: OCT-2 is associated with pro-metastatic epigenomic properties of triple-negative breast cancer cells [ChIP-seq]

PROVIDER: PRJNA1234594 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR32652328.fastq.gz	Fastqsanger.gz
	SRR32652329.fastq.gz	Fastqsanger.gz
	SRR32652330.fastq.gz	Fastqsanger.gz
	SRR32652331.fastq.gz	Fastqsanger.gz
	SRR32652332.fastq.gz	Fastqsanger.gz

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OCT-2 is associated with pro-metastatic epigenomic properties of triple-negative breast cancer cells

Project description:OCT-2 is associated with pro-metastatic epigenomic properties of triple-negative breast cancer cells

| PRJNA1236320 | ENA

OCT-2 is associated with pro-metastatic epigenomic properties of triple-negative breast cancer cells

Project description:Triple-negative breast cancer (TNBC) is a malignant type of breast cancer. Owing to the lack of expression of receptors that serve as molecular targets for standard therapy for breast cancer, conventional cytotoxic chemotherapy is the primary treatment option for TNBC. However, TNBC exhibits a high degree of genomic heterogeneity, rendering it resistant to chemotherapy. Therefore, there is an urgent need to identify novel therapeutic targets for the treatment of TNBC. Advances in massively parallel sequencing technology have enabled the identification of cancer cell-specific gene expression patterns and epigenetic alterations that regulate their expression. Cancer cell-specific super-enhancers (SEs) have been identified as effective therapeutic targets for cancer. In this study, we identified the functional roles of epigenetic changes and their regulatory mechanisms in TNBC cells. TNBC cell-specific SEs were formed near several genes that contribute to malignant cancer cell acquisition. We found that the transcription factor OCT-2 (encoded by POU2F2) was responsible for the formation of SEs and the expression of genes encoded in the vicinity of the SE regions. Overexpression of POU2F2 enhances the metastasis of TNBC cells in mice and their expression is highly correlated to poor prognosis of TNBC patients. Our findings provide a new insight into cancer cell-specific epigenetic changes induced by OCT-2, which trigger the progression of TNBC, and suggest possible candidates that could be targeted for the treatment of TNBC.

2025-05-14 | GSE292004 | GEO

OCT-2 is associated with pro-metastatic epigenomic properties of triple-negative breast cancer cells [ChIP-seq]

2025-05-14 | GSE291650 | GEO

Different N-terminal isoforms of Oct-1 control expression of distinct sets of genes and their high level in cancer cells promotes pro-oncogenic processes

Project description:High level of Oct-1 isoforms in cells promotes pro-oncogenic processes

2016-05-14 | GSE80287 | GEO

Project description:A small number of transcription factors, including Oct-3/4 and Sox2, constitute the transcriptional network that maintains pluripotency in embryonic stem (ES) cells. Previous reports suggested that some of these factors form a complex that binds the Oct-Sox element, a composite sequence consisting of closely juxtaposed Oct-3/4-binding and Sox2-binding sites. However, little is known regarding the components of the complex. In this study, we show that Sall4, a member of the Spalt-like family of proteins, directly interacts with Sox2 and Oct-3/4. Sall4 in combination with Sox2 or Oct-3/4 simultaneously occupies the Oct-Sox elements in mouse ES cells. Sall4 knockdown led to differentiation of ES cells. Overexpression of Sall4 in ES cells increased reporter activities in a luciferase assay when the Pou5f1- or Nanog-derived Oct-Sox element was included in the reporter. Microarray analyses revealed that Sall4 and Sox2 bound to the same genes in ES cells significantly more frequently than expected from random coincidence. These factors appeared to bind the promoter regions of a subset of the Sall4- and Sox2-double-positive genes in precisely similar distribution patterns along the promoter regions, suggesting that Sall4 and Sox2 associate with such Sall4/Sox2-overlapping genes as a complex. Importantly, gene ontology analyses indicated that the Sall4/Sox2-overlapping gene set is enriched for genes involved in maintaining pluripotency. Sall4/Sox2/Oct-3/4-triple-positive genes identified by referring to a previous study identifying Oct-3/4-bound genes in ES cells were further enriched for pluripotency genes than Sall4/Sox2-double-positive genes. These results demonstrate that Sall4 contributes to the transcriptional network operating in pluripotent cells, together with Oct-3/4 and Sox2.

2012-12-28 | GSE40072 | GEO

2012-12-28 | E-GEOD-40072 | biostudies-arrayexpress

Different N-terminal isoforms of Oct-1 control expression of distinct sets of genes and their high level in cancer cells promotes pro-oncogenic processes

Project description:High level of Oct-1 isoforms in cells promotes pro-oncogenic processes Total RNA obtained from Namalwa cell line stably transfected by Oct-1 isoforms: Oct-1A, or Oct-1L or Oct-1X compared to untransfected control Namalwa cells. For each of the experimental conditions, total RNA was extracted from four cell lines using TRIzol Reagent (Invitrogen), followed by clean up on Ambion columns (Illumina Total-Prep RNA Amplification Kit, Ambion). Biotin-labelled cRNA targets were synthesized starting from 1.5 Âµg of total RNA. Double stranded cDNA synthesis was performed with Illumina TotalPrep RNA Amplification Kit (Ambion), and biotin-UTP-labelled antisense RNA was transcribed in vitro using Ambionâs Kit. All steps of the labelling were performed according to the manufacturerâs protocol. After purification, targets were diluted in hybridization buffer at a concentration of 240 ng/Âµl, and hybridization was allowed to proceed at 58Â°C for 20 h. For microarray analysis, the Illumina HumanHT-12 v4 Sentrix Expression BeadChip was used. Hybridization of labelled cRNA to the BeadChip, washing, and scanning were performed according to the Illumina BeadStation 500Ã manual. The array signal was developed via 10-min incubation with streptavidin-Cy3. The HumanHT-12 v4 Sentrix Expression BeadChip was washed and subsequently dried via centrifugation for 4 min at a setting of 275 xg. The arrays were scanned on the Illumina BeadArray reader, a confocal-type imaging system with 532 (Cy3) nm laser illumination.

2016-05-14 | E-GEOD-80287 | biostudies-arrayexpress

The self-renewal function of Oct-4 can be replaced by the EWS-OCT-4 fusion protein in embryonic stem cells

Project description:EWS-Oct-4 can effectively replace Oct-4, which has significant implications for advancements in stem cell research and regenerative medicine

2025-04-02 | GSE293283 | GEO

Ultrasonic-based OCT-removal from solid tumor biopsies.

Project description:A new method for proteomic studies of OCT-embedded samples based on ultrasound energy is proposed. The cleaning of OCT from mouse kidney embedded tissues were evaluated through the aid of ultrasound energy, with two different frequencies. Simultaneously, vortex agitation was used as control. The optimized method obtained was then applied in human tumor kidney biopsies including chromophobe renal cell carcinomas (chRCC) and renal oncocytomas (RO).

2019-06-13 | PXD013164 | Pride

Mitochondrial 3243A > G mutation confers pro-atherogenic and pro-inflammatory properties in MELAS iPS derived endothelial cells

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