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Transcriptome high-throughput sequencing of ESRP1-overexpressing cells ESRP1-SKOV3

ABSTRACT: Transcriptome high-throughput sequencing of ESRP1-overexpressing cells ESRP1-SKOV3

PROVIDER: PRJNA552793 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR9645580_1.fastq.gz	Fastqsanger.gz
	SRR9645580_2.fastq.gz	Fastqsanger.gz
	SRR9645581_1.fastq.gz	Fastqsanger.gz
	SRR9645581_2.fastq.gz	Fastqsanger.gz
	SRR9645582_1.fastq.gz	Fastqsanger.gz

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Transcriptome high-throughput sequencing of ESRP1-overexpressing cells ESRP1-SKOV3

Project description:ESRP1 is an epithelial-specific splicing factor. It mainly regulates expressions of genes related to intercellular adhesion, actin cytoskeleton, cell polarity and cell migration at the post-transcriptional level by alternative splicing. It also plays an important role in the development and progression of cancers. This study analyzed the transcriptome changes of ESRP1 stably overexpression SKOV3 cells by high-throughput sequencing, discovered and validated the functional effects of ESRP1 on ovarian cancer cells

2020-05-21 | GSE133841 | GEO

Decoding target genes of ESRP1 by crosslinking-immunoprecipitation and high-throughput sequencing (CLIP seq)

Project description:RNA-binding proteins and their mediated alternative splicing play important roles in tumor cell invasion and migration. Here, we report that ESRP1 is a key regulator of gastric cancer cell metastasis. Overexpression of ESRP1 inhibits the invasion and migration of gastric cancer cells, in vivo and in vitro. Through crosslinking-immunoprecipitation and high-throughput sequencing (CLIP seq), we revealed that ESRP1 binding to the CLSTN1 mRNA and mediated its exon skipping, which may be a key mechanism for its inhibition of gastric cancer cell invasion and metastasis. Taken together, our data provide a molecular framework for the role of ESRP1 in gastric cancer development.

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High-throughput sequencing of circRNAs in ovarian cancer SKOV3 cell line

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Genome-wide high-throughput sequencing analysis of TLR4-overexpressing ovarian cancer cells treated with taxol and curcumin

Project description:The purpose of this study is to approach overexpression of TLR4 which contributes the drug resistance in ovarian cancer cells. However, curcumin overcomes this effects. Comparison of the transcriptional regulated genes were performed: (1) analysis of TLR4-overexpressing (T4) and mock (MCS) SKOV3 cells by taxol treatment; (2) assay of taxol alone and combined with curcumin treatments in TLR4-overexpressing (T4) SKOV3 cells. Differential expression analysis was performed with ≥ 2-fold or ≤0.5-fold (p<0.05) changed expression for pathway enrichment analysis.

2022-08-02 | GSE135279 | GEO

Decoding target genes of ESRP1 by crosslinking-immunoprecipitation and high-throughput sequencing (CLIP seq)

Project description:Decoding target genes of ESRP1 by crosslinking-immunoprecipitation and high-throughput sequencing (CLIP seq)

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Identification of ESRP1 targets in the epidermis

Project description:The epithelial splicing regulatory proteins, ESRP1 and ESRP2 are essential for mammalian development through regulation of a global program of alternative splicing of genes involved in maintenance of epithelial cell function. To further inform our understanding of the molecular functions of ESRP1 we performed enhanced crosslinking immunoprecipitation coupled with high throughput sequencing (eCLIP) in epithelial cells of mouse epidermis. The genome-wide binding sites of ESRP1 were integrated with RNA-Seq analysis of alterations in splicing and total gene expression that result from epidermal ablation of Esrp1 and Esrp2. These studies demonstrated that ESRP1 functions in splicing regulation occur primarily through direct binding in a position-dependent manner to either promote exon inclusion or skipping. In addition, we also identified widespread binding of ESRP1 in 3’ and 5’ untranslated regions (UTRs) of genes involved in epithelial cell function, suggesting that its post-transcriptional functions extend beyond splicing regulation.

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The RNA-binding protein ESRP1 modulates the expression of RAC1b in colorectal cancer cells [COLO320DM]

Project description:Colorectal cancer (CRC) ranks third for incidence and second for number of deaths among cancer types worldwide. Poor patient survival, due to inadequate response to currently available treatment regimens, points out to the urgent requirement for personalized therapy in CRC patients. Our aim was to provide mechanistic insights into the pro-tumorigenic role of the RNA-binding protein ESRP1, which is highly expressed in a subset of CRC patients. We show that, in CRC cells, ESRP1 binds to and has the same trend in expression as RAC1b, a well-known tumor promoter. Thus, RAC1b may be a potential therapeutic target in ESRP1-overexpressing CRC. RNA binding proteins are well recognized as critical regulators of tumorigenic processes through their capacity to modulate RNA biogenesis, including alternative splicing, RNA stability and mRNA translation. The RNA binding protein Epithelial Splicing Regulatory Protein 1 (ESRP1) can act as tumor suppressor or promoter in a cell type- and disease context-dependent manner. We have previously shown that elevated expression of ESRP1 in colorectal cancer cells can drive tumor progression. To gain further insights into the pro-tumorigenic mechanism of action of ESRP1, we performed cDNA microarray analysis on two colorectal cells lines modulated for ESRP1 expression. Intriguingly, RAC1b was highly expressed, both at mRNA and protein levels, in ESRP1-overexpressing cells, while the opposite trend was observed in ESRP1-silenced CRC cells. Moreover, RAC1 and RAC1b mRNA co-immunoprecipitate with ESRP1 protein. Silencing of RAC1b expression significantly reduced the number of soft agar colonies formed by ESRP1-overexpressing cells, suggesting that ESRP1 acted, at least partially, through RAC1b in its tumor-promoting activities in CRC cells. Thus, our data provide molecular cues on targetable candidates in CRC cases with high ESRP1 expression.

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Project description:Circular RNAs(circRNAs) are conservative and stable and have been extensively studied in cancer in recent years. Expression profile of circRNA is largely unknown in ovarian cancer. This study explored circRNAs in the ovarian cancer cell line SKOV3.

2020-05-21 | GSE133676 | GEO

High throughput gene expression data of fibroblast growth factor 19-overexpressing SK-MES-1 cells and control cells

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