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RNA-seq analysis in human REH pre-B lymphoblastic cells in response to XIST-KD

ABSTRACT: RNA-seq analysis in human REH pre-B lymphoblastic cells in response to XIST-KD

PROVIDER: PRJNA640371 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR12045494_1.fastq.gz	Fastqsanger.gz
	SRR12045494_2.fastq.gz	Fastqsanger.gz
	SRR12045495_1.fastq.gz	Fastqsanger.gz
	SRR12045495_2.fastq.gz	Fastqsanger.gz

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RNA-seq analysis in human REH pre-B lymphoblastic cells in response to XIST-KD

Project description:We performed RNA-seq experiments to modulate levels of XIST RNA. We inhibited XIST activity in REH lymphocytic cells via knockdown of XIST expression by short hairpin (sh) RNA. We confirmed that the RNA level of XIST was greatly reduced in shRNA-XIST cells by both RNA-seq and qPCR analyses, relative to cells transfected with a scrambled shRNA.

2020-06-19 | GSE152767 | GEO

Gene expression changes in REH following STAT3 inhibition by shRNA

Project description:STAT3 (Signal transducer and activator of transcription 3) expression is associated with with t(12;21) acute lymphoblastic leukaemia (ALL) and it is crucial for the survival of the t(12;21) ALL . Our study investigated the STAT3 regulated pathways and discovered a novel STAT3-TP53 axis in B-ALL. In order to determine the STAT3 regulated pathways in t(12;21) ALL cells, we performed RNAseq analysis on the Pre-B Acute Lymphoblastic Leukemia (ALL) cell line REH following shRNA-mediated STAT3 knockdown

2024-01-31 | GSE179332 | GEO

Gene expression changes in REH following STAT3 pharmacological inhibition

2024-01-31 | GSE179333 | GEO

Role of Chd8 in Xist regulation

Project description:In this project, we have studied the role of Chd8 in Xist regulation and XCI initiation by means of Chd8 Knock-Downs (KD) and Knock-Out (KO).

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Gene expression changes in REH following CDC42 inhibition

Project description:ARHGEF4 expression is associated with t(12;21) acute lymphoblastic leukaemia (ALL). Our study investigated the substrate specificity of ARHGEF4, a member of the diffuse B-cell lymphoma (DBL) family of guanine nucleotide exchange factors (GEFs), in t(12;21) ALL REH cells. ARHGEF4 was found to activate the small guanine nucleotide binding protein (GTPase) CDC42. In order to determine the function of CDC42 in t(12;21) ALL cells, we performed RNAseq analysis on REH cells treated for 24 hours with DMSO vehicle control in comparison to 25uM ML141, a CDC42 inhibitor.

2020-06-20 | GSE152836 | GEO

Genomic characterization of three acute lymphoblastic leukemia cases and one established cell line REH at the single cell level

Project description:DNA copy number alterations and mutations were characterised by bulk SNP anlaysis and exome sequencing (not sown here) in three acute lymphoblastic leukaemia samples and one establish cell line REH. Further single cell experiments of these cases investigated the mutation and copy number targets previously defined exploring the sub-clonal populations and phylogenic trees within each leukaemia. Affymetrix SNP arrays were performed according to the manufacturer's directions on DNA extracted from cryopreserved diagnostic bone marrow or peripheral blood samples. Copy number analysis of Affymetrix SNP6 arrays or Cytogenetics whole genome 2.7M arrays was performed for three leukaemic samples and one established cell line REH. Remission samples were only available for two of the leukaemia samples (Case A and Case B) and therefore 20 HapMap Caucasien samples were used as controls for the SNP6 array expeeriments.

2013-07-26 | E-GEOD-49215 | biostudies-arrayexpress

Genomic characterization of three acute lymphoblastic leukemia cases and one established cell line REH at the single cell level

2013-07-26 | GSE49215 | GEO

Homo sapiens isolate:REH

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Loss of XIST lncRNA promotes stemness and cellular plasticity in ovarian cancer

Project description:Cancer cell plasticity is an emerging hallmark of the disease where cells can transition into different cellular states, contributing to tumor heterogeneity. Cellular plasticity is linked to cancer progression, treatment resistance, and relapse. Cancer Stem Cells (CSCs) play an important role in cancer cell plasticity, and molecular factors contributing to stemness maintenance are still poorly understood. Here, we investigate the role of XIST (X-inactive specific transcript) long noncoding RNA (lncRNA) in ovarian cancer cellular plasticity. We perform in silico and in vitro analyses to better understand its function. Our findings demonstrate a significant downregulation of XIST in ovarian tumors. cancer patients.Tumors with low XIST expression have higher stemness index and decreased overall survival. This reduction is associated with an increased stemness in tumors with XIST index and decreased overall survival rates. XIST knockdown (KD) in ovarian cancer cell lines increases stem cell population. Transcriptomic data show that low XIST expression correlates with the upregulation of the stem cell-specific pathways MYC and MTOR, as well as the metabolic pathway OXPHO. Our study also demonstrates that XIST KD increases specifically mesenchymal cancer stem cell (MCSC) population. Finally, ovarian cancer cells with XIST KD show higher plasticity under hypoxic conditions by transitioning into Epithelial Cancer Stem CellsCell (ECSC). Our data reveal that XIST loss induces CSC enrichment, leading to higher cellular plasticity. These findings highlight the important role of XIST in protecting cell identity in ovarian cancer and open the door to new therapeutic approaches for patients with low XIST expression

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Expression analysis of Reh cells after transfection with shRNA targeting CBFA2T3 and/or constitutively active IKKÎ²(EE)

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