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Next generation sequencing quantitatively analyzes transcriptomes of primary CLL cells co-culture with Wild Type or prkcb-/- bone marrow mesenchymal stromal cells

ABSTRACT: Next generation sequencing quantitatively analyzes transcriptomes of primary CLL cells co-culture with Wild Type or prkcb-/- bone marrow mesenchymal stromal cells

PROVIDER: PRJNA490359 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7819600.fastq.gz	Fastqsanger.gz
	SRR7819610.fastq.gz	Fastqsanger.gz
	SRR7819620.fastq.gz	Fastqsanger.gz
	SRR7819630.fastq.gz	Fastqsanger.gz
	SRR7819601.fastq.gz	Fastqsanger.gz

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Next generation sequencing quantitatively analyzes transcriptomes of primary CLL cells co-culture with Wild Type or prkcb-/- bone marrow mesenchymal stromal cells

Project description:RNA-seq profiles of patient-derived primary CLL cells when co-cultured with bone marrow derived mesenchymal stromal cells (BMSC) from either wildtype or Prkcb-/- mice, in normal condition or under venetoclax (ABT-199) treatment.

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Next generation sequencing quantitatively analyzes transcriptomes of bone marrow derived mesenchymal stromal cells from Wild Type or prkcb-/- mice

Project description:RNA-seq profiles of Wild Type or Prkcb-/- mouse bone marrow derived mesenchymal stromal cells (BMSCs), either monocultured or co-cultured with primary CLL cells.

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Next generation sequencing quantitatively analyzes transcriptomes of primary CLL cells tranfected with non-specific control (NSC) or ZAP-70 siRNA

Project description:Next generation sequencing quantitatively analyzes transcriptomes of primary CLL cells tranfected with non-specific control (NSC) or ZAP-70 siRNA

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Next generation sequencing quantitatively analyzes transcriptomes of bone marrow derived mesenchymal stromal cells from Wild Type or prkcb-/- mice

Project description:Next generation sequencing quantitatively analyzes transcriptomes of bone marrow derived mesenchymal stromal cells from Wild Type or prkcb-/- mice

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Stromal cells support the survival of human primary chronic lymphocytic leukemia (CLL) cells

Project description:In chronic lymphocytic leukemia (CLL), the tumor cells receive survival support from stromal cells through direct cell contact, soluble factors and extracellular vesicles. The tyrosine protein kinase Lyn, is aberrantly expressed in the malignant and stromal cells in CLL tissue. We therefore studied the role of Lyn in the EV-based communication and tumor support. We compared the Lyn-dependent EV release, uptake and functionality using Lyn-proficient and deficient stromal cells and primary CLL cells. Lyn-proficient cells caused a significantly higher EV release and EV uptake as compared to Lyn-deficient ones. Also, they induced stronger support of primary CLL cells. Proteomic comparison of the EVs from Lyn-proficient and deficient stromal cell highlighted 72 significantly differentially expressed proteins, many of which belonging to the extracellular matrix organization, such as collagen, nidogen, fibronectin and endosialin (CD248). CD248, a marker of certain tumors and of cancer associated fibroblast (CAF) was significantly depleted in Lyn-deficient HS-5 cells. A knockdown of CD248 in Lyn+ HS-5 cells resulted in a diminished B-CLL cells survival feeding capacity compared to wildtype or scrambled control cells. The presented data provide preclinical evidence, that the tyrosine kinase Lyn crucially influences the EV-based communication between stromal and primary B-CLL cells by raising the EV release and their concentration of functional molecules, such as endosialin.

2023-01-12 | PXD036932 | Pride

Next generation sequencing quantitatively analyzes transcriptomes of primary CLL cells tranfected with non-specific control (NSC) or ZAP-70 siRNA (+anti-IgM dataset)

Project description:Next generation sequencing quantitatively analyzes transcriptomes of primary CLL cells tranfected with non-specific control (NSC) or ZAP-70 siRNA (+anti-IgM dataset)

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Next generation sequencing quantitatively analyzes transcriptomes of primary CLL cells tranfected with non-specific control (NSC) or ZAP-70 siRNA (-anti-IgM dataset)

Project description:Next generation sequencing quantitatively analyzes transcriptomes of primary CLL cells tranfected with non-specific control (NSC) or ZAP-70 siRNA (-anti-IgM dataset)

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Effect of NF-kappaB activation in bone marrow stromal cells co-cultured with CLL cells

Project description:Tumor cell survival critically depends on heterotypic communication with benign cells in the microenvironment. Here we describe a novel survival signaling pathway activated in stromal cells by contact to B-cells from chronic lymphocytic leukemia (CLL) patients. The expression of PKC-βII and the subsequent activation of NF-κB in bone marrow stromal cells is a prerequisite to support the survival of malignant B-cells. PKC-β knockout mice are insusceptible to CLL-transplantations, underscoring the in vivo significance of the PKC-βII- NF-κB signaling pathway in the tumor microenvironment. Upregulated stromal PKC-βII in biopsies from CLL, breast- and pancreatic- cancer patients suggest that this pathway may commonly be activated in a variety of malignancies. We used microarrays to determine Nemo/ IKK-gamma dependent gene expression changes in bone marrow stromal cells (BMSCs) induced by co-culturing with leukemic B-cells (CLL)

2013-03-08 | GSE36415 | GEO

Effect of NF-kappaB activation in bone marrow stromal cells co-cultured with CLL cells

Project description:Tumor cell survival critically depends on heterotypic communication with benign cells in the microenvironment. Here we describe a novel survival signaling pathway activated in stromal cells by contact to B-cells from chronic lymphocytic leukemia (CLL) patients. The expression of PKC-M-NM-2II and the subsequent activation of NF-M-NM-:B in bone marrow stromal cells is a prerequisite to support the survival of malignant B-cells. PKC-M-NM-2 knockout mice are insusceptible to CLL-transplantations, underscoring the in vivo significance of the PKC-M-NM-2II- NF-M-NM-:B signaling pathway in the tumor microenvironment. Upregulated stromal PKC-M-NM-2II in biopsies from CLL, breast- and pancreatic- cancer patients suggest that this pathway may commonly be activated in a variety of malignancies. We used microarrays to determine Nemo/ IKK-gamma dependent gene expression changes in bone marrow stromal cells (BMSCs) induced by co-culturing with leukemic B-cells (CLL) We compared mouse BMSC cells from Nemo knockout cells (Nemo+CRE) and Nemo wild type cells (Nemo-CRE) co-cultured for 5 days with leukemic B-cells microarray analysis on Affymetrix MG-430_2.0 arrays..

2013-03-08 | E-GEOD-36415 | biostudies-arrayexpress

Next generation sequencing quantitatively analyzes transcriptomes of primary CLL cells tranfected with non-specific control (NSC) or ZAP-70 siRNA (+anti-IgM dataset)

Project description:RNA seq profiles of primary CLL cells transfected with non-specific control (NSC) or ZAP-70 siRNA ± anti-IgM. This submission is +anti-IgM.

2022-04-19 | GSE149021 | GEO

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