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Effect of genetic modification of extracellular matrix-related genes on B16F1 melanoma progression

ABSTRACT: Effect of genetic modification of extracellular matrix-related genes on B16F1 melanoma progression

PROVIDER: PRJNA1130440 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR29665348_1.fastq.gz	Fastqsanger.gz
	SRR29665348_2.fastq.gz	Fastqsanger.gz
	SRR29665349_1.fastq.gz	Fastqsanger.gz
	SRR29665349_2.fastq.gz	Fastqsanger.gz
	SRR29665350_1.fastq.gz	Fastqsanger.gz

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Effect of genetic modification of extracellular matrix-related genes on B16F1 melanoma progression

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Transcription profiling of mouse untreated melanoma B16F1 cells vs control

Project description:B16F1 cells are a good model to study cell motility and cytoskeletal organization. In our lab, a combination of microscopy and gene silencing was used to approach the problem. Having gene expression profiles for B16F1 would facilitate and support subsequent gene silencing by RNAi as well as potentially identify new molecular players. We used microarrays to detail the expression profiles in cells cultured in regular conditions. These profile will serve as a reference point for further studies. Experiment Overall Design: Three biological replicats of control untreated B16F1 mouse melanoma cells were processed on mouse GeneChip arrays 430A. Reliability, variability, and reprodusibility of data generated by microarrays were addressed.

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Comparison of transcriptomic profile of the murine B16F1-GFP-M melanoma cells with the derived dormant B16F1-GFP-D, B16F1-GFP-DB#1, B16F1-GFP-DB#2, B16F1-GFP-DB#3 melanoma cells

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Comparison of transcriptomic profile of the murine B16F1-GFP-M melanoma cells with the derived dormant B16F1-GFP-D, B16F1-GFP-DB#1, B16F1-GFP-DB#2, B16F1-GFP-DB#3 melanoma cells

Project description:Comparison of transcriptomic profile of the murine B16F1-GFP-M melanoma cells with the derived dormant B16F1-GFP-D, B16F1-GFP-DB#1, B16F1-GFP-DB#2, B16F1-GFP-DB#3 melanoma cells

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MITF reprograms the extracellular matrix and focal adhesion in melanoma

Project description:MITF reprograms the extracellular matrix and focal adhesion in melanoma

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Human melanoma cells over-express Extracellular Matrix 1 (ECM1) which is regulated in part by TFAP2C

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Project description:To assess the effects of permanent loss of MITF in melanoma cells, we used the clustered regularly interspaced short palindromic repeats (CRISPR)-Cas9 technique to generate MITF knockout (KO) cell lines in the human hypo-tetraploid SkMel28 melanoma cell line (containing four copies of MITF). We targeted exon 6 (containing the DNA binding domain) of MITF the resulting isogenic cell line is hereafter referred to as ΔMITF-X6. We also performed siRNA mediated transient knock down of MITF along with control siCTRL in 501Mel cells. Furthermore, we used a stable doxycycline inducible over-expression cell line containing FLAG tagged MITF and a control cells with empty vector FLAG in A375P. From our RNA-sequencing studies we found that MITF plays a critical role as a repressor of extracellular matrix gene expression and is actively involved in shaping the microenvironment of melanoma cells in a cell-autonomous manner.

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Small RNAseq for B16F1 cells exposed to BrdU or L-Tyr

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