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Next-generation mRNA sequencing of MKL-1 Merkel cell carcinoma cells treated with EPZ011989

ABSTRACT: Next-generation mRNA sequencing of MKL-1 Merkel cell carcinoma cells treated with EPZ011989

PROVIDER: PRJNA776722 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR16674813_1.fastq.gz	Fastqsanger.gz
	SRR16674813_2.fastq.gz	Fastqsanger.gz
	SRR16674814_1.fastq.gz	Fastqsanger.gz
	SRR16674814_2.fastq.gz	Fastqsanger.gz
	SRR16674815_1.fastq.gz	Fastqsanger.gz

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Next-generation mRNA sequencing of MKL-1 Merkel cell carcinoma cells treated with EPZ011989

Project description:The overarching goal of this study was to characterize mechanisms of sensitivity to EZH2 inhibitors in Merkel cell carcinoma cell lines. To that end, early and late transcriptional changes were profiled in MKL-1 cells treated with the EZH2 inhibitor EPZ011989 for 6 or 12 days.

2022-03-07 | GSE186896 | GEO

Next-generation mRNA sequencing of MKL-1 Merkel cell carcinoma cells expressing wild-type or mutant YAP or TAZ

Project description:The overarching goal of this study was to characterize TEAD-dependent transcriptional effects of YAP and TAZ in Merkel cell carcinoma cells. To that end, transcriptional profiling was performed on MKL-1 cells induced to express GFP, wild-type YAP or TAZ, or YAP S94A or TAZ F52A for 3 days.

2023-01-29 | GSE189054 | GEO

Next-generation sequencing of CUT&RUN of MKL-1 Merkel cell carcinoma cells treated with EPZ011989

Project description:The overarching goal of this study was to characterize mechanisms of sensitivity to EZH2 inhibitors in Merkel cell carcinoma cell lines. To that end, CUT&RUN for H3K27me3 and H3K4me3 histone marks was performed in MKL-1 cells treated with the EZH2 inhibitor EPZ011989 for 6 days.

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Next-generation sequencing of CUT&RUN of MKL-1 Merkel cell carcinoma cells treated with EPZ011989

Project description:Next-generation sequencing of CUT&RUN of MKL-1 Merkel cell carcinoma cells treated with EPZ011989

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Next-generation mRNA sequencing of MKL-1 Merkel cell carcinoma cells expressing wild-type or mutant YAP or TAZ

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MKL-1 Merkel cell carcinoma cells treated with EPZ011989

Project description:MKL-1 Merkel cell carcinoma cells treated with EPZ011989

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Characterization of the Merkel cell carcinoma miRNome

Project description:MicroRNAs have been implicated in various skin cancers, including melanoma, squamous cell carcinoma, and basal cell carcinoma; however, the expression of microRNAs and their role in Merkel cell carcinoma (MCC) have yet to be explored in depth. To identify microRNAs specific to MCC (MCC-miRs), next-generation sequencing (NGS) of small RNA libraries was performed on different tissue samples including MCCs, other cutaneous tumors, and normal skin. Comparison of the profiles identified several microRNAs upregulated and downregulated in MCC. For validation, their expression was measured via qRT-PCR in a larger group of MCC and in a comparison group of non-MCC cutaneous tumors and normal skin. Eight microRNAs were upregulated in MCC: miR-502-3p, miR-9, miR-7, miR-340, miR-182, miR-190b, miR-873, and miR-183. Three microRNAs were downregulated: miR-3170, miR-125b, and miR-374c. Many of these MCC-miRs, with the miR-183/182/96a cistron in particular, have connections to tumorigenic pathways implicated in MCC pathogenesis. In situ hybridization confirmed that the highly expressed MCC-miR, miR-182, is localized within tumor cells. Furthermore, NGS and qRT-PCR reveals that several of these MCC-miRs are highly expressed in the patient-derived MCC cell line, MS-1. These data indicate that we have identified a set of MCC-miRs with high implications for MCC research. To identify microRNAs specific to Merkel cell carcinoma (MCC) next-generation sequencing (NGS) of small RNA libraries was performed on different tissue samples including MCCs, other cutaneous tumors, and normal skin

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Comparative Transcriptional Profiling of human Merkel cells and Merkel Cell Carcinoma

Project description:Merkel cell carcinoma is supposed to be derived from Merkel cells after infection by Merkel cell polyomavirus (MCV) and other poorly known events. A transcriptional profiling with cDNA microarrays was performed on cells from MCV+ Merkel cell carcinomas and isolated normal Merkel cells. This microarray revealed numerous significantly upregulated genes and down-regulated genes. The extensive list of genes identified in these experiments provides a large body of potentially valuable information of Merkel cell carcinoma carcinogenesis and could represent a source of potential targets for cancer therapy. Two-conditions experiment, MCV vs Normal Merkel Cell. Biological replicates : 4 MCV (Cy5), 1 control = pool of Normal Merkel cells from 3 liftings

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Microarray analysis of Merkel cell carcinoma (MCC) tumors, small cell lung cancer (SCLC) tumors, and MCC cell lines

Project description:When using cell lines to study cancer, phenotypic similarity to the original tumor is paramount. Yet, little has been done to characterize how closely Merkel cell carcinoma (MCC) cell lines model native tumors. To determine their similarity to MCC tumor samples, we characterized MCC cell lines via gene expression microarrays. Using whole transcriptome gene expression signatures and a computational bioinformatic approach, we identified significant differences between variant cell lines (UISO, MCC13, and MCC26) and fresh frozen MCC tumors. Conversely, the classic WaGa and Mkl-1 cell lines more closely represented the global transcriptome of MCC tumors. When compared to publicly available cancer lines, WaGa and Mkl-1 cells were similar to other neuroendocrine tumors, but the variant cell lines were not. WaGa and Mkl-1 cells grown as xenografts in mice had histological and immunophenotypical features consistent with MCC, while UISO xenograft tumors were atypical for MCC. Spectral karyotyping and short tandem repeat analysis of the UISO cells matched the original cell line's description, ruling out contamination. Our results validate the use of transcriptome analysis to assess the cancer cell line representativeness and indicate that UISO, MCC13, and MCC26 cell lines are not representative of MCC tumors, whereas WaGa and Mkl-1 more closely model MCC. RNA was extracted from MCC cell lines and MCC and SCLC tumor samples and hybridized to Affymetrix microarrays for transcriptome profiling.

2014-12-23 | E-GEOD-50451 | biostudies-arrayexpress

LSD1 and BRD9 transcriptome analysis in the MKL-1 Merkel cell carcinoma (MCC) cell line

Project description:LSD1 and BRD9 transcriptome analysis in the MKL-1 Merkel cell carcinoma (MCC) cell line

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