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To survey ncRNAs that associate with Lsd1 or Bre1 complexes through RIP experiments

ABSTRACT: To survey ncRNAs that associate with Lsd1 or Bre1 complexes through RIP experiments

PROVIDER: PRJNA1025898 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR26321116.fastq.gz	Fastqsanger.gz
	SRR26321117.fastq.gz	Fastqsanger.gz
	SRR26321118.fastq.gz	Fastqsanger.gz
	SRR26321119.fastq.gz	Fastqsanger.gz
	SRR26321120.fastq.gz	Fastqsanger.gz

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To survey ncRNAs that associate with Lsd1 or Bre1 complexes through RIP experiments

Project description:These paired RIP experiments were designed to determine specific ncRNAs that associated with either Lsd1 (Lysine specific demethylase 1) complex or Bre1.

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Project description:Tumor-initiating cells (TICs) play a critical role in glioblastoma (GBM) maintenance being responsible for its heterogeneity and resistance to standard therapy. A step toward clinical translation includes GBM TIC targeting. Among the molecules tested for GBM treatment, are those targeting epigenetic modifiers. By using patient-derived TICs and xenograft orthotopic models, we identified Lysine-specific histone demethylase 1A (LSD1) as a potentially druggable target in GBM. LSD1-directed therapy by means of the selective, orally bioavailable and brain penetrant inhibitor DDP_38003 effectively impairs growth, stem-like features and tumorigenic potential of GBM TICs. Our findings point to LSD1 as a positive regulator of Activating Transcription Factor 4 (ATF4)-dependent response in all stress conditions arising during tumor growth and therapy. Thus, through the downregulation of either ATF4 and its adaptive genes, LSD1 targeting is likely a promising strategy to hit GBM TICs by counteracting the ATF4-mediated adaptation to stress.

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Expression of 50-500nt ncRNAs in silkworm Bombyx mori during development

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Genome-wide studies of histone Me2 SWIRM and polyamine oxidase domain homologues of mammalian LSD1

Project description:In order to gain a more global view of the activity of histone demethylases we report here studies of the two fission yeast SWIRM and polyamine oxidase domain homologues of mammalian LSD1. Consistent with previous work (Nicolas et al., 2006) we find that the two S. pombe proteins, which we name Swm1 and Swm2 (after SWIRM1 and SWIRM2), associate together in a complex. We find that this complex specifically demethylates lysine 9 in histone H3 (H3K9) to up- and down-regulate expression of different genes. Using chromatin-immunoprecipitation, to isolate fragments of chromatin containing either H3K4me2 or H3K9me2, and DNA microarray analysis (ChIP-chip), we have studied genome-wide changes in patterns of histone methylation, and their correlation with gene expression, upon deletion of the swm1+ gene. Using hyper-geometric probability comparisons we uncover links between lysine specific demethylases, the histone deacetylase Clr6, and the chromatin remodeller Hrp1. Keywords: chip on chip Genome-wide studies of histone demethylation catalysed by the fission yeast SWIRM and polyamine oxidase domain homologues of mammalian LSD1

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