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Transcriptomic and Epigenomic Signatures Distinguish High- and Low-Risk Endotypes for Liver Tumor Development [ChIP-Seq]

ABSTRACT: Transcriptomic and Epigenomic Signatures Distinguish High- and Low-Risk Endotypes for Liver Tumor Development [ChIP-Seq]

PROVIDER: PRJNA1139317 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR29936500.fastq.gz	Fastqsanger.gz
	SRR29936600.fastq.gz	Fastqsanger.gz
	SRR29936700.fastq.gz	Fastqsanger.gz
	SRR29936501.fastq.gz	Fastqsanger.gz
	SRR29936601.fastq.gz	Fastqsanger.gz

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Transcriptomic and Epigenomic Signatures Distinguish High- and Low-Risk Endotypes for Liver Tumor Development

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Transcriptomic and Epigenomic Signatures Distinguish High- and Low-Risk Endotypes for Liver Tumor Development [RNA-Seq blood]

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Transcriptomic and Epigenomic Signatures Distinguish High- and Low-Risk Endotypes for Liver Tumor Development [ChIP-Seq]

Project description:The epigenome is a target for environmental exposures, and a potential determinant of inter-individual differences in response. In genetically identical C57Bl/6 mice exposed from gestation to weaning to the endocrine disrupting chemical (EDC) tributyltin (TBT), tumor development later in life varied across multiple cohorts over time and depending on sex and diet. In one cohort where approximately half of TBT-exposed male mice developed tumors at 10 months (Katz, 2020), transcriptomic (RNA-seq) and epigenomic (ChIP-seq) profiling was performed on blood and liver tissue from mice that developed tumors (i.e. “high-risk”) and equivalently exposed mice did not (i.e “low-risk”). Blood transcriptomic signatures separated TBT-exposed from vehicle controls but did not discriminate between animals that developed tumors vs those that did not. However, uninvolved liver tissue of mice with tumors exhibited transcriptomic and epigenomic signatures distinct from liver tissue of mice without tumors and had many features in common with tumors. These high-risk transcriptomic and epigenomic features were also found in 10/26 TBT-exposed mice at 5 months, indicating that this risk signature preceded tumor development. Thus, while early life exposure to TBT exhibits variable penetrance for tumor development, indicating TBT-exposure is not sufficient for tumorigenesis, increased risk for tumor development is linked to epigenomic and transcriptomic reprogramming of the liver induced by this EDC.

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Transcriptomic and Epigenomic Signatures Distinguish High- and Low-Risk Endotypes for Liver Tumor Development [RNA-Seq blood]

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Transcriptomic and Epigenomic Signatures Distinguish High- and Low-Risk Endotypes for Liver Tumor Development [RNA-Seq liver]

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Transcriptomic and Epigenomic Signatures Distinguish High- and Low-Risk Endotypes for Liver Tumor Development

Project description:This SuperSeries is composed of the SubSeries listed below.

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Identification of 3 Endotypes In Pediatric ARDS Using Nasal Transcriptomics-Low Input

Project description:This study used nasal transcriptomic profiling of the inferior turbinate in control and pediatric ARDS subjects to identify endotypes. This data set is for amplified specimens. The study identfied three pediatric ARDS endotypes.

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