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The DNA methylation profiles of liver tissues (normal, non-tumor and tumor tisuues) of F2 males of C3H mice born to F1 mice gestationally exposed to arsenite

ABSTRACT: The DNA methylation profiles of liver tissues (normal, non-tumor and tumor tisuues) of F2 males of C3H mice born to F1 mice gestationally exposed to arsenite

PROVIDER: PRJNA509683 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR8314830_1.fastq.gz	Fastqsanger.gz
	SRR8314830_2.fastq.gz	Fastqsanger.gz
	SRR8314831_1.fastq.gz	Fastqsanger.gz
	SRR8314831_2.fastq.gz	Fastqsanger.gz
	SRR8314832_1.fastq.gz	Fastqsanger.gz

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The DNA methylation profiles of liver tissues (normal, non-tumor and tumor tisuues) of F2 males of C3H mice born to F1 mice gestationally exposed to arsenite

Project description:Background: Previously, we showed that gestational arsenite (As) exposure of F0 females increases hepatic tumors in the F2 males in C3H mice. However, the mechanisms have not yet been clarified. Methods: We detected genome wide site-specific DNA methylation by using reduced representative bisulfite sequence (RRBS) method. We used the data uploaded here and those with GSE Series accession number GSE111420 (CCN and CCTt) to detect differential methyrated cytosines between control groups and arsenite groups. Results: We clarified that DNA methylation of Tmem54 and Cd74 around TSS were downregulated and their gene expressions were accordingly upregulated in the liver tumor tissues of F2 males of arsenite group. Conclusions: Our study proposes novel DNA methylation dependent pathways which increase liver tumors in the F2 males of arsenite group.

2019-08-20 | GSE123749 | GEO

Gene expression profiles of liver tissues (normal, non-tumor and tumor tisuues) of F2 males of C3H mice born to F1 mice gestationally exposed to arsenite

Project description:Gene expression profiles of liver tissues (normal, non-tumor and tumor tisuues) of F2 males of C3H mice born to F1 mice gestationally exposed to arsenite

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Gene expression profiles of liver tissues (normal, non-tumor and tumor tisuues) of F2 males of C3H mice born to F1 mice gestationally exposed to arsenite

Project description:We have employed microarray analysis to detect gene expression changes that were affected in the F2 mice of arsenite group.

2019-08-20 | GSE123737 | GEO

Gene expression profiling in liver normal and tumor tissues in C3H mice

Project description:We have employed microarray analysis to detect tumor-related genes of liver tissues in C3H mice

2018-04-04 | GSE104627 | GEO

DNA methylation changes involved in the tumor increase in F2 males born to gestationally arsenite-exposed F1 male mice.

Project description:Multigenerational adverse effects from the environment such as nutrition and chemicals are among important concerns in environmental health issues. Previously, we have found that arsenite exposure of only F0 females during their pregnancy increases hepatic tumors in the F2 males in C3H mice. In the current study, we investigated the association of DNA methylation with the hepatic tumor increase in the F2 males of the arsenite group. Reduced-representation bisulfite sequencing analysis newly identified that DNA methylation levels of regions around the transcriptional start sites of Tmem54 and Cd74 were decreased and the expression of these genes were significantly increased in the hepatic tumors of F2 males of the arsenite group. The associations between DNA methylation in these regions and gene expression changes were confirmed by treatment of murine hepatoma cell lines and hepatic stellate cell line with 5-aza-2'-deoxycytidine. Overexpression of Cd74 in Hepa1c1c7 cells increased Trib3 expression and suppressed the expression of tumor suppressor genes Id3 and Atoh8. Human database analysis using the Cancer Genome Atlas indicated that TMEM54, CD74, and TRIB3 were significantly increased and that ATOH8 was decreased in hepatocellular carcinoma. The data also showed that high expression of TMEM54 and TRIB3 and low expression of ATOH8 were associated with poor survival. These results suggested that an increase in Tmem54 and Cd74 expression via DNA methylation reduction was involved in the tumor increase in the F2 male offspring by gestational arsenite exposure of F0 females. This study also suggested that genes downstream of Cd74 were involved in tumorigenesis.

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Lungs from ovalbumen sensitized and challenged C3H mice

Project description:Profile of gene expression in lungs of ovalbumen sensitized and challenged C3H mice. Keywords = C3H, lung, ovalbumen, mouse, Mus musculus, mice Keywords: parallel sample

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C3H-HeH

Project description:C3H-HeH

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Gene expression profiling in liver normal and tumor tissues in C3H mice

Project description:Gene expression profiling in liver normal and tumor tissues in C3H mice

| PRJNA413369 | ENA

Inter-strain epigenomic profiling reveals a candidate IAP master copy in C3H mice

Project description:Insertions of endogenous retroviruses cause a significant fraction of mutations in inbred mice but not all strains are equally susceptible. Notably, most new Intracisternal A particle (IAP) ERV mutagenic insertions have occurred in C3H mice. We show here that strain-specific insertionally polymorphic IAPs have accumulated faster in C3H/HeJ mice relative to other strains and that IAP transcript levels are higher in C3H/HeJ embryonic stem (ES) cells compared to other ES cells. To investigate the mechanism for high IAP activity in C3H mice, we identified 61 IAP copies in C3H/HeJ ES cells enriched for H3K4me3 (a mark of active promoters) and, among those tested, all are unmethylated in C3H ES cells. Notably, 13 of the 61 are specific to C3H/HeJ and are members of the non-autonomous 1Δ1 IAP subfamily that is responsible for nearly all new insertions in C3H. One copy is full length with intact open reading frames and hence potentially capable of providing proteins in trans to other 1Δ1 elements. This potential “master copy” is present in other strains, including 129, but its 5’ long terminal repeat (LTR) is methylated in 129 ES cells. Thus, the unusual IAP activity in C3H may be due to reduced epigenetic repression coupled with the presence of a master copy.

2020-06-10 | GSE152208 | GEO

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Project description:The C3H/HeJ grafted model of alopecia areata was used to determine the efficacy of systemic baricitinib at preventing alopecia or treating established disease. The efficacy of topical baricitinib at treating established alopecia in the C3H/HeJ grafted model was also assessed. Microarrays were performed on skin RNA at week 0 and week 12 after starting treatment in all models.

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