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Mus musculus

ABSTRACT: Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells

PROVIDER: PRJNA138941 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR353721.fastq.gz	Fastqsanger.gz
	SRR353722.fastq.gz	Fastqsanger.gz
	SRR353723.fastq.gz	Fastqsanger.gz
	SRR353724.fastq.gz	Fastqsanger.gz
	SRR353725.fastq.gz	Fastqsanger.gz

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Testis expression in Mus musculus domesticus x Mus musculus musculus hybrid zone mice

2014-12-04 | GSE61417 | GEO

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Testis expression in Mus musculus domesticus WSB/EiJ x Mus musculus musculus PWD/PhJ F2 hybrids

Project description:To characterize the genetic basis of hybrid male sterility in detail, we used a systems genetics approach, integrating mapping of gene expression traits with sterility phenotypes and QTL. We measured genome-wide testis expression in 305 male F2s from a cross between wild-derived inbred strains of M. musculus musculus and M. m. domesticus. We identified several thousand cis- and trans-acting QTL contributing to expression variation (eQTL). Many trans eQTL cluster into eleven ‘hotspots,’ seven of which co-localize with QTL for sterility phenotypes identified in the cross. The number and clustering of trans eQTL - but not cis eQTL - were substantially lower when mapping was restricted to a ‘fertile’ subset of mice, providing evidence that trans eQTL hotspots are related to sterility. Functional annotation of transcripts with eQTL provides insights into the biological processes disrupted by sterility loci and guides prioritization of candidate genes. Using a conditional mapping approach, we identified eQTL dependent on interactions between loci, revealing a complex system of epistasis. Our results illuminate established patterns, including the role of the X chromosome in hybrid sterility.

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Project description:High-resolution enzymatic mapping of genomic 5-hydroxymethylcytosine in mouse embryonic stem cells

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Project description:Genome-wide mapping of PRDM15 binding in pluripotent mouse Embryonic Stem Cells (mESCs)

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Testis expression in Mus musculus domesticus WSB/EiJ x Mus musculus musculus PWD/PhJ F2 hybrids

Project description:To characterize the genetic basis of hybrid male sterility in detail, we used a systems genetics approach, integrating mapping of gene expression traits with sterility phenotypes and QTL. We measured genome-wide testis expression in 305 male F2s from a cross between wild-derived inbred strains of M. musculus musculus and M. m. domesticus. We identified several thousand cis- and trans-acting QTL contributing to expression variation (eQTL). Many trans eQTL cluster into eleven M-bM-^@M-^Xhotspots,M-bM-^@M-^Y seven of which co-localize with QTL for sterility phenotypes identified in the cross. The number and clustering of trans eQTL - but not cis eQTL - were substantially lower when mapping was restricted to a M-bM-^@M-^XfertileM-bM-^@M-^Y subset of mice, providing evidence that trans eQTL hotspots are related to sterility. Functional annotation of transcripts with eQTL provides insights into the biological processes disrupted by sterility loci and guides prioritization of candidate genes. Using a conditional mapping approach, we identified eQTL dependent on interactions between loci, revealing a complex system of epistasis. Our results illuminate established patterns, including the role of the X chromosome in hybrid sterility. Gene expression was measured in whole testis in males aged 70(M-BM-15) days. Samples include 294 WSB/EiJ x PWD/PhJ F2s, 11 PWD/PhJ x WSB/EiJ F2s, 8 WSB/EiJ, 8 PWD/PhJ, 6 PWD/PhJ x WSB/EiJ F1s and 4 WSB/EiJ x PWD/PhJ F1s.

2014-05-01 | E-GEOD-54089 | biostudies-arrayexpress

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Project description:Genome-wide mapping of Klf4 and Klf5 in pluripotent mouse embryonic stem cells (ESCs)

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Project description:Genome-wide mapping of open chromatin in mouse embryonic stem cell

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Project description:Genome-wide mapping of miRNAs expressed in embryonic stem cells and pluripotent stem cells generated by different reprogramming strategies

| PRJNA230521 | ENA

Testis expression in Mus musculus domesticus x Mus musculus musculus hybrid zone mice

Project description:We collected whole genome testis expression data from hybrid zone mice. We integrated GWAS mapping of testis expression traits and low testis weight to gain insight into the genetic basis of hybrid male sterility. Gene expression was measured in whole testis from males aged 62-86 days. Samples include 190 first generation lab-bred male offspring of wild-caught mice from the Mus musculus musculus - M. m. domesticus hybrid zone.

2014-12-04 | E-GEOD-61417 | biostudies-arrayexpress

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