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Gallus gallus

ABSTRACT: Examination of whole genome DNA methylation status of two chicken breeds

OTHER RELATED OMICS DATASETS IN: GSE21170

PROVIDER: PRJNA129665 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR039224.fastq.gz	Fastqsanger.gz
	SRR039225.fastq.gz	Fastqsanger.gz
	SRR039226.fastq.gz	Fastqsanger.gz
	SRR039227.fastq.gz	Fastqsanger.gz

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Gallus gallus

Project description:Examination of whole genome gene expression profiles of two chicken breeds

| PRJNA129667 | ENA

Examination of whole genome DNA methylation status of two chicken breeds

Project description:We report the genome-wide DNA methylation mapping of chicken by methylated DNA immunoprecipitation following by highthroughput sequencing, and the gene expression profile of chicken by RNA-seq. For meDIP-seq, about 17,202,074 to 27,501,760 reads were generated for the tissue and liver tissues of the red jungle fowl and the avian broiler each. We found that compared with the red jungle fowl, DNA methylation in muscle tissue of the avian broiler, showed dramatically decline on a genome-wide scale. Furthermore, the length of the highly methylated regions (HMRs) has become shorter in the avian broiler, which has suffered intense artificial selection. In addition to the global changes in DNA methylation, transcriptome-wide analysis of the two breeds of chicken revealed that the patterns of gene expression in the domestic chicken have undergone a specific bias towards a pattern that is more suited to human-made environments with variable expression in certain gene functions, such as immune response and fatty acid metabolism. Our results demonstrated a potential role of epigenetic modification in animal domestication besides the genetic variations. Examination of whole genome DNA methylation status in liver and muscle of two chicken breeds.

2010-04-02 | E-GEOD-21167 | biostudies-arrayexpress

Examination of whole genome gene expression profiles of two chicken breeds

Project description:We report the genome-wide DNA methylation mapping of chicken by methylated DNA immunoprecipitation following by highthroughput sequencing, and the gene expression profile of chicken by RNA-seq. For meDIP-seq, about 17,202,074 to 27,501,760 reads were generated for the tissue and liver tissues of the red jungle fowl and the avian broiler each. We found that compared with the red jungle fowl, DNA methylation in muscle tissue of the avian broiler, showed dramatically decline on a genome-wide scale. Furthermore, the length of the highly methylated regions (HMRs) has become shorter in the avian broiler, which has suffered intense artificial selection. In addition to the global changes in DNA methylation, transcriptome-wide analysis of the two breeds of chicken revealed that the patterns of gene expression in the domestic chicken have undergone a specific bias towards a pattern that is more suited to human-made environments with variable expression in certain gene functions, such as immune response and fatty acid metabolism. Our results demonstrated a potential role of epigenetic modification in animal domestication besides the genetic variations. Examination of whole genome gene expression profiles in liver and muscle tissues of two chicken breeds.

2010-04-02 | E-GEOD-21169 | biostudies-arrayexpress

Whole-genome bisulfite sequencing in the whole blood of three dog breeds

Project description:DNA methylation patterns reflect the status of individual tissues, such as cell composition, age, and the local environment in mammals. This experiment addressed the DNA methylation landscape in the dog genome across three breeds: Shiba, Dachshund (Miniature), and Poodle (Toy). A comprehensive profile of whole-genome DNA methylation from the whole blood of three dog breeds was generated using whole-genome bisulfite sequencing.

2024-10-18 | GSE252908 | GEO

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Project description:Whole genome sequencing of common chicken breeds in Malaysia

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Project description:chicken Genome DNA methylation sequencing

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Breed DNA-methylation in young offspring chicken with custom NimbleGen tiling array

Project description:To analyze DNA-methylation differences between two chicken breeds

2011-05-19 | E-MTAB-649 | biostudies-arrayexpress

Breed DNA-methylation in adult parent chicken with custom NimbleGen tiling array

Project description:To analyze DNA-methylation differences between two chicken breeds