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Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution [SNP]

ABSTRACT: Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution [SNP]

PROVIDER: PRJNA339583 | ENA |

REPOSITORIES: ENA

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Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution [SNP]

2016-08-20 | GSE85867 | GEO

Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution.

Project description:How do epigenetic modifications change across species and how do these modifications affect evolution? These are fundamental questions at the forefront of our evolutionary epigenomic understanding. Our previous work investigated human and chimpanzee brain methylomes, but it was limited by the lack of outgroup data which is critical for comparative (epi)genomic studies. Here, we compared whole genome DNA methylation maps from brains of humans, chimpanzees and also rhesus macaques (outgroup) to elucidate DNA methylation changes during human brain evolution. Moreover, we validated that our approach is highly robust by further examining 38 human-specific DMRs using targeted deep genomic and bisulfite sequencing in an independent panel of 37 individuals from five primate species. Our unbiased genome-scan identified human brain differentially methylated regions (DMRs), irrespective of their associations with annotated genes. Remarkably, over half of the newly identified DMRs locate in intergenic regions or gene bodies. Nevertheless, their regulatory potential is on par with those of promoter DMRs. An intriguing observation is that DMRs are enriched in active chromatin loops, suggesting human-specific evolutionary remodeling at a higher-order chromatin structure. These findings indicate that there is substantial reprogramming of epigenomic landscapes during human brain evolution involving noncoding regions.

| S-EPMC5062329 | biostudies-literature

Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution [SNP]

Project description:We report the application of DNA sequencing technology for high-throughput sequencing of mix candidate genes' PCR products totally 38 based on DNA from human, chimpanzee, gibbon, macaque and crab eating macaque profrontal cortex tissues. Mix candidate genes PCR products from 1 tissues, 22 individual humans, 2 individual chimpanzees, 1 individual gibbons,15 individual rhesus macaques and 5 crab eating macaques were sequenced by using MiSeq

2016-08-20 | E-GEOD-85867 | biostudies-arrayexpress

Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution

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

2016-08-20 | GSE85868 | GEO

Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution

Project description:Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution

| PRJNA339582 | ENA

Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution

Project description:We report the application of DNA sequencing technology for high-throughput sequencing of mix bis-PCR products totally 38 based on bisulfate treated DNA from human, chimpanzee, gibbon, macaque and crab eating macaque profrontal cortex tissues. Mix bisulfate PCR products from 1 tissues, 23 individula humans, 2 individual chimpanzees, 1 individual gibbons, 7 individual rhesus macaques and 5 crab eating macaques were sequenced by using MiSeq

2016-08-16 | E-GEOD-76788 | biostudies-arrayexpress

Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2016-08-20 | E-GEOD-85868 | biostudies-arrayexpress

Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution [methylation]

2016-08-16 | GSE76788 | GEO

Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution [methylation]

Project description:Comparative Methylome Analyses Identify Epigenetic Regulatory Loci of Human Brain Evolution [methylation]

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Transcription factor-SNP interactome for colorectal cancer risk loci

Project description:A core task to understand the consequences of non-coding single nucleotide polymorphisms (SNP) is to identify their genotype specific binding of transcription factor (TF). Here, we generate a large-scale TF-SNP interaction map for a selection of 116 colorectal cancer (CRC) risk loci and validated TF binding to 10 putatively functional SNPs. Our data further revealed TF binding complexity adjacent to the 116 risk loci, adding an additional layer of understanding to regulatory networks associated with CRC relevant loci.

2017-02-23 | PXD004435 | Pride

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