Dataset Information

Genome-wide analysis of epigenetic dynamics across human developmental stages and tissues.

ABSTRACT:

Background

Epigenome is highly dynamic during the early stages of embryonic development. Epigenetic modifications provide the necessary regulation for lineage specification and enable the maintenance of cellular identity. Given the rapid accumulation of genome-wide epigenomic modification maps across cellular differentiation process, there is an urgent need to characterize epigenetic dynamics and reveal their impacts on differential gene regulation.

Methods

We proposed DiffEM, a computational method for differential analysis of epigenetic modifications and identified highly dynamic modification sites along cellular differentiation process. We applied this approach to investigating 6 epigenetic marks of 20 kinds of human early developmental stages and tissues, including hESCs, 4 hESC-derived lineages and 15 human primary tissues.

Results

We identified highly dynamic modification sites where different cell types exhibit distinctive modification patterns, and found that these highly dynamic sites enriched in the genes related to cellular development and differentiation. Further, to evaluate the effectiveness of our method, we correlated the dynamics scores of epigenetic modifications with the variance of gene expression, and compared the results of our method with those of the existing algorithms. The comparison results demonstrate the power of our method in evaluating the epigenetic dynamics and identifying highly dynamic regions along cell differentiation process.

SUBMITTER: Zhang X

PROVIDER: S-EPMC6457072 | biostudies-literature | 2019 Apr

REPOSITORIES: biostudies-literature

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Publications

Genome-wide analysis of epigenetic dynamics across human developmental stages and tissues.

Zhang Xia X Gan Yanglan Y Zou Guobing G Guan Jihong J Zhou Shuigeng S

BMC genomics 20190404 Suppl 2

<h4>Background</h4>Epigenome is highly dynamic during the early stages of embryonic development. Epigenetic modifications provide the necessary regulation for lineage specification and enable the maintenance of cellular identity. Given the rapid accumulation of genome-wide epigenomic modification maps across cellular differentiation process, there is an urgent need to characterize epigenetic dynamics and reveal their impacts on differential gene regulation.<h4>Methods</h4>We proposed DiffEM, a c ...[more]

PMID: 30967107

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Dataset Information

Genome-wide analysis of epigenetic dynamics across human developmental stages and tissues.

Background

Methods

Results

Publications

Genome-wide analysis of epigenetic dynamics across human developmental stages and tissues.

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