DevOmics: an integrated multi-omics database of human and mouse early embryo.

Area of Science:

• Developmental Biology
• Genomics
• Epigenetics

Background:

• Single-cell transcriptomics and epigenomics reveal crucial regulatory mechanisms in early embryo development.
• Existing data lacks integration and unified analysis, hindering research and clinical applications in assisted reproductive technology and preimplantation genetic testing.

Purpose of the Study:

• To establish DevOmics, a comprehensive database integrating transcriptomic and epigenomic regulatory information for human and mouse early embryos.
• To provide unified analytic procedures for investigating molecular mechanisms in early embryonic development.

Main Methods:

• Collected and normalized gene expression, DNA methylation, histone modifications (H3K4me3, H3K9me3, H3K27me3, H3K27ac), chromatin accessibility, and 3D chromatin architecture profiles.
• Included data from six developmental stages: zygote, 2cell, 4cell, 8cell, morula, and blastocyst (ICM, TE) for both human and mouse embryos.
• Developed integrated analysis tools: Search, Advanced Search, Differentially Expressed Genes (DEGs) analysis, allelic explorer, correlation analysis, Genome Browser, and Ortholog.

Main Results:

• DevOmics provides access to multi-layered omics data for early embryonic development.
• Integrated analysis tools enable detailed investigation of gene expression, epigenetic modifications, and their dynamic changes.
• The database facilitates comparative studies between human and mouse embryos.

Conclusions:

• DevOmics offers a user-friendly platform for biologists and clinicians to explore early embryonic development.
• The integrated data and tools advance understanding of molecular regulatory mechanisms in human and mouse embryos.
• Facilitates research in assisted reproduction and preimplantation genetic testing.