GametesOmics: A Comprehensive Multi-Omics Database for Exploring the Gametogenesis in Humans and Mice

An, J.; Wang, J.; Kong, S.; Song, S.; Chen, W.; Yuan, P.; He, Q.; Chen, Y.; Li, Y.; Yang, Y.; Wang, W.; Li, R.; Yan, L.; Yan, Z.; Qiao, J.

doi:10.1101/2023.09.05.556316

bioRxiv · 10.1101/2023.09.05.556316

GametesOmics: A Comprehensive Multi-Omics Database for Exploring the Gametogenesis in Humans and Mice

An, J.·Wang, J.·Kong, S.·Song, S.·Chen, W.·Yuan, P.·He, Q.·Chen, Y.·Li, Y.·Yang, Y.·Wang, W.·Li, R.·Yan, L.·Yan, Z.·Qiao, J.

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Abstract

Gametogenesis plays an important role in the reproduction and evolution of species. The transcriptomic and epigenetic alterations in this process can influence the reproductive capacity, fertilization, and embryonic development. The rapidly increasing single-cell studies have provided valuable multi-omics resources. However, data from different layers and sequencing platforms have not been uniformed and integrated, which greatly limits their use for exploring the molecular mechanisms that underlie oogenesis and spermatogenesis. Here, we developed GametesOmics, a comprehensive database that integrated the data of gene expression, DNA methylation, and chromatin accessibility during oogenesis and spermatogenesis in humans and mice. GametesOmics provides a user-friendly website and various tools, including Search and Advanced Search for querying the expression and epigenetic modification of each gene; Analysis Tools with Differentially Expressed Gene (DEG) analysis for identifying DEGs, Correlation analysis for demonstrating the genetic and epigenetic changes, Visualization for displaying single-cell cluster and screening marker genes as well as master transcription factors (TFs), and MethylView for studying the genomic distribution of epigenetic modifications. GametesOmics also provides Genome Browser and Orthologs for tracking and comparing gene expression, DNA methylations, as well as chromatin accessibilities between humans and mice. GametesOmics offers a comprehensive resource for biologists and clinicians to decipher the cell fate transition in germ cell development, and can be accessed at http://gametesomics.cn/.

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An, J., Wang, J., Kong, S., Song, S., Chen, W., Yuan, P., He, Q., Chen, Y., Li, Y., Yang, Y., Wang, W., Li, R., Yan, L., Yan, Z., Qiao, J.. 2023-09-06. GametesOmics: A Comprehensive Multi-Omics Database for Exploring the Gametogenesis in Humans and Mice. https://doi.org/10.1101/2023.09.05.556316

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