Toti: an integrated multi-omics database to decipher the epigenetic regulation of gene expression in totipotent stem cells

2025 · doi:10.1101/2025.01.24.634821
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⚙ AI-generated summary by claude@2026-07, 2026-07-14 ⓘ

The Toti database integrates multi-omics data from human and mouse totipotent cells and embryos to explore the epigenetic regulation of gene expression during early development.

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⚙ AI-generated deep summary by claude@2026-07, 2026-07-14 · read from full text ⓘ

This paper presents Toti, an integrated multi-omics database designed to study epigenetic regulation of gene expression in totipotent stem cells, including in vivo, in vitro, and genome-edited human and mouse embryonic totipotent cells, TSC-like cells, pluripotent cells, and embryos across preimplantation stages (8,265 samples). The key contribution is providing epigenetic and transcriptomic resources through Search, Browse, and Analysis modules to enable exploration of mechanisms involved in establishing and exiting totipotency. The paper’s main caveat is that it is a database/resource paper, so it does not report new experimental results or mechanistic conclusions beyond enabling access to compiled multi-omics data. The paper does not explicitly discuss endometriosis or adenomyosis; it was included in the corpus via a keyword match in the upstream search index.

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Abstract

Totipotent cells (TSCs), the origin of mammalian life and foundation to early mammalian embryogenesis, are characterized by the highest differentiation capacity and extensive developmental potential. However, none of the existing embryonic databases have provided epigenetic and transcriptomic resources on totipotency, greatly limiting our understanding of the mechanisms governing the establishment and exit of totipotency. Here, we present Toti, a pioneering multi-omics database exclusively developed for totipotency, covering in vivo , in vitro and genome-edited human and mouse embryonic TSCs, TSC-like cells, pluripotent cells (PSCs), and embryos spanning preimplantation stages, with a total of 8,265 samples. Toti facilitates an in-depth exploration of the molecular mechanisms underlying totipotency by offering Search, Browse and Analysis modules available at http://toti.zju.edu.cn/ .
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Abstract Totipotent cells (TSCs), the origin of mammalian life and foundation to early mammalian embryogenesis, are characterized by the highest differentiation capacity and extensive developmental potential. However, none of the existing embryonic databases have provided epigenetic and transcriptomic resources on totipotency, greatly limiting our understanding of the mechanisms governing the establishment and exit of totipotency. Here, we present Toti, a pioneering multi-omics database exclusively developed for totipotency, covering in vivo, in vitro and genome-edited human and mouse embryonic TSCs, TSC-like cells, pluripotent cells (PSCs), and embryos spanning preimplantation stages, with a total of 8,265 samples. Toti facilitates an in-depth exploration of the molecular mechanisms underlying totipotency by offering Search, Browse and Analysis modules available at http://toti.zju.edu.cn/. Competing Interest Statement The authors have declared no competing interest.

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