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Diverse partial reprogramming strategies restore youthful gene expression and transiently suppress cell identity

Roux, Antoine E., Zhang, Chunlian, Paw, Jonathan, Zavala-Solorio, José, Malahias, Evangelia, Vijay, Twaritha, Kolumam, Ganesh, Kenyon, Cynthia, Kimmel, Jacob C.·2022·Cell Systems
DOI 10.1016/j.cels.2022.05.002

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  • Reprogramming was later shown to exert mosaic-like expression patterns in tissues.

    “which (as previously discussed) were later shown to exert mosaiclike expression patterns in tissues 113 .”

    From Mechanisms, pathways and strategies for rejuvenation through epigenetic reprogramming (2023) · cites this paper as [113]

    The section on somatic cell identity networks reports reprogramming-related gene-expression changes in a subpopulation of cells, supporting a mosaic-like pattern at the cellular level. But the Cell Isolation and Cell culture sections show that the cells were isolated from mouse tissues and reprogrammed in culture; the paper does not establish mosaic-like expression patterns within tissues. (LLM, conf=0.87)

    Experimental — accuracy not yet measured

  • There is a synergistic function between the Yamanaka factors that directly impacts reprogramming potential.

    “it provided evidence of a synergistic function between the factors that directly impacted reprogramming potential.”

    From Mechanisms, pathways and strategies for rejuvenation through epigenetic reprogramming (2023) · cites this paper as [113]

    In “Subsets of the Yamanaka Factors are sufficient to elicit transient reprogramming effects” (page unavailable), the paper reports that reprogramming markers increased with the number of factors and notes that higher-order combinations are more effective at reprogramming. That supports an effect of factor combinations, but the paper does not establish a synergistic interaction or show that synergy directly determines reprogramming potential. (LLM, conf=0.84)

    Experimental — accuracy not yet measured

  • Single-cell RNA sequencing showed that reprogramming events are consistently partial.

    “the resolution of single-cell RNA sequencing here showed that reprogramming events are consistently partial.”

    From Mechanisms, pathways and strategies for rejuvenation through epigenetic reprogramming (2023) · cites this paper as [113]

    The Discussion (page unavailable) says single-cell profiles revealed transient reprogramming states and that RNA-velocity analysis suggested cells return toward their original states. It does not establish that reprogramming events are consistently partial: the authors describe a continuum of states and say further time-point measurements are needed to confirm the proposed trajectory. (LLM, conf=0.83)

    Experimental — accuracy not yet measured

  • All combinations of the Yamanaka factors at least partially suppressed the cell identity program and restored youthful gene expression at a magnitude correlated with the number of factors used rather than their identities.

    “all combinations of the Yamanaka factors at least partially suppressed the cell identity program and restore youthful gene expression at a magnitude that correlated with the number of factors used rather than their identities.”

    From Mechanisms, pathways and strategies for rejuvenation through epigenetic reprogramming (2023) · cites this paper as [113]

  • Bulk-based analyses could not consider transcriptional heterogeneity during reprogramming.

    “it was not possible to consider transcriptional heterogeneity during reprogramming as bulk-based analyses were used”

    From Mechanisms, pathways and strategies for rejuvenation through epigenetic reprogramming (2023) · cites this paper as [113]

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Research works printed but not linked: 50

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Metadata

Authors
Roux, A. E., Zhang, C., Paw, J., Zavala-Solorio, J., Malahias, E., Vijay, T., Kolumam, G., Kenyon, C., & Kimmel, J. C.
Venue
Cell Systems
Publisher
Elsevier BV
Published
2022-07
Volume
13
Issue
7
Pages
574-587.e11
ISSN
2405-4712
DOI
10.1016/j.cels.2022.05.002
Cited by
78
References
36
Language
en
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