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Article
Open AccessRevisiting the evolution of bow-tie architecture in signaling networks
Bow-tie architecture is a layered network structure that has a narrow middle layer with multiple inputs and outputs. Such structures are widely seen in the molecular networks in cells, suggesting that a univer...
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Article
Open AccessA deep learning approach for morphological feature extraction based on variational auto-encoder: an application to mandible shape
Shape measurements are crucial for evolutionary and developmental biology; however, they present difficulties in the objective and automatic quantification of arbitrary shapes. Conventional approaches are base...
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Article
Open AccessIntercellular exchange of Wnt ligands reduces cell population heterogeneity during embryogenesis
Wnt signaling is required to maintain bipotent progenitors for neural and paraxial mesoderm cells, the neuromesodermal progenitor (NMP) cells that reside in the epiblast and tailbud. Since epiblast/tailbud cel...
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Article
Open AccessEmbedding dual function into molecular motors through collective motion
Protein motors, such as kinesins and dyneins, bind to a microtubule and travel along it in a specific direction. Previously, it was thought that the directionality for a given motor was constant in the absence...
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Article
Multicanonical MCMC for sampling rare events: an illustrative review
Multicanonical MCMC (Multicanonical Markov Chain Monte Carlo; Multicanonical Monte Carlo) is discussed as a method of rare event sampling. Starting from a review of the generic framework of importance sampling, m...
