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6/1/2018 · Here we applied single-cell RNA sequencing to >92,000 cells from zebrafish embryos during the first day of development. Using a graph-based approach, we mapped a cell-state landscape that describes axis patterning, germ layer formation, and organogenesis. D. W. Nauen, K. M. Christian, G. L. Ming, H. Song, Single-cell RNA-seq with Waterfall

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8/17/2016 · Our strategy of combining single-cell analysis and genetic approaches can be applied to uncover novel regulators governing cell fate decisions in a variety of systems. Single-cell RNA-seq reveals novel regulators of human embryonic stem cell differentiation to definitive endoderm Shin JY, Song J, Bonaguidi MA, Enikolopov G, Nauen DW

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Single-Cell RNA-Seq with Waterfall Reveals Molecular

Single cells are then projected on the edges between the clusters, and underrepresented edges are removed from the graph. StemID identifies a potential stem cell population based on transcriptome entropy. Nauen D.W. Christian K.M. Ming G.L. Song H. Single-cell RNA-seq with waterfall reveals molecular cascades underlying adult neurogenesis.

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Figure 1. Computational approaches to the inference of differentiation trajectories from single-cell RNA-seq data. The starting point of each method is a high-dimensional gene expression matrix indicating the transcript level of each gene in every cell.

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Single-cell RNA-seq reveals novel regulators of human

David W. Nauen. David W. Nauen. Affiliations. Department of Pathology, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. Search for articles by this author. Second, we animated static single-cell transcriptomes over the in vivo neurogenesis trajectory, allowing queries of molecular dynamics for each gene over the

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Shin J, Berg DA, Zhu Y, Shin JY, Song J, Bonaguidi MA, Enikolopov G, Nauen DW, Christian KM, Ming G-l, Song H. Single-cell RNA-seq with Waterfall reveals molecular cascades underlying adult …

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Single cell RNA-Seq provides rich information about cell types and states. However, it is difficult to capture rare dynamic processes, such as adult neurogenesis, because isolation of rare neurons from adult tissue is challenging and markers for each phase are limited. D. W. Nauen, K. M. Christian, G. L. Ming, H. Song, Single-cell RNA-Seq