Gene expression analysis articles within Nature

Featured

  • Article
    | Open Access

    BARseq interrogates the expression of 104 cell-type marker genes in 10.3 million cells over nine mouse forebrain hemispheres to reveal the role of peripheral inputs on cortical area development.

    • Xiaoyin Chen
    • , Stephan Fischer
    •  & Anthony M. Zador

  • Article |

    A paper reports the development of a universal tool for studying cellular interactions in biological systems, and demonstrates its coupling with single-cell transcriptomics methods to provide insights into the biology of the interactions.

    • Sandra Nakandakari-Higa
    • , Sarah Walker
    •  & Gabriel D. Victora

  • Article
    | Open Access

    Live-seq, a single-cell transcriptome profiling approach that preserves cell viability during RNA extraction using fluidic force microscopy, can address a range of biological questions by transforming scRNA-seq from an end-point to a temporal analysis approach.

    • Wanze Chen
    • , Orane Guillaume-Gentil
    •  & Bart Deplancke

  • Article |

    In Drosophila, there are extensive physical and functional associations of distant paralogous genes, including co-regulation by shared enhancers and co-transcriptional initiation over distances of nearly 250 kilobases.

    • Michal Levo
    • , João Raimundo
    •  & Michael S. Levine

  • Article |

    Bulk RNA sequencing of organs and plasma proteomics at different ages across the mouse lifespan is integrated with data from the Tabula Muris Senis, a transcriptomic atlas of ageing mouse tissues, to describe organ-specific changes in gene expression during ageing.

    • Nicholas Schaum
    • , Benoit Lehallier
    •  & Tony Wyss-Coray

  • Article |

    Single-cell RNA sequencing of cells from healthy human liver, hepatocellular carcinoma and chimaeric mouse liver identifies subtypes of liver cells, epithelial progenitors and differences between healthy and diseased cells.

    • Nadim Aizarani
    • , Antonio Saviano
    •  & Dominic Grün

  • Letter |

    A single-cell sequencing method is developed that uses transcriptomics and CRISPR–Cas9 technology to investigate clonal relationships in cells present in different zebrafish tissues.

    • Anna Alemany
    • , Maria Florescu
    •  & Alexander van Oudenaarden

  • Letter |

    An algorithm that allows rare cell type identification in a complex population of single cells, based on single-cell mRNA-sequencing, is applied to mouse intestinal cells, revealing novel subtypes of enteroendocrine cells and showing that the Lgr5-expressing population consists of a homogenous stem cell population with a few rare secretory cells, including Paneth cells.

    • Dominic Grün
    • , Anna Lyubimova
    •  & Alexander van Oudenaarden

  • Letter |

    Single-cell RNA sequencing and weighted gene co-expression network analysis are used to study transcriptome change in pre-implantation embryos and oocytes; this reveals a conserved genetic program between human and mouse but with different developmental specificity and timing, and conserved hub genes that may be key in pre-implantation development.

    • Zhigang Xue
    • , Kevin Huang
    •  & Guoping Fan

  • Brief Communications Arising |

    • Pontus Boström
    • , Jun Wu
    •  & Bruce M. Spiegelman

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