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METHODS FOR DETERMINING SPATIAL AND TEMPORAL GENE EXPRESSION DYNAMICS IN SINGLE CELLS

  • US 20190218276A1
  • Filed: 10/27/2016
  • Published: 07/18/2019
  • Est. Priority Date: 03/21/2016
  • Status: Active Grant
First Claim
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1. A method of producing at least one high resolution map for visualizing different cell subtypes or cell states in a heterogeneous population of cells comprising:

  • (a) performing dimensionality reduction on single cell gene expression data obtained from the heterogeneous population of cells;

    (b) producing a first set of clusters of cells by a method comprising measuring the dissimilarity between sets of genes in the dimensionality reduced single cell gene expression data and applying a first metric, wherein the clusters are in a dimensionality reduced space and the clusters comprise cells with a continuous trajectory;

    (c) producing a set of informative genes by a method comprising scoring genes based on their expression across the first set of clusters of cells or a continuous trajectory of cells, wherein the informative genes are uniquely expressed in cells embedded in close proximity in the dimensionality reduced space; and

    (d) producing at least one second set of clusters of cells or continuous trajectory of cells by a method comprising measuring the dissimilarity between the set of informative genes and applying a second metric, whereby visualization of a map of the second set of clusters or continuous trajectory of cells indicate cell subtypes or cell states.

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