Tree-structured topic modelling of single-cell gene expression data uncovers hierarchical relationships between immune cell types
Patricia E. Ye,
Yichen Zhang,
Ramon I. Klein Geltink
et al.
Abstract:Immune cells undergo a series of differentiation steps following a lineage-tree structure stemming from hematopoietic stem cells. During differentiation of immune cells in both homeostasis and pathological processes, many gene regulatory mechanisms are shared by fully differentiated immune cell sub-types. In order to characterize these features quantitatively, we proposeLaRCH, a tree-structured embedded topic model. In this model, single-cell gene expression profiles are represented by a mixture of topics cons… Show more
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