ArticleJournal of mathematical biology2025
Single-cell 3D genome reconstruction in the haploid setting using rigidity theory.
Article in Journal of mathematical biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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5 authors.
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Abstract
This article considers the problem of 3-dimensional genome reconstruction for single-cell data, and the uniqueness of such reconstructions in the setting of haploid organisms. We consider multiple graph models as representations of this problem, and use techniques from graph rigidity theory to determine identifiability. Biologically, our models come from Hi-C data, microscopy data, and combinations thereof. Mathematically, we use unit ball and sphere packing models, as well as models consisting of distance and inequality constraints. In each setting, we describe and/or derive new results on realisability and uniqueness. We then propose a 3D reconstruction method based on semidefinite programming and apply it to synthetic and real data sets using our models.
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