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bioRxiv · 10.1101/2020.11.17.386664

SEMITONES: Single-cEll Marker IdentificaTiON by Enrichment Scoring

Vlot, A. H. C.·Maghsudi, S.·Ohler, U.
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Abstract

Identification of markers is an essential step in single-cell analytic. Current marker identification strategies typically rely on cluster assignments of cells. Cluster assignment, in particular of development data, is non-trivial, potentially arbitrary and commonly relies on prior knowledge. Yet, cluster uncertainty is not commonly taken into account. In response, we present SEMITONES, a principled method for cluster-free marker identification. We showcase its application on healthy haematopoiesis data as 1) a robust alternative to highly variable gene selection, 2) for marker gene and regulatory region identification, and 3) for the construction of co-enrichment networks that reveal regulators of cell identity.

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Vlot, A. H. C., Maghsudi, S., Ohler, U.. 2020-11-18. SEMITONES: Single-cEll Marker IdentificaTiON by Enrichment Scoring. https://doi.org/10.1101/2020.11.17.386664

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