TauFisher predicts circadian time from a single sample of bulk and single-cell pseudobulk transcriptomic data.

ABSTRACT: As the circadian clock regulates fundamental biological processes, disrupted clocks are often observed in patients and diseased tissues. Determining the circadian time of the patient or the tissue of focus is essential in circadian medicine and research. Here we present tauFisher, a computational pipeline that accurately predicts circadian time from a single transcriptomic sample by finding correlations between rhythmic genes within the sample. We demonstrate tauFisher's performance in adding timestamps to both bulk and single-cell transcriptomic samples collected from multiple tissue types and experimental settings. Application of tauFisher at a cell-type level in a single-cell RNAseq dataset collected from mouse dermal skin implies that greater circadian phase heterogeneity may explain t

SUBMITTER: Duan J 

PROVIDER: S-EPMC11076472 | biostudies-literature | 2024 May

REPOSITORIES: biostudies-literature