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Circadian Rhythms and Gene Regulation02:19

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The biological clock is involved in many aspects of regulating complex physiology in all animals. It was in 1935 when German zoologists, Hans Kalmus and Erwin Bünning, discovered the existence of circadian rhythm in Drosophila melanogaster. However, the internal molecular mechanisms behind the circadian clock remained a mystery until 1984, when Jeffrey C. Hall, Michael Rosbash, and Michael W. Young discovered the expression of the Per gene oscillating over a 24-hour cycle. In subsequent...
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Nitecap: An Exploratory Circadian Analysis Web Application.

Thomas G Brooks1, Antonijo Mrčela1, Nicholas F Lahens1

  • 1Institute for Translational Medicine and Therapeutics, University of Pennsylvania, Philadelphia, Pennsylvania.

Journal of Biological Rhythms
|November 2, 2021
PubMed
Summary
This summary is machine-generated.

Nitecap is a free web tool that visualizes circadian omics data, aiding researchers in analyzing complex biological rhythms. It revealed that disrupting adipose tissue clocks advances liver Bmal1 expression without altering liver rhythmicity.

Keywords:
circadian analysisprincipal component analysisrhythmicity analysisvisualizationweb application

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Area of Science:

  • Chronobiology
  • Bioinformatics
  • Systems Biology

Background:

  • Circadian omics analyses generate vast datasets, posing challenges for interpretation and visualization.
  • Rhythmicity in biological data is complex and cannot be fully captured by p-values alone.
  • Assessing the impact of analytical choices, like significance thresholds, is difficult with static visualizations.

Purpose of the Study:

  • To introduce Nitecap, a unified, web-based solution for visualizing and analyzing circadian omics data.
  • To enable intuitive exploration of dataset-wide behavior and facilitate deep analyses, including comparative studies.
  • To provide a user-friendly platform for collaboration and sharing of circadian omics datasets.

Main Methods:

  • Development of Nitecap, a responsive, web-based visualization tool.
  • Application of Nitecap to investigate crosstalk between adipose and liver circadian clocks.
  • Comparative analysis of transcriptional rhythmicity between two tissue types.

Main Results:

  • Nitecap enables effective visualization of dataset-wide circadian behavior and supports comparative analyses.
  • Adipocyte clock disruption minimally affects liver transcriptional rhythmicity.
  • Disruption of adipose clocks advances the phase of core clock gene Bmal1 (Arntl) expression in the liver.

Conclusions:

  • Nitecap offers an intuitive solution for visualizing and analyzing complex circadian omics data.
  • Peripheral clock crosstalk exists between adipose and liver tissues, with specific effects on gene expression phasing.
  • Nitecap facilitates research in chronobiology and systems biology by enhancing data interpretation and collaboration.