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Determination of Temporal Order among the Components of an Oscillatory System.

Barragán S, Rueda C, Fernández MA, Peddada SD - PLoS ONE (2015)

Bottom Line: The temporal order among the components of an oscillatory system may potentially be disrupted for various reasons (e.g. environmental factors).As a result some components of the system may go out of order or even cease to participate in the oscillatory process.We also develop methodology to estimate the order among the components with a suitable notion of "confidence." Using publicly available data on S. pombe, S. cerevisiae and Homo sapiens we discover that the temporal order among the genes cdc18; mik1; hhf1; hta2; fkh2 and klp5 is evolutionarily conserved from yeast to humans.

View Article: PubMed Central - PubMed

Affiliation: Departamento de Estadística e Investigación Operativa, Universidad de Valladolid, Valladolid, Spain.

ABSTRACT
Oscillatory systems in biology are tightly regulated process where the individual components (e.g. genes) express in an orderly manner by virtue of their functions. The temporal order among the components of an oscillatory system may potentially be disrupted for various reasons (e.g. environmental factors). As a result some components of the system may go out of order or even cease to participate in the oscillatory process. In this article, we develop a novel framework to evaluate whether the temporal order is unchanged in different populations (or experimental conditions). We also develop methodology to estimate the order among the components with a suitable notion of "confidence." Using publicly available data on S. pombe, S. cerevisiae and Homo sapiens we discover that the temporal order among the genes cdc18; mik1; hhf1; hta2; fkh2 and klp5 is evolutionarily conserved from yeast to humans.

No MeSH data available.


Related in: MedlinePlus

An illustration of the temporal order among genes g1, g2, …, g8 whose phase angles are in order along a circle (in counterclock-wise direction).
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pone.0124842.g001: An illustration of the temporal order among genes g1, g2, …, g8 whose phase angles are in order along a circle (in counterclock-wise direction).

Mentions: Analysis of angular data has a long history with well-developed theory and methodology documented in several books [24, 25]. Until recently much of the literature was developed for drawing inferences on individual parameters, but not for studying order among a set of angular parameters (e.g. phases of a system of oscillatory genes), which is the focus of this article. More precisely, suppose an oscillatory system consists of genes, g1, g2, g3, …, g8, with phase angles ϕ1, ϕ2, …, ϕ8, respectively. Then a researcher is typically interested in determining the circular order (temporal order) among these phase angles. For example, determine whether g1 peaks before g2 which peaks before g3, etc. g7 peaks before g8 and g8 before g1. Mathematically, determine if ϕ1 precedes ϕ2 which precedes ϕ3 and so on ϕ7 precedes ϕ8 which in turn precedes ϕ1 around the unit circle (e.g. Fig 1). We shall denote the order by ϕ1 ≼ ϕ2 ≼ ⋯ ≼ ϕ7 ≼ ϕ8 ≼ ϕ1.


Determination of Temporal Order among the Components of an Oscillatory System.

Barragán S, Rueda C, Fernández MA, Peddada SD - PLoS ONE (2015)

An illustration of the temporal order among genes g1, g2, …, g8 whose phase angles are in order along a circle (in counterclock-wise direction).
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4495067&req=5

pone.0124842.g001: An illustration of the temporal order among genes g1, g2, …, g8 whose phase angles are in order along a circle (in counterclock-wise direction).
Mentions: Analysis of angular data has a long history with well-developed theory and methodology documented in several books [24, 25]. Until recently much of the literature was developed for drawing inferences on individual parameters, but not for studying order among a set of angular parameters (e.g. phases of a system of oscillatory genes), which is the focus of this article. More precisely, suppose an oscillatory system consists of genes, g1, g2, g3, …, g8, with phase angles ϕ1, ϕ2, …, ϕ8, respectively. Then a researcher is typically interested in determining the circular order (temporal order) among these phase angles. For example, determine whether g1 peaks before g2 which peaks before g3, etc. g7 peaks before g8 and g8 before g1. Mathematically, determine if ϕ1 precedes ϕ2 which precedes ϕ3 and so on ϕ7 precedes ϕ8 which in turn precedes ϕ1 around the unit circle (e.g. Fig 1). We shall denote the order by ϕ1 ≼ ϕ2 ≼ ⋯ ≼ ϕ7 ≼ ϕ8 ≼ ϕ1.

Bottom Line: The temporal order among the components of an oscillatory system may potentially be disrupted for various reasons (e.g. environmental factors).As a result some components of the system may go out of order or even cease to participate in the oscillatory process.We also develop methodology to estimate the order among the components with a suitable notion of "confidence." Using publicly available data on S. pombe, S. cerevisiae and Homo sapiens we discover that the temporal order among the genes cdc18; mik1; hhf1; hta2; fkh2 and klp5 is evolutionarily conserved from yeast to humans.

View Article: PubMed Central - PubMed

Affiliation: Departamento de Estadística e Investigación Operativa, Universidad de Valladolid, Valladolid, Spain.

ABSTRACT
Oscillatory systems in biology are tightly regulated process where the individual components (e.g. genes) express in an orderly manner by virtue of their functions. The temporal order among the components of an oscillatory system may potentially be disrupted for various reasons (e.g. environmental factors). As a result some components of the system may go out of order or even cease to participate in the oscillatory process. In this article, we develop a novel framework to evaluate whether the temporal order is unchanged in different populations (or experimental conditions). We also develop methodology to estimate the order among the components with a suitable notion of "confidence." Using publicly available data on S. pombe, S. cerevisiae and Homo sapiens we discover that the temporal order among the genes cdc18; mik1; hhf1; hta2; fkh2 and klp5 is evolutionarily conserved from yeast to humans.

No MeSH data available.


Related in: MedlinePlus