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Table 3 Quantitative metrics of periodicity and regulation strength used in this study to rank genes

From: Conservation of dynamic characteristics of transcriptional regulatory elements in periodic biological processes

Name

Function

Type

Description

DL Per Score

Per(G)

Periodicity

A measure of abundance profile periodicity as defined by Eq. (3)\(^*\)

DL Per p-val

\(p_{per}(G)\)

Periodicity

An empirical p-value measuring the probability that a random abundance profile will exhibit a DL Per Score larger than the actual gene’s expression pattern

JTK Per p-val

\(p_{jtk}(G)\)

Periodicity

An analytic p-value introduced in [41] measuring the correlation in the discrete up-down patterns of expression between a gene and a sinusoidal template

DL Reg Score

Reg(G)

Regulation

A measure of the variability of transcript abundance about its mean expression level as defined by Eq. (2)\(^*\)

DL Reg p-val

\(p_{reg}(G)\)

regulation

An empirical p-value measuring the probability that a random abundance profile will exhibit a DL Reg Score larger than the actual gene’s

PerReg

 

Combined

The product of DL Per and DL Reg Scores

DL

 

Combined

The original periodicity measure introduced in [42] and defined according to Eq. (1)\(^*\)

DL \(\times\) JTK

 

Combined

A modified version of the original periodicity measure introduced by [42], defined according to Eq. (1)\(^*\) with \(p_{per}(G)\) replaced by \(p_{jtk}(G)\)

  1. \(^*\)Refer to Additional file 5: Supplementary Information for equation definitions