A simple approach to ranking differentially expressed gene expression time courses through Gaussian process regression
AA Kalaitzis, ND Lawrence - BMC bioinformatics, 2011 - Springer
Background The analysis of gene expression from time series underpins many biological
studies. Two basic forms of analysis recur for data of this type: removing inactive (quiet) …
studies. Two basic forms of analysis recur for data of this type: removing inactive (quiet) …
A robust Bayesian two-sample test for detecting intervals of differential gene expression in microarray time series
Understanding the regulatory mechanisms that are responsible for an organism's response
to environmental change is an important issue in molecular biology. A first and important …
to environmental change is an important issue in molecular biology. A first and important …
Gaussian process regression bootstrapping: exploring the effects of uncertainty in time course data
PDW Kirk, MPH Stumpf - Bioinformatics, 2009 - academic.oup.com
Motivation: Although widely accepted that high-throughput biological data are typically
highly noisy, the effects that this uncertainty has upon the conclusions we draw from these …
highly noisy, the effects that this uncertainty has upon the conclusions we draw from these …
Gaussian process test for high-throughput sequencing time series: application to experimental evolution
Motivation: Recent advances in high-throughput sequencing (HTS) have made it possible to
monitor genomes in great detail. New experiments not only use HTS to measure genomic …
monitor genomes in great detail. New experiments not only use HTS to measure genomic …
Detecting time periods of differential gene expression using Gaussian processes: an application to endothelial cells exposed to radiotherapy dose fraction
M Heinonen, O Guipaud, F Milliat, V Buard… - …, 2015 - academic.oup.com
Motivation: Identifying the set of genes differentially expressed along time is an important
task in two-sample time course experiments. Furthermore, estimating at which time periods …
task in two-sample time course experiments. Furthermore, estimating at which time periods …
Inferring the perturbation time from biological time course data
Motivation: Time course data are often used to study the changes to a biological process
after perturbation. Statistical methods have been developed to determine whether such a …
after perturbation. Statistical methods have been developed to determine whether such a …
Complex network analysis and robustness evaluation of spatial variation of monthly rainfall
H Tongal, B Sivakumar - Stochastic Environmental Research and Risk …, 2024 - Springer
Recently, complex network-based approaches are shown to be efficient for spatial analysis
of rainfall variation. One of the most critical limitations of correlation-based networks is using …
of rainfall variation. One of the most critical limitations of correlation-based networks is using …
Estimating replicate time shifts using Gaussian process regression
Motivation: Time-course gene expression datasets provide important insights into dynamic
aspects of biological processes, such as circadian rhythms, cell cycle and organ …
aspects of biological processes, such as circadian rhythms, cell cycle and organ …
A method to identify differential expression profiles of time-course gene data with Fourier transformation
Background Time course gene expression experiments are an increasingly popular method
for exploring biological processes. Temporal gene expression profiles provide an important …
for exploring biological processes. Temporal gene expression profiles provide an important …
Multiple Gaussian process models for direct time series forecasting
T Hachino, V Kadirkamanathan - IEEJ transactions on electrical …, 2011 - Wiley Online Library
This paper focuses on the problem of time series forecasting using the Gaussian process
models. The Gaussian process model is a nonparametric model and the output of the model …
models. The Gaussian process model is a nonparametric model and the output of the model …