Studying and modelling dynamic biological processes using time-series gene expression data
Biological processes are often dynamic, thus researchers must monitor their activity at
multiple time points. The most abundant source of information regarding such dynamic …
multiple time points. The most abundant source of information regarding such dynamic …
[HTML][HTML] Dynamics in transcriptomics: advancements in RNA-seq time course and downstream analysis
D Spies, C Ciaudo - Computational and structural biotechnology journal, 2015 - Elsevier
Abstract Analysis of gene expression has contributed to a plethora of biological and medical
research studies. Microarrays have been intensively used for the profiling of gene …
research studies. Microarrays have been intensively used for the profiling of gene …
AngClust: angle feature-based clustering for short time series gene expression profiles
When clustering gene expression, it is expected that correlation coefficients of genes in the
same clusters are high, and that gene ontology (GO) enrichment analysis of most clusters …
same clusters are high, and that gene ontology (GO) enrichment analysis of most clusters …
Natural cubic spline regression modeling followed by dynamic network reconstruction for the identification of radiation-sensitivity gene association networks from time …
A Michna, H Braselmann, M Selmansberger, A Dietz… - PloS one, 2016 - journals.plos.org
Gene expression time-course experiments allow to study the dynamics of transcriptomic
changes in cells exposed to different stimuli. However, most approaches for the …
changes in cells exposed to different stimuli. However, most approaches for the …
Functional Heatmap: an automated and interactive pattern recognition tool to integrate time with multi-omics assays
JR Williams, R Yang, JL Clifford, D Watson… - Bmc Bioinformatics, 2019 - Springer
Background Life science research is moving quickly towards large-scale experimental
designs that are comprised of multiple tissues, time points, and samples. Omic time-series …
designs that are comprised of multiple tissues, time points, and samples. Omic time-series …
Time-series RNA-seq analysis package (TRAP) and its application to the analysis of rice, Oryza sativa L. ssp. Japonica, upon drought stress
Measuring expression levels of genes at the whole genome level can be useful for many
purposes, especially for revealing biological pathways underlying specific phenotype …
purposes, especially for revealing biological pathways underlying specific phenotype …
The transcriptomic revolution and radiation biology
SA Amundson - International journal of radiation biology, 2022 - Taylor & Francis
Purpose This article will briefly review the origins and evolution of functional genomics, first
describing the experimental technology, and then some of the approaches applied to data …
describing the experimental technology, and then some of the approaches applied to data …
Comparative analysis of pathology and behavioural phenotypes in mouse models of Huntington's disease
SP Brooks, L Jones, SB Dunnett - Brain research bulletin, 2012 - Elsevier
The longitudinal characterisation of Huntington's disease (HD) mouse lines is essential for
the understanding of the differential developmental time course, nature and severity of …
the understanding of the differential developmental time course, nature and severity of …
A survey of computational tools for downstream analysis of proteomic and other omic datasets
Proteomics is an expanding area of research into biological systems with significance for
biomedical and therapeutic applications ranging from understanding the molecular basis of …
biomedical and therapeutic applications ranging from understanding the molecular basis of …
[HTML][HTML] Transcriptomic analysis reveals up-regulated histone genes may play a key role in zebrafish embryo-larvae response to Bisphenol A (BPA) exposure
H Yu, W Song, X Chen, Q Zhao, X Du - Ecotoxicology and Environmental …, 2023 - Elsevier
Bisphenol A (BPA) can induce complex regulatory mechanisms in many aquatic organisms,
and it is difficult to find a suitable analytical method to efficiently enrich key genes …
and it is difficult to find a suitable analytical method to efficiently enrich key genes …