ArticleAnnual review of biomedical engineering2007
Analysis of time-series gene expression data: methods, challenges, and opportunities.
Article in Annual review of biomedical engineering, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers.
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Who cites it
52 citing papers in PubMed.
- Identification of Changes in Gene Expression.Biometrical journal. Biometrische Zeitschrift · 2026Article
- Graph and Hypergraph Theories Applied to Dynamic Protein-Protein Interaction Network Analysis, and Deep-Learning Frameworks for Protein Complex Network Prediction.International journal of molecular sciences · 2026Review
- Temporal dynamics of gene and protein signatures following volumetric muscle loss.Frontiers in cell and developmental biology · 2025Article
- GeTeSEPdb: A comprehensive database and online tool for the identification and analysis of gene profiles with temporal-specific expression patterns.Computational and structural biotechnology journal · 2024Article
- Gene regulatory network analysis identifies MYL1, MDH2, GLS, and TRIM28 as the principal proteins in the response of mesenchymal stem cells to MgComputational and structural biotechnology journal · 2024Article
- Biclustering data analysis: a comprehensive survey.Briefings in bioinformatics · 2024Review
- Transcriptome Profiling Unveils Key Genes Regulating the Growth and Development of Yangzhou Goose Knob.International journal of molecular sciences · 2024Article
- A clustering procedure for three-way RNA sequencing data using data transformations and matrix-variate Gaussian mixture models.BMC bioinformatics · 2024Article
- Temporal classification of short time series data.BMC bioinformatics · 2024Article
- From time-series transcriptomics to gene regulatory networks: A review on inference methods.PLoS computational biology · 2023Review
- Whole-Genome Analysis of De Novo Somatic Point Mutations Reveals Novel Mutational Biomarkers in Pancreatic Cancer.Cancers · 2021Article
- Review
- Improvement of Free Fatty Acid Secretory Productivity inFrontiers in microbiology · 2021Article
- An information-theoretical analysis of gene nucleotide sequence structuredness for a selection of aging and cancer-related genes.Genomics & informatics · 2020Article
- Functional module detection through integration of single-cell RNA sequencing data with protein-protein interaction networks.BMC genomics · 2020Article
- A personalised approach for identifying disease-relevant pathways in heterogeneous diseases.NPJ systems biology and applications · 2020Article
- Evaluation of classification and forecasting methods on time series gene expression data.PloS one · 2020Article
- Time-Varying Gene Network Analysis of Human Prefrontal Cortex Development.Frontiers in genetics · 2020Article
- The effects of rosiglitazone on the neonatal rat cardiomyocyte transcriptome: a temporal analysis.Pharmacogenomics · 2019Article
- Article
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3 authors.
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Abstract
Monitoring the change in expression patterns over time provides the distinct possibility of unraveling the mechanistic drivers characterizing cellular responses. Gene arrays measuring the level of mRNA expression of thousands of genes simultaneously provide a method of high-throughput data collection necessary for obtaining the scope of data required for understanding the complexities of living organisms. Unraveling the coherent complex structures of transcriptional dynamics is the goal of a large family of computational methods aiming at upgrading the information content of time-course gene expression data. In this review, we summarize the qualitative characteristics of these approaches, discuss the main challenges that this type of complex data present, and, finally, explore the opportunities in the context of developing mechanistic models of cellular response.
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