ArticleCurrent genomics2009
Inference of gene regulatory networks using time-series data: a survey.
Article in Current genomics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
37 citing papers in PubMed.
- Inferring upstream regulatory genes of FOXP3 in human regulatory T cells from time-series transcriptomic data.NPJ systems biology and applications · 2024Article
- A Causal Regulation Modeling Algorithm for Temporal Events with Application toInternational journal of molecular sciences · 2024Article
- A Noise-Tolerating Gene Association Network Uncovering an Oncogenic Regulatory Motif in Lymphoma Transcriptomics.Life (Basel, Switzerland) · 2023Article
- Using single cell atlas data to reconstruct regulatory networks.Nucleic acids research · 2023Article
- Network inference from short, noisy, low time-resolution, partial measurements: Application toProceedings of the National Academy of Sciences of the United States of America · 2023Article
- Review
- HB-PLS: A statistical method for identifying biological process or pathway regulators by integrating Huber loss and Berhu penalty with partial least squares regression.Forestry research · 2021Article
- An integrative approach for building personalized gene regulatory networks for precision medicine.Genome medicine · 2018Review
- Parallel Algorithms for Inferring Gene Regulatory Networks: A Review.Current genomics · 2018Review
- Review of stochastic hybrid systems with applications in biological systems modeling and analysis.EURASIP journal on bioinformatics & systems biology · 2017Review
- Exploring candidate biological functions by Boolean Function Networks for Saccharomyces cerevisiae.PloS one · 2017Article
- Identifying time-delayed gene regulatory networks via an evolvable hierarchical recurrent neural network.BioData mining · 2017Article
- Neural model of gene regulatory network: a survey on supportive meta-heuristics.Theory in biosciences = Theorie in den Biowissenschaften · 2016Review
- In silico methods for drug repurposing and pharmacology.Wiley interdisciplinary reviews. Systems biology and medicine · 2016Review
- Continuous time Bayesian networks identify Prdm1 as a negative regulator of TH17 cell differentiation in humans.Scientific reports · 2016Article
- Gene regulatory network inference using fused LASSO on multiple data sets.Scientific reports · 2016Article
- System-wide analysis of the transcriptional network of human myelomonocytic leukemia cells predicts attractor structure and phorbol-ester-induced differentiation and dedifferentiation transitions.Scientific reports · 2015Article
- Article
- Article
- Gene network inference using continuous time Bayesian networks: a comparative study and application to Th17 cell differentiation.BMC bioinformatics · 2014Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
The advent of high-throughput technology like microarrays has provided the platform for studying how different cellular components work together, thus created an enormous interest in mathematically modeling biological network, particularly gene regulatory network (GRN). Of particular interest is the modeling and inference on time-series data, which capture a more thorough picture of the system than non-temporal data do. We have given an extensive review of methodologies that have been used on time-series data. In realizing that validation is an impartible part of the inference paradigm, we have also presented a discussion on the principles and challenges in performance evaluation of different methods. This survey gives a panoramic view on these topics, with anticipation that the readers will be inspired to improve and/or expand GRN inference and validation tool repository.
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.