Inference on the structure of gene regulatory networks
In this paper, we conduct theoretical analyses on inferring the structure of gene regulatory
networks. Depending on the experimental method and data type, the inference problem is …
networks. Depending on the experimental method and data type, the inference problem is …
A guide to gene regulatory network inference for obtaining predictive solutions: Underlying assumptions and fundamental biological and data constraints
S Barbosa, B Niebel, S Wolf, K Mauch, R Takors - Biosystems, 2018 - Elsevier
The study of biological systems at a system level has become a reality due to the increasing
powerful computational approaches able to handle increasingly larger datasets. Uncovering …
powerful computational approaches able to handle increasingly larger datasets. Uncovering …
TIMEOR: a web-based tool to uncover temporal regulatory mechanisms from multi-omics data
Uncovering how transcription factors regulate their targets at DNA, RNA and protein levels
over time is critical to define gene regulatory networks (GRNs) and assign mechanisms in …
over time is critical to define gene regulatory networks (GRNs) and assign mechanisms in …
Enhancer-driven gene regulatory networks inference from single-cell RNA-seq and ATAC-seq data
Deciphering the intricate relationships between transcription factors (TFs), enhancers, and
genes through the inference of enhancer-driven gene regulatory networks (eGRNs) is …
genes through the inference of enhancer-driven gene regulatory networks (eGRNs) is …
Dynamic modeling and network approaches for omics time course data: overview of computational approaches and applications
Y Liang, A Kelemen - Briefings in bioinformatics, 2018 - academic.oup.com
Inferring networks and dynamics of genes, proteins, cells and other biological entities from
high-throughput biological omics data is a central and challenging issue in computational …
high-throughput biological omics data is a central and challenging issue in computational …
Computational dynamic approaches for temporal omics data with applications to systems medicine
Y Liang, A Kelemen - BioData mining, 2017 - Springer
Modeling and predicting biological dynamic systems and simultaneously estimating the
kinetic structural and functional parameters are extremely important in systems and …
kinetic structural and functional parameters are extremely important in systems and …
Inferring a Gene Regulatory Network from Gene Expression Data. An Overview of Best Methods and a Reverse Engineering Approach
Abstract Gene Regulatory Networks (GRNs) are widely used to understand processes in
cellular organisms. The spread of viruses and the development of new unknown diseases …
cellular organisms. The spread of viruses and the development of new unknown diseases …
Inferring the effects of honokiol on the notch signaling pathway in SW480 colon cancer cells
In a tumor cell, the development of acquired therapeutic resistance and the ability to survive
in extracellular environments that differ from the primary site are the result of molecular …
in extracellular environments that differ from the primary site are the result of molecular …
Information theoretic approaches for inference of biological networks from continuous-valued data
DM Budden, EJ Crampin - BMC systems biology, 2016 - Springer
Background Characterising programs of gene regulation by studying individual protein-DNA
and protein-protein interactions would require a large volume of high-resolution proteomics …
and protein-protein interactions would require a large volume of high-resolution proteomics …
RNDEtree: regulatory network with differential equation based on flexible neural tree with novel criterion function
B Yang, W Bao - IEEE Access, 2019 - ieeexplore.ieee.org
Gene regulatory network (GRN) could provide guidance for understanding the internal laws
of biological phenomena and analyzing several diseases. Ordinary differential equation …
of biological phenomena and analyzing several diseases. Ordinary differential equation …