Search Results - "path consistency algorithm based on conditional mutual information"

Inferring Gene Regulatory Networks via Ensemble Path Consistency Algorithm Based on Conditional Mutual Information

Authors: Jie Xu Guanxue Yang Guohai Liu et al.

Source: IEEE/ACM Transactions on Computational Biology and Bioinformatics. 20:1807-1816

Subject Terms: Principal Component Analysis, 0206 medical engineering, Computational Biology, Gene Regulatory Networks, 02 engineering and technology, Algorithms

Access URL: https://pubmed.ncbi.nlm.nih.gov/36346850

Inference of Gene Regulatory Networks with Local Lasso Path Consistency Algorithm Based on Conditional Mutual Information

Authors: Guanxue Yang Chunnian Wang Guanxiao Yang

Source: 2022 13th Asian Control Conference (ASCC). :1977-1982

Subject Terms: 0301 basic medicine, 0303 health sciences, 03 medical and health sciences

Inferring gene regulatory network using path consistency algorithm based on conditional mutual information and genetic algorithm

Authors: Sima Iranmanesh Vahid Sattari-Naeini Behnam Ghavami

Source: 2017 7th International Conference on Computer and Knowledge Engineering (ICCKE). :98-103

Subject Terms: 0301 basic medicine, 0303 health sciences, 03 medical and health sciences, 3. Good health

Access URL: http://ieeexplore.ieee.org/document/8167936/

Inferring gene regulatory networks from gene expression data by path consistency algorithm based on conditional mutual information

Authors: Zhang, Xiujun Zhao, Xing-Ming He, Kun et al.

Contributors: Zhang, Xiujun Zhao, Xing-Ming He, Kun et al.

Source: Bioinformatics. 28:98-104

Subject Terms: 0301 basic medicine, Principal Component Analysis, 03 medical and health sciences, Gene Expression Profiling, 0206 medical engineering, Escherichia coli, Gene Regulatory Networks, 02 engineering and technology, [INFO] Computer Science [cs], SOS Response, Genetics, Algorithms, [INFO.INFO-BI] Computer Science [cs]/Bioinformatics [q-bio.QM]

Access URL: https://academic.oup.com/bioinformatics/article-pdf/28/1/98/16903705/btr626.pdf
https://pubmed.ncbi.nlm.nih.gov/22088843

Inferring gene regulatory networks from gene expression data by path consistency algorithm based on conditional mutual information.

Authors: Zhang, Xiujun Zhao, Xing-Ming He, Kun et al.

Source: Bioinformatics; Jan2012, Vol. 28 Issue 1, p98-104, 7p

Subject Terms: GENETIC regulation, GAUSSIAN distribution, ALGORITHMS, COMPUTATIONAL biology, RECEIVER operating characteristic curves

TransMarker: Unveiling dynamic network biomarkers in cancer progression through cross-state graph alignment and optimal transport.

Authors: Keikha, Fatemeh Wang, Chuanyuan Yang, Zhixia et al.

Source: PLoS Computational Biology; 11/24/2025, Vol. 21 Issue 11, p1-26, 26p

Subject Terms: BIOMARKERS, GENE regulatory networks, MATHEMATICAL optimization, GRAPH neural networks, CANCER invasiveness

getDNB: identifying dynamic network biomarkers of hepatocellular carcinoma from time-varying gene regulations utilizing graph embedding techniques for anomaly detection Open Access.

Authors: Wang, Tong Liu, Zhi-Ping

Source: Bioinformatics; Sep2025, Vol. 41 Issue 9, p1-10, 10p

Subject Terms: HEPATOCELLULAR carcinoma, GENE regulatory networks, GENE ontology, NUCLEOTIDE sequencing, INDIVIDUALIZED medicine, OUTLIER detection, GENETIC regulation, REPRESENTATIONS of graphs

Quantifying direct associations between variables.

Authors: Minyuan Zhao Yun Chen Qin Liu et al.

Source: Fundamental Research; Jul2025, Vol. 5 Issue 4, p1538-1546, 9p

Subject Terms: STATISTICS, STATISTICAL correlation, STATISTICAL measurement, MATHEMATICAL variables, STATISTICAL reliability

ACOCMPMI: An Ant Colony Optimization Algorithm Based on Composite Multiscale Part Mutual Information for Detecting Epistatic Interactions.

Authors: Sun, Yan Wang, Jing Zhang, Yaxuan et al.

Source: Human Mutation; 6/13/2025, Vol. 2025, p1-11, 11p

BiGSM: Bayesian inference of gene regulatory network via sparse modelling Open Access.

Authors: Qin, Hang Garbulowski, Mateusz Sonnhammer, Erik L L et al.

Source: Bioinformatics; Jun2025, Vol. 41 Issue 6, p1-9, 9p

Subject Terms: GENE regulatory networks, GENE expression, BAYESIAN field theory, DATA modeling, PYTHON programming language

WCSGNet: a graph neural network approach using weighted cell-specific networks for cell-type annotation in scRNA-seq.

Authors: Wang, Yi-Ran Du, Pu-Feng

Source: Frontiers in Genetics; 2025, p1-16, 16p

Subject Terms: GRAPH neural networks, GENE expression, GENE expression profiling, RNA sequencing, INFORMATION networks

Covariate-adjusted construction of gene regulatory networks using a combination of generalized linear model and penalized maximum likelihood.

Authors: Chatrabgoun, Omid Daneshkhah, Alireza Torkaman, Parisa et al.

Source: PLoS ONE; 1/29/2025, Vol. 20 Issue 1, p1-18, 18p

Subject Terms: GENE expression, GENE expression profiling, SPARSE matrices, MACHINE learning, GENES

IPCA-CMI: An Algorithm for Inferring Gene Regulatory Networks based on a Combination of PCA-CMI and MIT Score.

Authors: Aghdam, Rosa Ganjali, Mojtaba Eslahchi, Changiz

Source: PLoS ONE; Apr2014, Vol. 9 Issue 4, p1-10, 10p

Subject Terms: GENE regulatory networks, SYSTEMS biology, ALGORITHMS, HYBRID systems, GENE expression, BIOMETRY

Informeasure: an R/bioconductor package for quantifying nonlinear dependence between variables in biological networks from an information theory perspective.

Authors: Pan, Chu Chen, Yanlin

Source: BMC Bioinformatics; 12/18/2024, Vol. 25 Issue 1, p1-8, 8p

Subject Terms: BIOLOGICAL networks, INFORMATION theory, INFORMATION networks, INFORMATION measurement, PACKAGING design

Approaches for Benchmarking Single-Cell Gene Regulatory Network Methods.

Authors: Karamveer Uzun, Yasin

Source: Bioinformatics & Biology Insights; 11/4/2024, p1-18, 18p

Subject Terms: GENETIC models, CELL differentiation, GENE expression, EPIGENOMICS, GENOMICS, GENE regulatory networks

Gene regulatory network inference based on novel ensemble method.

Authors: Yang, Bin Li, Jing Li, Xiang et al.

Source: Briefings in Functional Genomics; Nov2024, Vol. 23 Issue 6, p866-878, 13p

Subject Terms: GENE regulatory networks, RECEIVER operating characteristic curves, PARTICLE swarm optimization, EVOLUTIONARY algorithms, SUPPORT vector machines, K-nearest neighbor classification, BOOSTING algorithms

EIEPCF: accurate inference of functional gene regulatory networks by eliminating indirect effects from confounding factors.

Authors: Peng, Huixiang Xu, Jing Liu, Kangchen et al.

Source: Briefings in Functional Genomics; Jul2024, Vol. 23 Issue 4, p373-383, 11p

Subject Terms: GENE regulatory networks, GENE expression, PLANT diseases, ANIMAL diseases, SOURCE code

Identifying dynamic interaction patterns in mandatory and discretionary lane changes using graph structure.

Authors: Zhang, Yue Zou, Yajie Xie, Yuanchang et al.

Source: Computer-Aided Civil & Infrastructure Engineering; Mar2024, Vol. 39 Issue 5, p638-655, 18p

Subject Terms: HIDDEN Markov models, LANE changing, TRAFFIC congestion, TRAFFIC safety

Exploring the Robustness of Causal Structures in Omics Data: A Sweet Cherry Proteogenomic Perspective.

Authors: Ganopoulou, Maria Xanthopoulou, Aliki Michailidis, Michail et al.

Source: Agronomy; Jan2024, Vol. 14 Issue 1, p8, 23p

Subject Terms: SWEET cherry, MULTIOMICS, TRANSCRIPTOMES, PROTEOMICS, BIOLOGY

Bifurcation analysis of a two–dimensional p53 gene regulatory network without and with time delay.

Authors: Du, Xin Liu, Quansheng Bi, Yuanhong

Source: Electronic Research Archive; 2024, Vol. 32 Issue 1, p1-24, 24p

Subject Terms: GENE regulatory networks, HOPF bifurcations, COMPUTER simulation, TIME delay systems, BIFURCATION theory