Performance assessment of sample-specific network control methods for bulk and single-cell biological data analysis

Cell-specific network constructed by single-cell RNA sequencing data

(2019) Hao Dai et al.   NUCLEIC ACIDS RESEARCH

Network control principles for identifying personalized driver genes in cancer

(2019) Wei-Feng Guo et al.   BRIEFINGS IN BIOINFORMATICS

A novel network control model for identifying personalized driver genes in cancer

(2019) Wei-Feng Guo et al.   PLoS Computational Biology

Discovering personalized driver mutation profiles of single samples in cancer by network control strategy

(2018) Wei-Feng Guo et al.   BIOINFORMATICS

A novel algorithm for finding optimal driver nodes to target control complex networks and its applications for drug targets identification

(2018) Wei-Feng Guo et al.   BMC GENOMICS

The Emerging Potential for Network Analysis to Inform Precision Cancer Medicine

(2018) Kivilcim Ozturk et al.   JOURNAL OF MOLECULAR BIOLOGY

Control principles for complex biological networks

(2018) Min Li et al.   BRIEFINGS IN BIOINFORMATICS

Target control of edge dynamics in complex networks

(2018) Shao-Peng Pang et al.   PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS

Detection for disease tipping points by landscape dynamic network biomarkers

(2018) Xiaoping Liu et al.   National Science Review

Reduced-Order Distributed Consensus Controller Design via Edge Dynamics

(2017) Dinh Hoa Nguyen   IEEE TRANSACTIONS ON AUTOMATIC CONTROL

Individual-specific edge-network analysis for disease prediction

(2017) Xiangtian Yu et al.   NUCLEIC ACIDS RESEARCH

Controllable subspace of edge dynamics in complex networks

(2017) Shao-Peng Pang et al.   PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS

Structure-based control of complex networks with nonlinear dynamics

(2017) Jorge Gomez Tejeda Zañudo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Controlling Directed Protein Interaction Networks in Cancer

(2017) Krishna Kanhaiya et al.   Scientific Reports

Quantifying critical states of complex diseases using single-sample dynamic network biomarkers

(2017) Xiaoping Liu et al.   PLoS Computational Biology

Minimum dominating set-based methods for analyzing biological networks

(2016) Jose C. Nacher et al.   METHODS

Personalized characterization of diseases using sample-specific networks

(2016) Xiaoping Liu et al.   NUCLEIC ACIDS RESEARCH

Controllability analysis of the directed human protein interaction network identifies disease genes and drug targets

(2016) Arunachalam Vinayagam et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Control principles of complex systems

(2016) Yang-Yu Liu et al.   REVIEWS OF MODERN PHYSICS

Identifying Driver Nodes in the Human Signaling Network Using Structural Controllability Analysis

(2015) Xueming Liu et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Unravelling personalized dysfunctional gene network of complex diseases based on differential network model

(2015) Xiangtian Yu et al.   Journal of Translational Medicine

Diagnosing phenotypes of single-sample individuals by edge biomarkers

(2015) Wanwei Zhang et al.   Journal of Molecular Cell Biology

Target control of complex networks

(2014) Jianxi Gao et al.   Nature Communications

DawnRank: discovering personalized driver genes in cancer

(2014) Jack P Hou et al.   Genome Medicine

Dynamics and Control at Feedback Vertex Sets. I: Informative and Determining Nodes in Regulatory Networks

(2013) Bernold Fiedler et al.   Journal of Dynamics and Differential Equations

Dynamics and control at feedback vertex sets. II: A faithful monitor to determine the diversity of molecular activities in regulatory networks

(2013) Atsushi Mochizuki et al.   JOURNAL OF THEORETICAL BIOLOGY

Network deconvolution as a general method to distinguish direct dependencies in networks

(2013) Soheil Feizi et al.   NATURE BIOTECHNOLOGY

Cancer Genome Landscapes

(2013) B. Vogelstein et al.   SCIENCE

Control Capacity and A Random Sampling Method in Exploring Controllability of Complex Networks

(2013) Tao Jia et al.   Scientific Reports

Controlling edge dynamics in complex networks

(2012) Tamás Nepusz et al.   Nature Physics

Dominating scale-free networks with variable scaling exponent: heterogeneous networks are not difficult to control

(2012) Jose C Nacher et al.   NEW JOURNAL OF PHYSICS

Pinning control of complex networks via edge snapping

(2011) P. DeLellis et al.   CHAOS

Mutual exclusivity analysis identifies oncogenic network modules

(2011) G. Ciriello et al.   GENOME RESEARCH

Controllability of complex networks

(2011) Yang-Yu Liu et al.   NATURE

KEGG for integration and interpretation of large-scale molecular data sets

(2011) M. Kanehisa et al.   NUCLEIC ACIDS RESEARCH

A Directed Protein Interaction Network for Investigating Intracellular Signal Transduction

(2011) A. Vinayagam et al.   Science Signaling

Reactome: a database of reactions, pathways and biological processes

(2010) D. Croft et al.   NUCLEIC ACIDS RESEARCH

A human functional protein interaction network and its application to cancer data analysis

(2010) Guanming Wu et al.   GENOME BIOLOGY

Reaching a consensus via pinning control

(2009) Fei Chen et al.   AUTOMATICA

A comprehensive catalogue of somatic mutations from a human cancer genome

(2009) Erin D. Pleasance et al.   NATURE

PID: the Pathway Interaction Database

(2008) Carl F. Schaefer et al.   NUCLEIC ACIDS RESEARCH

AUC: a misleading measure of the performance of predictive distribution models

(2007) Jorge M. Lobo et al.   GLOBAL ECOLOGY AND BIOGEOGRAPHY