On the Origin of Biomolecular Networks

Gene regulation in the 3D genome

(2018) Yun Li et al.   HUMAN MOLECULAR GENETICS

Aberration hubs in protein interaction networks highlight actionable targets in cancer

(2018) Mehran Karimzadeh et al.   Oncotarget

Current status and future directions of cancer immunotherapy

(2018) Hongming Zhang et al.   Journal of Cancer

A smooth exit from eternal inflation?

(2018) S. W. Hawking et al.   JOURNAL OF HIGH ENERGY PHYSICS

Origin of biomolecular games: deception and molecular evolution

(2018) Steven E. Massey et al.   Journal of the Royal Society Interface

Emergent simplicity in microbial community assembly

(2018) Joshua E. Goldford et al.   SCIENCE

Random graph models for dynamic networks

(2017) Xiao Zhang et al.   EUROPEAN PHYSICAL JOURNAL B

Non-homologous DNA end joining and alternative pathways to double-strand break repair

(2017) Howard H. Y. Chang et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Evolutionary analysis and interaction prediction for protein-protein interaction network in geometric space

(2017) Lei Huang et al.   PLoS One

The p53 Pathway: Origins, Inactivation in Cancer, and Emerging Therapeutic Approaches

(2016) Andreas C. Joerger et al.   Annual Review of Biochemistry

Common Interest and Signaling Games: A Dynamic Analysis

(2016) Manolo Martínez et al.   PHILOSOPHY OF SCIENCE

Comparative Analysis of Gene Regulatory Networks: From Network Reconstruction to Evolution

(2015) Dawn Thompson et al.   Annual Review of Cell and Developmental Biology

Error-Prone Repair of DNA Double-Strand Breaks

(2015) Kasey Rodgers et al.   JOURNAL OF CELLULAR PHYSIOLOGY

Mechanisms of Gene Duplication and Amplification

(2015) Andrew B. Reams et al.   Cold Spring Harbor Perspectives in Biology

The search for cis-regulatory driver mutations in cancer genomes

(2015) Rebecca C Poulos et al.   Oncotarget

Nearly Linear Time Algorithms for Preconditioning and Solving Symmetric, Diagonally Dominant Linear Systems

(2014) Daniel A. Spielman et al.   SIAM JOURNAL ON MATRIX ANALYSIS AND APPLICATIONS

Cellular and molecular mechanisms in cancer immune escape: a comprehensive review

(2013) Alka Bhatia et al.   Expert Review of Clinical Immunology

Basic and applied uses of genome-scale metabolic network reconstructions of Escherichia coli

(2013) D. McCloskey et al.   Molecular Systems Biology

Observability of complex systems

(2013) Y.-Y. Liu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Local Clustering Algorithm for Massive Graphs and Its Application to Nearly Linear Time Graph Partitioning

(2013) Daniel A. Spielman et al.   SIAM JOURNAL ON COMPUTING

Eigenvalues and expansion of bipartite graphs

(2012) Tom Høholdt et al.   DESIGNS CODES AND CRYPTOGRAPHY

Germline copy number variations and cancer predisposition

(2012) Ana Cristina Victorino Krepischi et al.   Future Oncology

On congruity of nodes and assortative information content in complex networks

(2012) Mahendra Piraveenan et al.   Networks and Heterogeneous Media

Integrative network alignment reveals large regions of global network similarity in yeast and human

(2011) Oleksii Kuchaiev et al.   BIOINFORMATICS

Expander graphs in pure and applied mathematics

(2011) Alexander Lubotzky   BULLETIN OF THE AMERICAN MATHEMATICAL SOCIETY

iPath2.0: interactive pathway explorer

(2011) Takuji Yamada et al.   NUCLEIC ACIDS RESEARCH

The Evolution of Enzyme Specificity in the Metabolic Replicator Model of Prebiotic Evolution

(2011) Balázs Könnyű et al.   PLoS One

Spectral Sparsification of Graphs

(2011) Daniel A. Spielman et al.   SIAM JOURNAL ON COMPUTING

Inventing New Signals

(2011) Jason McKenzie Alexander et al.   Dynamic Games and Applications

Evolution of metabolic network organization

(2010) Aurelien Mazurie et al.   BMC Systems Biology

Heuristic algorithms in computational molecular biology

(2010) Richard M. Karp   JOURNAL OF COMPUTER AND SYSTEM SCIENCES

The evolution of gene duplications: classifying and distinguishing between models

(2010) Hideki Innan et al.   NATURE REVIEWS GENETICS

Message passing approach for general epidemic models

(2010) Brian Karrer et al.   PHYSICAL REVIEW E

Limits of Predictability in Human Mobility

(2010) C. Song et al.   SCIENCE

Time to CARE: a collaborative engine for practical disease prediction

(2009) Darcy A. Davis et al.   DATA MINING AND KNOWLEDGE DISCOVERY

Biological Process Linkage Networks

(2009) Dikla Dotan-Cohen et al.   PLoS One

Scale-Free Networks: A Decade and Beyond

(2009) Albert-László Barabási   SCIENCE

Power-Law Distributions in Empirical Data

(2009) Aaron Clauset et al.   SIAM REVIEW

The Origins and Evolution of the p53 Family of Genes

(2009) V. A. Belyi et al.   Cold Spring Harbor Perspectives in Biology

NetworkBLAST: comparative analysis of protein networks

(2008) M. Kalaev et al.   BIOINFORMATICS

Burstiness and memory in complex systems

(2008) K.-I. Goh et al.   EPL

Uncovering individual and collective human dynamics from mobile phone records

(2008) Julián Candia et al.   Journal of Physics A-Mathematical and Theoretical

Characterization of genome-wide p53-binding sites upon stress response

(2008) Leonie Smeenk et al.   NUCLEIC ACIDS RESEARCH

Impact of Limited Solvent Capacity on Metabolic Rate, Enzyme Activities, and Metabolite Concentrations of S. cerevisiae Glycolysis

(2008) Alexei Vazquez et al.   PLoS Computational Biology