High-Quality Binary Protein Interaction Map of the Yeast Interactome Network

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Bck2 Acts through the MADS Box Protein Mcm1 to Activate Cell-Cycle-Regulated Genes in Budding Yeast

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Prediction of hot spots residues in protein–protein interface using network feature and microenvironment feature

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Assembling a Protein-Protein Interaction Map of the SSU Processome from Existing Datasets

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Integrative approaches for predicting protein function and prioritizing genes for complex phenotypes using protein interaction networks

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Genetic Analysis Implicates the Set3/Hos2 Histone Deacetylase in the Deposition and Remodeling of Nucleosomes Containing H2A.Z

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Mutational analyses of trimethylguanosine synthase (Tgs1) and Mud2: Proteins implicated in pre-mRNA splicing

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Time-Course Proteome Analysis Reveals the Dynamic Response of Cryptococcus gattii Cells to Fluconazole

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Efficient mRNA Polyadenylation Requires a Ubiquitin-Like Domain, a Zinc Knuckle, and a RING Finger Domain, All Contained in the Mpe1 Protein

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Bacterial Interactomes: Interacting Protein Partners Share Similar Function and Are Validated in Independent Assays More Frequently Than Previously Reported

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Clathrin, adaptors and disease: Insights from the yeast Saccharomyces cerevisiae

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SMILE: a novel procedure for subcellular module identification with localisation expansion

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Meloidogyne incognita PASSE-MURAILLE (MiPM) Gene Encodes a Cell-Penetrating Protein That Interacts With the CSN5 Subunit of the COP9 Signalosome

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Function and Compensatory Mechanisms Among the Components of the Chloroplastic Redox Network

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Whi2: a new player in amino acid sensing

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Link prediction in recommender systems based on multi-factor network modeling and community detection

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Local Network Topology in Human Protein Interaction Data Predicts Functional Association

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Fast Photochemical Oxidation of Proteins Coupled to Multidimensional Protein Identification Technology (MudPIT): Expanding Footprinting Strategies to Complex Systems

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Duplication and Divergence Effect on Network Motifs in Undirected Bio-Molecular Networks

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Finding the “Dark Matter” in Human and Yeast Protein Network Prediction and Modelling

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Conserved host–pathogen PPIs Globally conserved inter-species bacterial PPIs based conserved host-pathogen interactome derived novel target inC. pseudotuberculosis,C. diphtheriae,M. tuberculosis,C. ulcerans,Y. pestis, andE. colitargeted byPiper betelcompounds

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Bridging the gap between clinicians and systems biologists: from network biology to translational biomedical research

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Reconstructing the evolution history of networked complex systems

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Unravelling plant molecular machineries through affinity purification coupled to mass spectrometry

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Databases of Protein–Protein Interactions and Complexes

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Bacterial protein meta-interactomes predict cross-species interactions and protein function

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A rice protein interaction network reveals high centrality nodes and candidate pathogen effector targets

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Temporal-Spatial Analysis of the Essentiality of Hub Proteins in Protein-Protein Interaction Networks

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Deep Autoencoder-like non-negative matrix factorization with graph regularized for link prediction in dynamic networks

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Yeast Homologues of Three BLOC‐1 Subunits Highlight KxDL Proteins As Conserved Interactors of BLOC‐1

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A Computationally Guided Protein-Interaction Screen Uncovers Coiled-Coil Interactions Involved in Vesicular Trafficking

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Network inference reveals novel connections in pathways regulating growth and defense in the yeast salt response

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Information, Noise and Communication: Thresholds as Controlling Elements in Development

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Using host-pathogen protein interactions to identify and characterize Francisella tularensis virulence factors

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A Protein Complex Map of Trypanosoma brucei

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MAPPIT, a Mammalian Two-Hybrid Method for In-Cell Detection of Protein-Protein Interactions

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Structural and mechanistic basis for preferential deadenylation of U6 snRNA by Usb1

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Coupling Conjugation and Deconjugation Activities to Achieve Cellular Ubiquitin Dynamics

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Overlapping Community Detection Using Multiobjective Genetic Algorithm

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Adaptability in protein structures: structural dynamics and implications in ligand design

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A survey on computational approaches to identifying disease biomarkers based on molecular networks

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Bringing Microscopy-By-Sequencing into View

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PETA: evaluating the impact of protein transfer learning with sub-word tokenization on downstream applications

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Strategies towards high-quality binary protein interactome maps

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Feature selection for link prediction

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Microfluidic large scale integration of viral–host interaction analysis

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Quantifying differential gene connectivity between disease states for objective identification of disease-relevant genes

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Predicting the Binding Patterns of Hub Proteins: A Study Using Yeast Protein Interaction Networks

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Cluster-based assessment of protein-protein interaction confidence

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An Integrated Regulatory Network Reveals Pervasive Cross-Regulation among Transcription and Splicing Factors

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An iterative network partition algorithm for accurate identification of dense network modules

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Pathogen receptor discovery with a microfluidic human membrane protein array

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Relative-path-based algorithm for link prediction on complex networks using a basic similarity factor

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Development and application of a DNA microarray-based yeast two-hybrid system

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Evolutionary multiobjective overlapping community detection based on similarity matrix and node correction

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Predicting the Lifetime of Dynamic Networks Experiencing Persistent Random Attacks

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A fluorescent reporter for mapping cellular protein‐protein interactions in time and space

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Inferring Physical Protein Contacts from Large-Scale Purification Data of Protein Complexes

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Reconstituting protein interaction networks using parameter-dependent domain-domain interactions

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Emerging Trends in Computational Biology, Bioinformatics, and Systems Biology: Algorithms and Software Tools

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Systematic Identification of Mycobacterium tuberculosis Effectors Reveals that BfrB Suppresses Innate Immunity

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Shin, M., van Leeuwen, J. S., Boone, C. M., & Bretscher, A. P. (2018) · Molecular Biology of the Cell · doi:10.1091/mbc.e17-10-0592 · Cited by 19

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