Affinity-purification coupled to mass spectrometry: basic principles and strategies

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Fundamentals of protein interaction network mapping

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Characterization of Native Protein Complexes and Protein Isoform Variation Using Size-fractionation-based Quantitative Proteomics

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Protein–Protein Interaction Network Exploration Using Cytoscape

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JMJ17–WRKY40 and HY5–ABI5 modules regulate the expression of ABA‐responsive genes in Arabidopsis

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The RTK Interactome: Overview and Perspective on RTK Heterointeractions

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Proteomics-based identification of low-abundance signaling and regulatory protein complexes in native plant tissues

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Expanding the Genetic Code to Study Protein–Protein Interactions

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A Network Module for the Perseus Software for Computational Proteomics Facilitates Proteome Interaction Graph Analysis

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Expanding the Circuitry of Pluripotency by Selective Isolation of Chromatin-Associated Proteins

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Proteomics turns functional

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Proximity-dependent biotinylation mediated by TurboID to identify protein–protein interaction networks in yeast

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Protein–protein interaction predictions using text mining methods

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Integration of Mass Spectrometry Data for Structural Biology

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Deciphering preferential interactions within supramolecular protein complexes: the proteasome case

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Genetically encoded protein photocrosslinker with a transferable mass spectrometry-identifiable label

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Cleavable Cross-Linkers and Mass Spectrometry for the Ultimate Task of Profiling Protein–Protein Interaction Networks in Vivo

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Protein‐protein interaction networks as miners of biological discovery

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Dissecting ribosomal particles throughout the kingdoms of life using advanced hybrid mass spectrometry methods

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A census of pathway maps in cancer systems biology

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Recent advances in predicting and modeling protein–protein interactions

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The development of proximity labeling technology and its applications in mammals, plants, and microorganisms

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Machine learning solutions for predicting protein–protein interactions

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Computational Methods for Predicting Protein‐Protein Interactions Using Various Protein Features

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Parallel Exploration of Interaction Space by BioID and Affinity Purification Coupled to Mass Spectrometry

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Measuring rank robustness in scored protein interaction networks

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Genetically Encoded Residue-Selective Photo-Crosslinker to Capture Protein-Protein Interactions in Living Cells

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Rapid, optimized interactomic screening

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Proteomic approaches to the study of papillomavirus–host interactions

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Next-generation Interactomics: Considerations for the Use of Co-elution to Measure Protein Interaction Networks

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Characterization of the CLASP2 Protein Interaction Network Identifies SOGA1 as a Microtubule-Associated Protein

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Affinity Proteomics to Study Endogenous Protein Complexes: Pointers, Pitfalls, Preferences and Perspectives

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CETSA in integrated proteomics studies of cellular processes

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Quantitative and Comparative Profiling of Protease Substrates through a Genetically Encoded Multifunctional Photocrosslinker

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Direct and Propagated Effects of Small Molecules on Protein–Protein Interaction Networks

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Exploring protein-protein interactions at the proteome level

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Cross-linking immunoprecipitation-MS (xIP-MS): Topological Analysis of Chromatin-associated Protein Complexes Using Single Affinity Purification

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Revealing Higher Order Protein Structure Using Mass Spectrometry

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Genetically encoded photocrosslinkers for identifying and mapping protein‐protein interactions in living cells

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Interaction Analysis through Proteomic Phage Display

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Inferring protein-protein interaction networks from mass spectrometry-based proteomic approaches: a mini-review

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Analysis of protein complexes in Arabidopsis leaves using size exclusion chromatography and label-free protein correlation profiling

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A user-friendly platform for yeast two-hybrid library screening using next generation sequencing

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Protein complexes and neighborhoods driving autophagy

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Utilizing a Biology-Driven Approach to Map the Exposome in Health and Disease: An Essential Investment to Drive the Next Generation of Environmental Discovery

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The Methods Employed in Mass Spectrometric Analysis of Posttranslational Modifications (PTMs) and Protein–Protein Interactions (PPIs)

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Protein-protein interactions involving enzymes of the mammalian methionine and homocysteine metabolism

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Marked by association: techniques for proximity-dependent labeling of proteins in eukaryotic cells

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MKRN3 Interacts With Several Proteins Implicated in Puberty Timing but Does Not Influence GNRH1 Expression

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Fam83h null mice support a neomorphic mechanism for human ADHCAI

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Recent Advances in Mass Spectrometry-Based Protein Interactome Studies

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A Versatile Lentiviral Delivery Toolkit for Proximity-dependent Biotinylation in Diverse Cell Types

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Combining Genomic and Proteomic Approaches for Epigenetics Research

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The calcified eggshell matrix proteome of a songbird, the zebra finch (Taeniopygia guttata)

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Surfaceome nanoscale organization and extracellular interaction networks.

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Impact of inherent biases built into proteomic techniques: Proximity labeling and affinity capture compared

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Next-Generation Sequencing for Binary Protein–Protein Interactions

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From proteomes to complexomes in the era of systems biology

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Target Identification of Kinase Inhibitor Alisertib (MLN8237) by Using DNA‐Programmed Affinity Labeling

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Systematic identification of structure-specific protein–protein interactions

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Proteomics of effector-triggered immunity (ETI) in plants

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Interactomics: toward protein function and regulation

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Protein complex analysis: From raw protein lists to protein interaction networks

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Genetically encoded releasable photo-cross-linking strategies for studying protein–protein interactions in living cells

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Stressor-induced proteome alterations in zebrafish: A meta-analysis of response patterns

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An Inducible Retroviral Expression System for Tandem Affinity Purification Mass-Spectrometry-Based Proteomics Identifies Mixed Lineage Kinase Domain-like Protein (MLKL) as an Heat Shock Protein 90 (HSP90) Client

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Mapping oncogenic protein interactions for precision medicine

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Integrative analysis of human omics data using biomolecular networks

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