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Fundamentals of protein interaction network map**
Studying protein interaction networks of all proteins in an organism (“interactomes”) remains
one of the major challenges in modern biomedicine. Such information is crucial to …
one of the major challenges in modern biomedicine. Such information is crucial to …
Characterizing endogenous protein complexes with biological mass spectrometry
R Rogawski, M Sharon - Chemical reviews, 2021 - ACS Publications
Biological mass spectrometry (MS) encompasses a range of methods for characterizing
proteins and other biomolecules. MS is uniquely powerful for the structural analysis of …
proteins and other biomolecules. MS is uniquely powerful for the structural analysis of …
Spectral clustering on protein-protein interaction networks via constructing affinity matrix using attributed graph embedding
The identification of protein complexes in protein-protein interaction networks is the most
fundamental and essential problem for revealing the underlying mechanism of biological …
fundamental and essential problem for revealing the underlying mechanism of biological …
Thermal proximity coaggregation for system-wide profiling of protein complex dynamics in cells
Proteins differentially interact with each other across cellular states and conditions, but an
efficient proteome-wide strategy to monitor them is lacking. We report the application of …
efficient proteome-wide strategy to monitor them is lacking. We report the application of …
An effective link-based clustering algorithm for detecting overlap** protein complexes in protein-protein interaction networks
Protein complexes are one most important kind of functional modules for biological
processes in cells. In this regard, their detection is vital for understanding the principle of cell …
processes in cells. In this regard, their detection is vital for understanding the principle of cell …
Computational approaches for detecting protein complexes from protein interaction networks: a survey
Background Most proteins form macromolecular complexes to perform their biological
functions. However, experimentally determined protein complex data, especially of those …
functions. However, experimentally determined protein complex data, especially of those …
Temporal dynamics of protein complex formation and dissociation during human cytomegalovirus infection
The co-evolution and co-existence of viral pathogens with their hosts for millions of years is
reflected in dynamic virus-host protein-protein interactions (PPIs) that are intrinsic to the …
reflected in dynamic virus-host protein-protein interactions (PPIs) that are intrinsic to the …
Identifying protein complexes and functional modules—from static PPI networks to dynamic PPI networks
Cellular processes are typically carried out by protein complexes and functional modules.
Identifying them plays an important role for our attempt to reveal principles of cellular …
Identifying them plays an important role for our attempt to reveal principles of cellular …
Efficiently detecting protein complexes from protein interaction networks via alternating direction method of multipliers
Protein complexes are crucial in improving our understanding of the mechanisms employed
by proteins. Various computational algorithms have thus been proposed to detect protein …
by proteins. Various computational algorithms have thus been proposed to detect protein …
From protein-protein interactions to protein co-expression networks: a new perspective to evaluate large-scale proteomic data
The reductionist approach of dissecting biological systems into their constituents has been
successful in the first stage of the molecular biology to elucidate the chemical basis of …
successful in the first stage of the molecular biology to elucidate the chemical basis of …