Functional and topological characterization of protein interaction networks

By Soon-Hyung Yook, Zoltn Oltvai, Albert-László Barabási. Proteomics, 2004

647 citations recorded by the source corpus.

Subfields: Computational Theory and Mathematics, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/4056836fd0cdb72f6527c10a94684307f5c390a6

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Computational Theory and Mathematics

In Molecular Biology

Citations in the corpus

Power-Law Distributions in Empirical Data (2007, background): “44 [69], which is quite different from, and incompatible with, the value we find of 3.”
Graph theory and networks in Biology. (2006, background): “3, and for protein interaction networks in [61, 72, 73].”
A core-attachment based method to detect protein complexes in PPI networks (2009, background): “This is reasonable to form preliminary cores because proteins with high degrees in PPI network serve important biological roles [24,25] and tend to be in the "hearts" of protein complexes.”
Scale-free networks in cell biology (2005, background): “Figure reproduced with permission from Wiley-VCH (Yook et al., 2004).”
Protein networks in disease. (2008, background): “In yeast protein–protein interaction networks, the degree was found to follow a power law (Yook et al. 2004) or a truncated power-law distribution (Huang et al.”
Predicting protein functions with message passing algorithms (2004, background): “suggest that there is an evidence for a stabilization toward a scale-free-like form (Yook et al., 2004).”
Enhancing the Prioritization of Disease-Causing Genes through Tissue Specific Protein Interaction Networks (2012, background): “generic PPI networks tends to have a single giant connected component containing most of the network’s nodes [41], the NR”
A protein-protein interaction network for human inherited ataxias and disorders of Purkinje cell degeneration. (2006, background): “Given, however, that the protein interaction network has a hierarchical structure (Yook et al., 2004) and displays degree–degree correlations (Maslov and Sneppen, 2002), the difference between the two exponents will be less than one.”
Pairwise Global Alignment of Protein Interaction Networks by Matching Neighborhood Topology (2007, background): “Computational analyses of these networks has already yielded valuable insights: the scale-free character of these networks and the disproportionate importance of “hub” proteins [30]; the combination of these networks with gene expression data to discern some of the dynamic character of the cell [8];”
Evaluation of clustering algorithms for protein-protein interaction networks (2006, background): “These analyses have led to the observation of some apparently recurrent properties of biological networks: power-law degree distribution, small world, high clustering coefficients, and modularity [10-15].”
Human disease classification in the postgenomic era: A complex systems approach to human pathobiology (2007, background): “Indeed, the protein products of the genes that belong to common disorder classes tend to interact with each other via protein–protein interactions, to display high coexpression levels, and to exhibit synchronized expression as a group (Yook et al, 2004).”