DeNovo: virus-host sequence-based protein–protein interaction prediction
نویسندگان
چکیده
منابع مشابه
Evidence of the COVID-19 Virus Targeting the CNS: Tissue Distribution, Host–Virus Interaction, and Proposed Neurotropic Mechanisms
The recent outbreak of coronavirus infectious disease 2019 (COVID- 19) has gripped the world with apprehension and has evoked a scare of epic proportion regarding its potential to spread and infect humans worldwide. Scientists are struggling to understand how it resembles and differs from the severe acute respiratory syndrome coronavirus (SARSCoV) at the genomic and transcriptomic level. Simila...
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This paper develops sequence-based methods for identifying novel protein-protein interactions (PPIs) by means of support vector machines (SVMs). The authors encode proteins ont only in the gene level but also in the amino acid level, and design a procedure to select negative training set for dealing with the training dataset imbalance problem, i.e., the number of interacting protein pairs is sc...
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MOTIVATION Many computerized methods for RNA-RNA interaction structure prediction have been developed. Recently, O(N(6)) time and O(N(4)) space dynamic programming algorithms have become available that compute the partition function of RNA-RNA interaction complexes. However, few of these methods incorporate the knowledge concerning related sequences, thus relevant evolutionary information is of...
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New infectious viruses appear regularly, established ones fail to be eradicated, posing significant challenges to public health. Our lack of understanding of the intimate relationship between viruses and their hosts makes it difficult to develop effective therapies. Protein-protein interactions (PPIs) are key players in the cell generally and viruses exploit them for their purposes. Considerabl...
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Studies on the virus-cell interactions have proven valuable in elucidating vital cellular processes. Interestingly, certain virus-host membrane interactions found in eukaryotic systems seem also to operate in prokaryotes (Bamford, D.H., M. Romantschuk, and P. J. Somerharju, 1987. EMBO (Eur. Mol. Biol. Organ.) J. 6:1467-1473; Romantschuk, M., V.M. Olkkonen, and D.H. Bamford. 1988. EMBO (Eur. Mol...
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2015
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/btv737