AIMC Topic: Protein Interaction Mapping

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An Efficient Semi-supervised Learning Approach to Predict SH2 Domain Mediated Interactions.

Methods in molecular biology (Clifton, N.J.) Jan 1, 2017
Src homology 2 (SH2) domain is an important subclass of modular protein domains that plays an indispensable role in several biological processes in eukaryotes. SH2 domains specifically bind to the phosphotyrosine residue of their binding peptides to ...
Computational Biology Signal Transduction Databases, Protein Algorithms Reproducibility of Results Protein Binding Phosphotyrosine Web Browser Protein Interaction Domains and Motifs src Homology Domains Workflow Humans Supervised Machine Learning Protein Interaction Mapping
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Identification of self-interacting proteins by exploring evolutionary information embedded in PSI-BLAST-constructed position specific scoring matrix.

Oncotarget Dec 13, 2016
Self-interacting Proteins (SIPs) play an essential role in a wide range of biological processes, such as gene expression regulation, signal transduction, enzyme activation and immune response. Because of the limitations for experimental self-interact...
Databases, Protein Principal Component Analysis Fungal Proteins Position-Specific Scoring Matrices Humans Protein Interaction Mapping Sequence Analysis, Protein Computational Biology Support Vector Machine
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Detecting reliable non interacting proteins (NIPs) significantly enhancing the computational prediction of protein-protein interactions using machine learning methods.

Molecular bioSystems Mar 1, 2016
Protein-protein interactions (PPIs) play a vital role in most biological processes. Hence their comprehension can promote a better understanding of the mechanisms underlying living systems. However, besides the cost and the time limitation involved i...
ROC Curve Protein Binding Computational Biology Databases, Protein Machine Learning Reproducibility of Results Sample Size Probability Protein Interaction Mapping
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A systematic approach to prioritize drug targets using machine learning, a molecular descriptor-based classification model, and high-throughput screening of plant derived molecules: a case study in oral cancer.

Molecular bioSystems Dec 1, 2015
Systems-biology inspired identification of drug targets and machine learning-based screening of small molecules which modulate their activity have the potential to revolutionize modern drug discovery by complementing conventional methods. To utilize ...
High-Throughput Screening Assays Molecular Conformation Binding Sites Receptors, CXCR4 Models, Molecular Mouth Neoplasms Protein Interaction Mapping Cell Line, Tumor ROC Curve Gene Regulatory Networks Gene Expression Regulation, Neoplastic Antineoplastic Agents, Phytogenic Protein Binding Computational Biology Humans Machine Learning Drug Discovery
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Protein-protein interaction site prediction in Homo sapiens and E. coli using an interaction-affinity based membership function in fuzzy SVM.

Journal of biosciences Oct 1, 2015
Protein-protein interaction (PPI) site prediction aids to ascertain the interface residues that participate in interaction processes. Fuzzy support vector machine (F-SVM) is proposed as an effective method to solve this problem, and we have shown tha...
Support Vector Machine Humans Protein Interaction Mapping Escherichia coli Gene Expression Sensitivity and Specificity Protein Interaction Domains and Motifs Databases, Protein Fuzzy Logic Escherichia coli Proteins Area Under Curve
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Protein interaction network constructing based on text mining and reinforcement learning with application to prostate cancer.

IET systems biology Aug 1, 2015
Constructing interaction network from biomedical texts is a very important and interesting work. The authors take advantage of text mining and reinforcement learning approaches to establish protein interaction network. Considering the high computatio...
Periodicals as Topic PubMed Data Mining Neoplasm Proteins Natural Language Processing Humans Prostatic Neoplasms Machine Learning Protein Interaction Mapping Male Signal Transduction
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Predicting Protein-Protein Interaction Sites with a Novel Membership Based Fuzzy SVM Classifier.

IEEE/ACM transactions on computational biology and bioinformatics Jan 1, 2015
Predicting residues that participate in protein-protein interactions (PPI) helps to identify, which amino acids are located at the interface. In this paper, we show that the performance of the classical support vector machine (SVM) algorithm can furt...
Molecular Sequence Data Sequence Alignment Sequence Analysis, Protein Fuzzy Logic Binding Sites Algorithms Humans Amino Acid Sequence Computer Simulation Models, Statistical Protein Interaction Mapping Pattern Recognition, Automated Protein Binding Models, Chemical
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Fuzzy Logic as a Computational Tool for Quantitative Modelling of Biological Systems with Uncertain Kinetic Data.

IEEE/ACM transactions on computational biology and bioinformatics Jan 1, 2015
Quantitative modelling of biological systems has become an indispensable computational approach in the design of novel and analysis of existing biological systems. However, kinetic data that describe the system's dynamics need to be known in order to...
Gene Expression Profiling Proteome Signal Transduction Fuzzy Logic Protein Interaction Mapping Models, Statistical Humans Kinetics Animals Models, Biological
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A label distance maximum-based classifier for multi-label learning.

Bio-medical materials and engineering Jan 1, 2015
Multi-label classification is useful in many bioinformatics tasks such as gene function prediction and protein site localization. This paper presents an improved neural network algorithm, Max Label Distance Back Propagation Algorithm for Multi-Label ...
Pattern Recognition, Automated Protein Interaction Mapping Sensitivity and Specificity Gene Expression Profiling Proteome Machine Learning Algorithms Reproducibility of Results
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