AIMC Topic: Protein Interaction Mapping

Clear Filters Showing 121 to 130 of 239 articles

Predicting protein complexes using a supervised learning method combined with local structural information.

PloS one Mar 19, 2018
The existing protein complex detection methods can be broadly divided into two categories: unsupervised and supervised learning methods. Most of the unsupervised learning methods assume that protein complexes are in dense regions of protein-protein i...
Algorithms Protein Interaction Maps Proteomics Protein Interaction Mapping Machine Learning Software
View on PubMed DOI

The Impact of Protein Structure and Sequence Similarity on the Accuracy of Machine-Learning Scoring Functions for Binding Affinity Prediction.

Biomolecules Mar 14, 2018
It has recently been claimed that the outstanding performance of machine-learning scoring functions (SFs) is exclusively due to the presence of training complexes with highly similar proteins to those in the test set. Here, we revisit this question u...
Protein Interaction Mapping Machine Learning Sequence Analysis, Protein Molecular Docking Simulation
View on PubMed DOI

MetaGO: Predicting Gene Ontology of Non-homologous Proteins Through Low-Resolution Protein Structure Prediction and Protein-Protein Network Mapping.

Journal of molecular biology Mar 10, 2018
Homology-based transferal remains the major approach to computational protein function annotations, but it becomes increasingly unreliable when the sequence identity between query and template decreases below 30%. We propose a novel pipeline, MetaGO,...
Proteins Models, Molecular Internet Protein Interaction Maps Computational Biology Protein Interaction Mapping Sequence Homology, Amino Acid Sequence Analysis, Protein Amino Acid Sequence Protein Conformation Gene Ontology Software Algorithms Reproducibility of Results
View on PubMed DOI

Representability of algebraic topology for biomolecules in machine learning based scoring and virtual screening.

PLoS computational biology Jan 8, 2018
This work introduces a number of algebraic topology approaches, including multi-component persistent homology, multi-level persistent homology, and electrostatic persistence for the representation, characterization, and description of small molecules...
Algorithms Protein Binding Computational Biology Neural Networks, Computer Machine Learning Area Under Curve Molecular Dynamics Simulation Ligands Models, Neurological Proteins Databases, Protein Humans Protein Interaction Mapping Nucleic Acids Static Electricity
View on PubMed DOI

Protein-Protein Interaction Article Classification Using a Convolutional Recurrent Neural Network with Pre-trained Word Embeddings.

Journal of integrative bioinformatics Dec 13, 2017
Curation of protein interactions from scientific articles is an important task, since interaction networks are essential for the understanding of biological processes associated with disease or pharmacological action for example. However, the increas...
Protein Interaction Mapping Algorithms Semantics Neural Networks, Computer
View on PubMed DOI

Utilizing knowledge base of amino acids structural neighborhoods to predict protein-protein interaction sites.

BMC bioinformatics Dec 6, 2017
BACKGROUND: Protein-protein interactions (PPI) play a key role in an investigation of various biochemical processes, and their identification is thus of great importance. Although computational prediction of which amino acids take part in a PPI has b...
Proteins Software Knowledge Bases Databases, Protein Protein Interaction Mapping Computational Biology Amino Acids Models, Statistical
View on PubMed DOI

PICKLE 2.0: A human protein-protein interaction meta-database employing data integration via genetic information ontology.

PloS one Oct 12, 2017
It has been acknowledged that source databases recording experimentally supported human protein-protein interactions (PPIs) exhibit limited overlap. Thus, the reconstruction of a comprehensive PPI network requires appropriate integration of multiple ...
Protein Interaction Mapping Databases, Genetic Databases, Protein Humans Gene Ontology Computational Biology
View on PubMed DOI

Protein complexes, big data, machine learning and integrative proteomics: lessons learned over a decade of systematic analysis of protein interaction networks.

Expert review of proteomics Sep 18, 2017
Elucidation of the networks of physical (functional) interactions present in cells and tissues is fundamental for understanding the molecular organization of biological systems, the mechanistic basis of essential and disease-related processes, and fo...
Systems Biology Humans Proteomics Machine Learning Protein Interaction Mapping Animals
View on PubMed DOI

A support vector machine classifier for the prediction of osteosarcoma metastasis with high accuracy.

International journal of molecular medicine Sep 7, 2017
In this study, gene expression profiles of osteosarcoma (OS) were analyzed to identify critical genes associated with metastasis. Five gene expression datasets were screened and downloaded from Gene Expression Omnibus (GEO). Following assessment by M...
Signal Transduction Support Vector Machine Osteosarcoma Bone Neoplasms Neoplasm Staging Gene Expression Profiling Neoplasm Metastasis Protein Interaction Maps Humans Protein Interaction Mapping Gene Expression Regulation, Neoplastic Reproducibility of Results
View on PubMed DOI

A Type-2 fuzzy data fusion approach for building reliable weighted protein interaction networks with application in protein complex detection.

Computers in biology and medicine Jun 23, 2017
Detecting the protein complexes is an important task in analyzing the protein interaction networks. Although many algorithms predict protein complexes in different ways, surveys on the interaction networks indicate that about 50% of detected interact...
Semantics Protein Interaction Mapping Algorithms Multiprotein Complexes Fuzzy Logic Gene Expression Profiling Protein Interaction Maps Databases, Protein Computational Biology
View on PubMed DOI
Popular Topics
Recent Journals