Improved prediction of protein–protein interactions using novel negative samples, features, and an ensemble classifier

L Wei, P **ng, J Zeng, JX Chen, R Su, F Guo - Artificial Intelligence in …, 2017 - Elsevier
Computational methods are employed in bioinformatics to predict protein–protein
interactions (PPIs). PPIs and protein–protein non-interactions (PPNIs) display different levels …

[SÁCH][B] Biomolecular networks: methods and applications in systems biology

AY Zomaya, Y Pan - 2009 - books.google.com
Alternative techniques and tools for analyzing biomolecular networks With the recent rapid
advances in molecular biology, high-throughput experimental methods have resulted in …

[HTML][HTML] A high efficient biological language model for predicting protein–protein interactions

Y Wang, ZH You, S Yang, X Li, TH Jiang, X Zhou - Cells, 2019 - mdpi.com
Many life activities and key functions in organisms are maintained by different types of
protein–protein interactions (PPIs). In order to accelerate the discovery of PPIs for different …

A pitfall for machine learning methods aiming to predict across cell types

J Schreiber, R Singh, J Bilmes, WS Noble - Genome biology, 2020 - Springer
Abstract Machine learning models that predict genomic activity are most useful when they
make accurate predictions across cell types. Here, we show that when the training and test …

PCVMZM: using the probabilistic classification vector machines model combined with a zernike moments descriptor to predict protein–protein interactions from protein …

Y Wang, Z You, X Li, X Chen, T Jiang… - International journal of …, 2017 - mdpi.com
Protein–protein interactions (PPIs) are essential for most living organisms' process. Thus,
detecting PPIs is extremely important to understand the molecular mechanisms of biological …

Computational models for prediction of protein–protein interaction in rice and Magnaporthe grisea

B Karan, S Mahapatra, SS Sahu, DM Pandey… - Frontiers in Plant …, 2023 - frontiersin.org
Introduction Plant–microbe interactions play a vital role in the development of strategies to
manage pathogen-induced destructive diseases that cause enormous crop losses every …

From protein-protein interactions to rational drug design: are computational methods up to the challenge?

ED Coelho, JP Arrais… - Current topics in medicinal …, 2013 - ingentaconnect.com
The study of protein-protein interactions (PPIs) has been growing for some years now,
mainly as a result of easy access to high-throughput experimental data. Several …

A new feature vector based on gene ontology terms for protein-protein interaction prediction

S Bandyopadhyay, K Mallick - IEEE/ACM transactions on …, 2016 - ieeexplore.ieee.org
Protein-protein interaction (PPI) plays a key role in understanding cellular mechanisms in
different organisms. Many supervised classifiers like Random Forest (RF) and Support …

Mining from protein–protein interactions

H Mamitsuka - Wiley Interdisciplinary Reviews: Data Mining and …, 2012 - Wiley Online Library
Proteins are important cellular molecules, and interacting protein pairs provide biologically
important information, such as functional relationships. We focus on the problem of …

Predicting protein-protein interactions using high-quality non-interacting pairs

L Zhang, G Yu, M Guo, J Wang - BMC bioinformatics, 2018 - Springer
Background Identifying protein-protein interactions (PPIs) is of paramount importance for
understanding cellular processes. Machine learning-based approaches have been …