[HTML][HTML] Deep learning frameworks for protein–protein interaction prediction

X Hu, C Feng, T Ling, M Chen - Computational and structural …, 2022 - Elsevier
Protein-protein interactions (PPIs) play key roles in a broad range of biological processes.
The disorder of PPIs often causes various physical and mental diseases, which makes PPIs …

Machine-learning techniques for the prediction of protein–protein interactions

D Sarkar, S Saha - Journal of biosciences, 2019 - Springer
Protein–protein interactions (PPIs) are important for the study of protein functions and
pathways involved in different biological processes, as well as for understanding the cause …

Random forest for bioinformatics

Y Qi - Ensemble machine learning: Methods and applications, 2012 - Springer
Modern biology has experienced an increased use of machine learning techniques for large
scale and complex biological data analysis. In the area of Bioinformatics, the Random Forest …

Data mining in the Life Sciences with Random Forest: a walk in the park or lost in the jungle?

WG Touw, JR Bayjanov, L Overmars… - Briefings in …, 2013 - academic.oup.com
Abstract In the Life Sciences 'omics' data is increasingly generated by different high-
throughput technologies. Often only the integration of these data allows uncovering …

A computational-based method for predicting drug–target interactions by using stacked autoencoder deep neural network

L Wang, ZH You, X Chen, SX Xia, F Liu… - Journal of …, 2018 - liebertpub.com
Identifying the interaction between drugs and target proteins is an important area of drug
research, which provides a broad prospect for low-risk and faster drug development …

[PDF][PDF] Oversampling method for imbalanced classification

Z Zheng, Y Cai, Y Li - Computing and Informatics, 2015 - cai.sk
Classification problem for imbalanced datasets is pervasive in a lot of data mining domains.
Imbalanced classification has been a hot topic in the academic community. From data level …

Applying the Naïve Bayes classifier with kernel density estimation to the prediction of protein–protein interaction sites

Y Murakami, K Mizuguchi - Bioinformatics, 2010 - academic.oup.com
Motivation: The limited availability of protein structures often restricts the functional
annotation of proteins and the identification of their protein–protein interaction sites …

DELPHI: accurate deep ensemble model for protein interaction sites prediction

Y Li, GB Golding, L Ilie - Bioinformatics, 2021 - academic.oup.com
Motivation Proteins usually perform their functions by interacting with other proteins, which is
why accurately predicting protein–protein interaction (PPI) binding sites is a fundamental …

SCRIBER: accurate and partner type-specific prediction of protein-binding residues from proteins sequences

J Zhang, L Kurgan - Bioinformatics, 2019 - academic.oup.com
Motivation Accurate predictions of protein-binding residues (PBRs) enhances understanding
of molecular-level rules governing protein–protein interactions, helps protein–protein …

iPPBS-Opt: a sequence-based ensemble classifier for identifying protein-protein binding sites by optimizing imbalanced training datasets

J Jia, Z Liu, X Xiao, B Liu, KC Chou - Molecules, 2016 - mdpi.com
Knowledge of protein-protein interactions and their binding sites is indispensable for in-
depth understanding of the networks in living cells. With the avalanche of protein sequences …