Performance measures in evaluating machine learning based bioinformatics predictors for classifications

Y Jiao, P Du - Quantitative Biology, 2016 - Springer
Background Many existing bioinformatics predictors are based on machine learning
technology. When applying these predictors in practical studies, their predictive …

Machine learning in bioinformatics: A brief survey and recommendations for practitioners

H Bhaskar, DC Hoyle, S Singh - Computers in biology and medicine, 2006 - Elsevier
Machine learning is used in a large number of bioinformatics applications and studies. The
application of machine learning techniques in other areas such as pattern recognition has …

An empirical assessment of validation practices for molecular classifiers

PJ Castaldi, IJ Dahabreh… - Briefings in …, 2011 - academic.oup.com
Proposed molecular classifiers may be overfit to idiosyncrasies of noisy genomic and
proteomic data. Cross-validation methods are often used to obtain estimates of classification …

IntegratedMRF: random forest-based framework for integrating prediction from different data types

R Rahman, J Otridge, R Pal - Bioinformatics, 2017 - academic.oup.com
IntegratedMRF is an open-source R implementation for integrating drug response
predictions from various genomic characterizations using univariate or multivariate random …

Ten quick tips for machine learning in computational biology

D Chicco - BioData mining, 2017 - Springer
Abstract Machine learning has become a pivotal tool for many projects in computational
biology, bioinformatics, and health informatics. Nevertheless, beginners and biomedical …

Predicting gene function in a hierarchical context with an ensemble of classifiers

Y Guan, CL Myers, DC Hess, Z Barutcuoglu, AA Caudy… - Genome biology, 2008 - Springer
Background: The wide availability of genome-scale data for several organisms has
stimulated interest in computational approaches to gene function prediction. Diverse …

Data-driven advice for applying machine learning to bioinformatics problems

RS Olson, WL Cava, Z Mustahsan, A Varik… - Pacific symposium on …, 2018 - World Scientific
As the bioinformatics field grows, it must keep pace not only with new data but with new
algorithms. Here we contribute a thorough analysis of 13 state-of-the-art, commonly used …

StAR: a simple tool for the statistical comparison of ROC curves

IA Vergara, T Norambuena, E Ferrada, AW Slater… - BMC …, 2008 - Springer
Background As in many different areas of science and technology, most important problems
in bioinformatics rely on the proper development and assessment of binary classifiers. A …

An empirical comparison of supervised machine learning techniques in bioinformatics

AC Tan, D Gilbert - 2003 - bura.brunel.ac.uk
Research in bioinformatics is driven by the experimental data. Current biological databases
are populated by vast amounts of experimental data. Machine learning has been widely …

Machine learning: an indispensable tool in bioinformatics

I Inza, B Calvo, R Armananzas, E Bengoetxea… - … methods in clinical …, 2009 - Springer
The increase in the number and complexity of biological databases has raised the need for
modern and powerful data analysis tools and techniques. In order to fulfill these …