Pattern recognition in bioinformatics

Positive-unlabeled learning for disease gene identification

(2012) Peng Yang et al.   BIOINFORMATICS

Multiple instance learning of Calmodulin binding sites

(2012) F. u. A. A. Minhas et al.   BIOINFORMATICS

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Computational tools for prioritizing candidate genes: boosting disease gene discovery

(2012) Yves Moreau et al.   NATURE REVIEWS GENETICS

Exploring Sequence Characteristics Related to High-Level Production of Secreted Proteins in Aspergillus niger

(2012) Bastiaan A. van den Berg et al.   PLoS One

Semi-supervised learning improves gene expression-based prediction of cancer recurrence

(2011) Mingguang Shi et al.   BIOINFORMATICS

Optimized application of penalized regression methods to diverse genomic data

(2011) Levi Waldron et al.   BIOINFORMATICS

ProDiGe: Prioritization Of Disease Genes with multitask machine learning from positive and unlabeled examples

(2011) Fantine Mordelet et al.   BMC BIOINFORMATICS

MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects

(2011) Carson Holt et al.   BMC BIOINFORMATICS

Using cross-validation to evaluate predictive accuracy of survival risk classifiers based on high-dimensional data

(2011) R. M. Simon et al.   BRIEFINGS IN BIOINFORMATICS

Principal component analysis based methods in bioinformatics studies

(2011) S. Ma et al.   BRIEFINGS IN BIOINFORMATICS

Predicting phenotypic variation in yeast from individual genome sequences

(2011) Rob Jelier et al.   NATURE GENETICS

Most Random Gene Expression Signatures Are Significantly Associated with Breast Cancer Outcome

(2011) David Venet et al.   PLoS Computational Biology

Over-optimism in bioinformatics: an illustration

(2010) M. Jelizarow et al.   BIOINFORMATICS

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

(2010) Yoichi Murakami et al.   BIOINFORMATICS

Learning gene regulatory networks from only positive and unlabeled data

(2010) Luigi Cerulo et al.   BMC BIOINFORMATICS

Active learning for human protein-protein interaction prediction

(2010) Thahir P Mohamed et al.   BMC BIOINFORMATICS

Active machine learning for transmembrane helix prediction

(2010) Hatice U Osmanbeyoglu et al.   BMC BIOINFORMATICS

Visualization of omics data for systems biology

(2010) Nils Gehlenborg et al.   NATURE METHODS

The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored

(2010) D. Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

An introduction to artificial neural networks in bioinformatics--application to complex microarray and mass spectrometry datasets in cancer studies

(2009) L. J. Lancashire et al.   BRIEFINGS IN BIOINFORMATICS

Evolutionary Optimization of Kernel Weights Improves Protein Complex Comembership Prediction

(2009) M. Hulsman et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Applying mass spectrometry-based proteomics to genetics, genomics and network biology

(2009) Matthias Gstaiger et al.   NATURE REVIEWS GENETICS

Sequence-based feature prediction and annotation of proteins

(2009) Agnieszka S Juncker et al.   GENOME BIOLOGY

Clinically driven semi-supervised class discovery in gene expression data

(2008) I. Steinfeld et al.   BIOINFORMATICS

Multidimensional scaling for large genomic data sets

(2008) Jengnan Tzeng et al.   BMC BIOINFORMATICS

A Semi-Supervised Method for Predicting Transcription Factor–Gene Interactions in Escherichia coli

(2008) Jason Ernst et al.   PLoS Computational Biology

Support Vector Machines and Kernels for Computational Biology

(2008) Asa Ben-Hur et al.   PLoS Computational Biology