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 …

Gene expression divergence and the origin of hybrid dysfunctions

D Ortíz-Barrientos, BA Counterman, MAF Noor - Genetica, 2007 - Springer
Hybrids between closely related species are often sterile or inviable as a consequence of
failed interactions between alleles from the different species. Most genetic studies have …

Use of within-array replicate spots for assessing differential expression in microarray experiments

GK Smyth, J Michaud, HS Scott - Bioinformatics, 2005 - academic.oup.com
Motivation: Spotted arrays are often printed with probes in duplicate or triplicate, but current
methods for assessing differential expression are not able to make full use of the resulting …

Serum microRNA array analysis identifies miR-140-3p, miR-33b-3p and miR-671-3p as potential osteoarthritis biomarkers involved in metabolic processes

E Ntoumou, M Tzetis, M Braoudaki, G Lambrou… - Clinical …, 2017 - Springer
Background MicroRNAs (miRNAs) in circulation have emerged as promising biomarkers. In
this study, we aimed to identify a circulating miRNA signature for osteoarthritis (OA) patients …

[BOG][B] Understanding bioinformatics

M Zvelebil, JO Baum - 2007 - taylorfrancis.com
Suitable for advanced undergraduates and postgraduates, Understanding Bioinformatics
provides a definitive guide to this vibrant and evolving discipline. The book takes a …

A new statistic for identifying batch effects in high-throughput genomic data that uses guided principal component analysis

SE Reese, KJ Archer, TM Therneau, EJ Atkinson… - …, 2013 - academic.oup.com
Motivation: Batch effects are due to probe-specific systematic variation between groups of
samples (batches) resulting from experimental features that are not of biological interest …

[BOG][B] Multiobjective genetic algorithms for clustering: applications in data mining and bioinformatics

U Maulik, S Bandyopadhyay, A Mukhopadhyay - 2011 - books.google.com
This is the first book primarily dedicated to clustering using multiobjective genetic algorithms
with extensive real-life applications in data mining and bioinformatics. The authors first offer …

[BOG][B] Handbook of molecular and cellular methods in biology and medicine

LJ Cseke, A Kirakosyan, PB Kaufman, MV Westfall - 2011 - books.google.com
Several milestones in biology have been achieved since the first publication of the
Handbook of Molecular and Cellular Methods in Biology and Medicine. This is true …

GEMS: a system for automated cancer diagnosis and biomarker discovery from microarray gene expression data

A Statnikov, I Tsamardinos, Y Dosbayev… - International journal of …, 2005 - Elsevier
The success of treatment of patients with cancer depends on establishing an accurate
diagnosis. To this end, we have built a system called GEMS (gene expression model …

Genome-wide analysis of spatial gene expression in Arabidopsis flowers

F Wellmer, JL Riechmann, M Alves-Ferreira… - The Plant …, 2004 - academic.oup.com
We have compared the gene expression profiles of inflorescences of the floral homeotic
mutants apetala1, apetala2, apetala3, pistillata, and agamous with that of wild-type plants …