[PDF][PDF] Bipartite graphs in systems biology and medicine: a survey of methods and applications

GA Pavlopoulos, PI Kontou, A Pavlopoulou… - …, 2018 - academic.oup.com
The latest advances in high-throughput techniques during the past decade allowed the
systems biology field to expand significantly. Today, the focus of biologists has shifted from …

It is time to apply biclustering: a comprehensive review of biclustering applications in biological and biomedical data

J **e, A Ma, A Fennell, Q Ma, J Zhao - Briefings in bioinformatics, 2019 - academic.oup.com
Biclustering is a powerful data mining technique that allows clustering of rows and columns,
simultaneously, in a matrix-format data set. It was first applied to gene expression data in …

FABIA: factor analysis for bicluster acquisition

S Hochreiter, U Bodenhofer, M Heusel, A Mayr… - …, 2010 - academic.oup.com
Motivation: Biclustering of transcriptomic data groups genes and samples simultaneously. It
is emerging as a standard tool for extracting knowledge from gene expression …

A systematic comparative evaluation of biclustering techniques

VA Padilha, RJGB Campello - BMC bioinformatics, 2017 - Springer
Background Biclustering techniques are capable of simultaneously clustering rows and
columns of a data matrix. These techniques became very popular for the analysis of gene …

QUBIC: a qualitative biclustering algorithm for analyses of gene expression data

G Li, Q Ma, H Tang, AH Paterson, Y Xu - Nucleic acids research, 2009 - academic.oup.com
Biclustering extends the traditional clustering techniques by attempting to find (all)
subgroups of genes with similar expression patterns under to-be-identified subsets of …

A roadmap of clustering algorithms: finding a match for a biomedical application

B Andreopoulos, A An, X Wang… - Briefings in …, 2009 - academic.oup.com
Clustering is ubiquitously applied in bioinformatics with hierarchical clustering and k-means
partitioning being the most popular methods. Numerous improvements of these two …

Integrated biclustering of heterogeneous genome-wide datasets for the inference of global regulatory networks

DJ Reiss, NS Baliga, R Bonneau - BMC bioinformatics, 2006 - Springer
Background The learning of global genetic regulatory networks from expression data is a
severely under-constrained problem that is aided by reducing the dimensionality of the …

[KNIHA][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 …

Bayesian biclustering of gene expression data

J Gu, JS Liu - BMC genomics, 2008 - Springer
Background Biclustering of gene expression data searches for local patterns of gene
expression. A bicluster (or a two-way cluster) is defined as a set of genes whose expression …

Biclustering methods: biological relevance and application in gene expression analysis

A Oghabian, S Kilpinen, S Hautaniemi, E Czeizler - PloS one, 2014 - journals.plos.org
DNA microarray technologies are used extensively to profile the expression levels of
thousands of genes under various conditions, yielding extremely large data-matrices. Thus …