Kasim / Shkedy / Kaiser Applied Biclustering Methods for Big and High-Dimensional Data Using R

Erscheinungsjahr 2016
ISBN: 978-1-4822-0824-5
Verlag: Taylor & Francis
Format: PDF
Kopierschutz: Adobe DRM (»Systemvoraussetzungen)

E-Book, Englisch, 428 Seiten

Reihe: Chapman & Hall/CRC Biostatistics Series

Proven Methods for Big Data Analysis

As big data has become standard in many application areas, challenges have arisen related to methodology and software development, including how to discover meaningful patterns in the vast amounts of data. Addressing these problems, Applied Biclustering Methods for Big and High-Dimensional Data Using R shows how to apply biclustering methods to find local patterns in a big data matrix.

The book presents an overview of data analysis using biclustering methods from a practical point of view. Real case studies in drug discovery, genetics, marketing research, biology, toxicity, and sports illustrate the use of several biclustering methods. References to technical details of the methods are provided for readers who wish to investigate the full theoretical background. All the methods are accompanied with R examples that show how to conduct the analyses. The examples, software, and other materials are available on a supplementary website.

Zielgruppe

This book is intended for biostatisticians who work in the pharmaceutical industry or biomedical sciences. It also would also be useful to biologists who generate big or high dimensional data, market analysis and drug development, as well as to researchers in health and lifestyle and post graduate students in those application areas.

Autoren/Hrsg.

Kasim, Adetayo

Shkedy, Ziv

Kaiser, Sebastian

Hochreiter, Sepp

Talloen, Willem

Fachgebiete

• Mathematik | Informatik Mathematik Stochastik

Inhaltsverzeichnis

Introduction

Ziv Shkedy, Adetayo Kasim, Sepp Hochreiter, Sebastian Kaiser, and Willem Talloen

From Cluster Analysis to Biclustering

Dhammika Amaratunga, Javier Cabrera, Nolen Joy Perualila, Adetayo Kasim, and Ziv Shkedy

Biclustering Methods

d-biclustering and FLOC Algorithm

Adetayo Kasim, Sepp Hochreiter, and Ziv Shkedy

The xMotif Algorithm

Ewoud De Troyer, Dan Lin, Ziv Shkedy, and Sebastian Kaiser

The Bimax Algorithm

Ewoud De Troyer, Suzy Van Sanden, Ziv Shkedy, and Sebastian Kaiser

The Plaid Model

Ziv Shkedy, Ewoud De Troyer, Adetayo Kasim, Sepp Hochreiter, and Heather Turner

Spectral Biclustering

Adetayo Kasim, Setia Pramana, and Ziv Shkedy

FABIA

Sepp Hochreiter

Iterative Signature Algorithm

Adetayo Kasim and Ziv Shkedy

Ensemble Methods and Robust Solutions

Tatsiana Khamiakova, Sebastian Kasier, and Ziv Shkedy

Case Studies and Applications

Gene Expression Experiments in Drug Discovery
Willem Talloen, Hinrich W.H. Göhlmann, Bie Verbist, Nolen Joy Perualila, Ziv Shkedy, Adetayo Kasim, and the QSTAR Consortium

Biclustering Methods in Chemoinformatics and Molecular Modeling

Nolen Joy Perualila, Ziv Shkedy, Aakash Chavan Ravindranath, Georgios Drakakis, Sonia Liggi, Andreas Bender, Adetayo Kasim, QSTAR Consortium, Willem Talloen, and Hinrich. W.H. Göhlmann

Integrative Analysis of miRNA and mRNA Data

Tatsiana Khamiakova, Adetayo Kasim and Ziv Shkedy

Enrichment of Gene Expression Modules using Multiple Factor Analysis and Biclustering

Nolen Joy Perualila, Ziv Shkedy, Dhammika Amaratunga, Javier Cabrera, and Adetayo Kasim

Ranking of Biclusters in Drug Discovery Experiments
Nolen Joy Perualila, Ziv Shkedy, Sepp Hochreiter, and Djork-Arne Clevert

HapFABIA: Biclustering for Detecting Identity by Descent

Sepp Hochreiter

Overcoming Data Dimensionality Problems in Market Segmentation
Sebastian Kaiser Sara Dolnicar, Katie Lazarevski, and Friedrich Leisch

Identification of Local Patterns in the NBA Performance Indicators
Ziv Shkedy, Rudradev Sengupta, and Nolen Joy Perualila

R Tools for Biclustering

The BiclustGUI Package

Ewoud De Troyer, Martin Otava, Jitao David Zhang, Setia Pramana, Tatsiana Khamiakova, Sebastian Kaiser, Martin Sill, Aedin Culhane, Daniel Gusenleitner,Pierre Gestraud, Gabor Csardi, Mengsteab Aregay, Sepp Hochreiter, Gunter Klambauer, Djork-Arne Clevert, Tobias Verbeke, Nolen Joy Perualila, Adetayo Kasim, and Ziv Shkedy

We R a Community: Including a New Package in BiclustGUI

Ewoud De Troyer

Biclustering for Cloud Computing

Rudradev Sengupta, Oswaldo Trelles, Oscar Torreno Tirado, and Ziv Shkedy

The biclustGUI Shiny App

Ewoud De Troyer, Rudradev Sengupta, Martin Otava, Jitao David Zhang, Sebastian Kaiser, Aedin Culhane, Daniel Gusenleitner, Pierre Gestraud, Gabor Csardi, Sepp Hochreiter, Gunter Klambauer, Djork-Arne Clevert, Nolen Joy Perualila, Adetayo Kasim, and Ziv Shkedy

Bibliography

Index

Über Autor(innen)

Adetayo Kasim is a senior research statistician at Durham University.

Ziv Shkedy is a professor in the Interuniversity Institute for Biostatistics and Statistical Bioinformatics (I-BioStat) in the Center for Statistics at the University of Hasselt.

Sebastian Kaiser is a professor in the Department of Statistics in the Faculty of Mathematics, Informatics and Statistics at Ludwig-Maximilians University of Munich.

Sepp Hochreiter is a professor and head of the Institute of Bioinformatics at Johannes Kepler University Linz.

Willem Talloen is a principal statistician at the Janssen Pharmaceutical Companies of Johnson & Johnson.