Paper Info
Title
RPPApipe: a pipeline for the analysis of reverse-phase protein array data.
Abstract
Background and scope: Today, web-based data analysis pipelines exist for a wide variety of microarray platforms, such as ordinary gene-centered arrays, exon arrays and SNP arrays. However, most of the available software tools provide only limited support for reverse-phase protein arrays (RPPA), as relevant inherent properties of the corresponding datasets are not taken into account. Thus, we developed the web-based data analysis pipeline RPPApipe, which was specifically tailored to suit the characteristics of the RPPA platform and encompasses various tools for data preprocessing, statistical analysis, clustering and pathway analysis. Implementation and performance: All tools which are part of the RPPApipe software were implemented using R/Bioconductor. The software was embedded into our web-based ZBIT Bioinformatics Toolbox which is a customized instance of the Galaxy platform. Availability: RPPApipe is freely available under GNU Public License from http://webservices.cs.unituebingen.de. A full documentation of the tool can be found on the corresponding website http://www. cogsys.cs.uni-tuebingen.de/software/RPPApipe. (C) 2014 Elsevier Ireland Ltd. All rights reserved.
Year
DOI
Venue
2014
10.1016/j.biosystems.2014.06.009
Biosystems
Keywords
Field
DocType
Reverse-phase protein arrays,Web application,Statistical analysis,Clustering,Pathway analysis,Visualization
Data mining,Computer science,Toolbox,Data pre-processing,Software,Artificial intelligence,Web application,Cluster analysis,Software engineering,Visualization,Bioconductor,Web service,Machine learning
Journal
Volume
ISSN
Citations 
122
0303-2647
0
PageRank 
References 
Authors
0.34
8
9
Name
Order
Citations
PageRank
Johannes Eichner1322.98
Yvonne Heubach200.34
Manuel Ruff300.34
Hella Kohlhof400.34
Stefan Strobl500.34
Barbara Mayer600.34
Michael Pawlak700.34
Markus F Templin811.16
Andreas Zell9232.76