How to Use Chipster for Bioinformatics Analysis of Nanomaterial-Based Omics Data
Penny Nymark
Friederike Ehrhart
Egon Willighagen
10.6084/m9.figshare.4658803.v1
https://figshare.com/articles/journal_contribution/How_to_Use_Chipster_for_Bioinformatics_Analysis_of_Nanomaterial-Based_Omics_Data/4658803
<p>This tutorial will get you started on the basic use of the
bioinformatics tool Chipster, an alternative to ArrayAnalysis.org
described in other eNM tutorials. It will guide you through the import
of microarray data (Affymetrix .CEL files), quality checks,
normalization, pre-processing, basic statistical analyses methods and
visualization of your data. Chipster is not specific to the nanosafety
field, but this tutorial will be focused on the specific needs of
nanotoxicological research.</p>
<p>Chipster is an open source user-friendly analysis software for
high-throughput data analysis. It offers over 350 bioinformatics tools
and it is constantly updated according to the latest state-of-the-art
tools and scripts. Users can analyse and visualize data interactively,
and share complete analysis sessions and automatic workflows with
colleagues. Chipster supports the analysis of over 120 different
microarray platforms, including the most common types by Affymetrix,
Agilent and Illumina. In addition, Chipster has extensive functions and
tools for the analysis of NGS data.</p>
<p>For additional and deeper guidance on how to use Chipster, beyond
this tutorial, see the website with manuals and tutorials or contact the
Chipster team. The website also includes guidance on how to analyze
next-generation sequencing (NGS) data in Chipster.</p>
2017-02-16 12:37:23
Microarray datasets
quality control method
Pathway Analysis
systems Biology Approaches
Nanomaterials
Bioinformatics
Nanomaterials
Genomics