GPCF Bioinformatics

Bioinformatics at the GPCF Microarray Unit

The DKFZ Microarray Core Facility provide access to full service of state-of-the-art molecular profiling based on Affymetrix, Illumina and Agilent technology for members of DKFZ, NCT, DKTK and their collaborators.

We provide basic analysis of microarray data covering group analysis and differential expression and methylation comparisons using state of the art analysis workflows implemented in R (www.r-project.org) and for performance critical parts in Julia (julialang.org). Part of our effort is to provide secure and convenient access to the data produced, archiving data according to good scientific practice and giving access to new and archived data to the scientists seamlessly but securely with respect to data privacy. For non-standard analysis needs we provide access, training and support to Ingenuity Pathway Analysis (Qiagen) and to Chipster (chipster.csc.fi), a well-established open source client-server analysis application and graphical frontend to Bioconductor and other tools.

 

Local installations of bioinformatics tools:

Chipster

Chipster allows you to perform DNA microarray data analysis using R/Bioconductor and other tools through an intuitive graphical user interface.

Ingenuity Pathway Analysis

IPA is software that helps researchers model, analyze, and understand the complex biological and chemical systems at the core of life science research. It helps to understand complex 'omics data at multiple levels by integrating data from a variety of experimental platforms and providing insight into the molecular and chemical interactions, cellular phenotypes, and disease processes of your system.

 

HUSAR (Heidelberg Unix Sequence Analysis Resources)

HUSAR provides access to more than 200 locally installed most up-to-date databases and offers a large number of applications for DNA and protein analysis. HUSAR is running on a central server at DKFZ but all tools in HUSAR can be accessed via the same Web-interface (W2H) so the only thing you need is a local computer with a web-browser (like Firefox or Internet Explorer) and a HUSAR account.

 

 

For further information as well as to access to the tools please login to the system using your DKFZ Windows account.

 

last update:
29/03/2019
to top