Our list of available software:
for downloading:
MausDB
This is an Open-Source mouse house and phenotyping result management system. Installation and admin guide, user manual, demo and template database, Perl scripts, as well as a live demo system can be found here:
Cell-based simulation of dynamic expression patterns in the presomitic mesoderm
More information is available here (The Delta/Notch Pathway Project) on this website or in the following reference:
Tiedemann, H., Schneltzer, E., Zeiser, S., Rubio-Aliaga, I., Wurst, W., Beckers, J., Przemeck, G.K.H., Hrabé de Angelis, M. (2007): Cell-based simulation of dynamic expression patterns in the presomitic mesoderm. J Theoret Biol 248, 120-129
The publication, manuals and some demo videos can be found here(Science direct):
The Java source codes for different operating systems can be downloaded
- for 32-bit Windows clients (Java3D included)
- for Apple Macintosh clients (Java3D not included)
- for Linux distributions (e.g. SuSE) (Java3D included)
- for Linux; a version without installing Java 3D (Java3D not included)
Pattern Analysis of Microarrays (PAM)
This is a computerprogram for a novel ranking of differentially expressed genes to a set of dual-colour hybridisations. Further information you can get here ( Natural variability of gene expression levels in expression profiling studies) on this website or in the following reference:
Drobyshev, A.L., Hrabé de Angelis, M., Beckers, J. (2003): Artefacts and Reliability of DNA Microarray Expression Profiling Data. Curr Genomics 4, 615-621
download software
download sample data for trial
for direct usage:
Simulations to evaluate clustering of selected mouse genes
Further information you can get here (Towards a comparative transcriptomics and proteomics approach) on this website or in the following reference:
Mijalski, T., Harder, A., Halder, T., Kersten, M., Horsch, M, Strom, T.M., Liebscher, H.V., Lottspeich, F., Hrabé de Angelis, M., Beckers, J. (2005): Identification of coexpressed gene clusters in a comparative analysis of transcriptome and proteome in mouse tissues. Proc Natl Acad Sci USA 102, 8621-8626
access (Simulations to evaluate clustering of selected mouse genes)
Advanced Retrieval Tool for SNPS (ARTS)
This program facilitates the retrieval of appropriate SNP markers and flanking sequences from given data-sets like mouse dbSNSP database. Further information you can get here (The ENU screen) on this website or in the following reference:
Klaften, M., Hrabé de Angelis, M. (2005): ARTS: A web-based tool for the setup of high-throughput genome wide mapping panels for the SNP genotyping of mouse mutants. Nucleic Acids Res 33, W496-W500
access (Advanced Retrieval Tool for SNPs)