CMBI - bioinformatics
Many of the bioinformatics services that used to be available at the CMBI are now available via NBIC.
Services currently available at the CMBI
| Service name | Description |
| BioVenn | Web application for the comparison and visualization of biological lists using area-proportional Venn diagrams |
| crAss | Web tool for comparative metagenomics using cross-assembly |
| EXProt | Database for proteins with an experimentally verified function |
| FACIL | FACIL: Fast and Accurate genetic Code Inferenceand Logo (genetic code prediction tool) |
| GeneSeeker | Prediction of human disease genes |
| gpcrdb | GPCRDB: Information system for G protein-coupled receptors (GPCRs) |
| LOFT | Orthology prediction at scalable resolution by phylogenetic tree analysis |
| MGV | Microbial Genome Viewer |
| MimMiner | Comparing human disease phenotypes |
| MOLDEN | Molden is a package for displaying Molecular Density. |
| MRS | Database search and retrieval system |
| PAM | Roll your own PAM Matrix |
| Phylopat | Web interface for querying Ensembl genomes using phylogenetic patterns |
| PinkThing | Tool to put genome-wide experiments in a genomic context |
| PredictProtein | Service for sequence analysis and structure prediction |
| Pyrobase | Screening of the genomes of Pyrococcus abyssi, Pyrococcus furiosus and Pyrococcus horikoshii |
| Signature | Characterize sequences using taxonomic signature genes (complementary to sequence-based classification) |
Packages currently available at the CMBI
This table gives you an overview of the packages developed at the CMBI. Some packages are freely availably, others can be ordered, more information can be found at the package site.
| Package name | Description |
| dBlast | The DBLAST package is a wrapper for distributed NCBI BLAST, and was designed to run BLAST on Beowulf clusters, SMP machines, and MOSIX machines, without the need to buy/build/use a parallel BLAST version (MPI/PVM...). |
| Molden | MOLDEN a pre- and post processing program of molecular and electronic structure |
| WHAT IF | WHAT IF is a versatile protein structure analysis program that can be used for mutant prediction, structure verification, molecular graphics, etc. |
| Yasara | YASARA is an interactive real-time molecular dynamics program, covering a wide range of topics in the rapidly growing field of structural bioinformatics: Molecular modeling, protein folding (based on any amount of information available: from sequence alone to fully assigned NMR spectra), docking and parallel macromolecular dynamics. |
| Queen | QUEEN, a software package for the quantitative evaluation of experimental NMR restraints. |
| CATCH | CATCH your ChIP profiles using this tool for unsupervised clustering and alignment |
