Bioinformatics and Computational Biology
Background
The Bioinformatics and Computational Biology group is situated in the Biotechnology Annex building at the UFS. The group performs bioinformatics research, teach under-graduate and post-graduate courses, present specialised workshops on advanced bioinformatic topics, and provide general support to wet bench molecular life scientists. Bioinformatics and Computational Biology is a Focus Area in the Advanced Biomolecular Research Cluster, which forms part of the UFS Strategic Research Cluster Initiative.
The Bioinformatics and Computation Biology groups also works very closely with the Facility for Genomics and Proteomics (FGAP), providing bioinformatics support for several high throughput activities, including chip-on-chip protein genomic distribution and transcriptomic microarray analyses. We are a leader in the analysis of gene expression microarrays and genomics distribution studies, particularly the relationship between the genomic distribution of specific proteins or post-translational modifications of proteins, and gene expression. We also support proteomic studies, including 2D proteome analyses, and nanoflow LC/MS/MS.
Collaborating Research Groups
- Prof. Martie Smit (Biotransformation)
- Prof. Paul Grobler (Genetics)
- Prof. Hugh Patterton (Epigenomics and DNA Function)
- Prof. Esta van Heerden (Extremophiles)
- Prof. Derek Litthauer (Metagenomics and Extremophiles)
- Prof. Jan van der Westhuizen (Targeted Drug Discovery)
- Prof. Jacobus Albertyn (Advanced Cloning Systems)
Some bioinformatics publications and books from our staff
- Mayne SLN and Patterton HG (2011) Bioinformatics tools for the structural elucidation of multi-subunit protein complexes by mass spectrometric analysis of protein-protein cross-links. Brief. Bioinform. doi:10.1093/bib/bbq087.
- Schäfer et al. (2008) The S. cerevisiae linker histone Hho1p is essential for chromatin compaction in stationary phase, and is displaced by transcription. Proc. Natl. Acad. Sci. USA., 105, 14838-14843.
- Patterton HG & Graves S. (2000) DNAssist: the integrated editing and analysis of molecular biology sequences in windows. Bioinformatics. 16, 652-3. PDF
- Chang et al. (2004) Calculating the statistical significance of physical clusters of co-regulated genes in the genome: the role of chromatin in domain-wide gene regulation. Nucleic Acids Res. 32, 1798-807. PDF
- Patterton HG & Graves S in Biocomputing: Computer Tools for Biologists, Brown, SM (ed), Eaton Publishing, Massachusetts, USA, 2003.
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