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University of Wyoming

Service List


A few examples of what we can provide:


Phylogenetic reconstruction of a gene or protein family


UW Bioinformatics can provide phylogenetic reconstructions of your protein or gene families. The methods that we currently apply for this type of analysis are: BLAST, multiple sequence alignment, modeltest, tree-building- and visualization, and interpreting the results.
Application: Identification of e.g. gene duplication (GD) events or horizontally transferred genes.




Protein structure and function analysis


UW Bioinformatics can provide analysis of protein structure and function. The methods we currently apply for this type of analysis are: sequence analysis, homology modeling and interpretation of your data in a structural context.
Application: Recognizing important residues for e.g. ligand binding or functional prediction from structure.




Protein sequence and function analysis


UW Bioinformatics can provide analysis of protein sequence and function. The methods we currently apply for this type of analysis are: sequence analysis, tree reconstruction, and identification of residues potentially involved in functional change comparing the sequences in different parts of a tree.
Application: Identification of positions in a protein that show rate or physicochemical character change over time, as a mean to detect positions potentially involved in functional change.




Identification of lineages under various selective pressures


UW Bioinformatics can provide analysis of gene sequences and selective pressure. The methods we currently apply for this type of analysis are: sequence analysis, tree reconstruction, gene- and species tree reconciliation, and identification of branches under various selective pressures.
Application: Identification of e.g. positive selection on a lineage suggests functional change.




Protein Engineering


UW Bioinformatics can provide assistance in protein engineering. The methods we currently apply for this type of analysis are: sequence analysis, structural analysis, and identification of residues involved e.g. in catalysis or regulation.
Application: Engineering proteins to be e.g. more stable or designing novel protein-protein interaction interfaces.




Workshops


For all areas listed above UW Bioinformatics may be able to provide workshops for different research groups, according to your needs and interests.



Defining a bioinformatics project


UW Bioinformatics provides an opportunity to disuss your research with us. If you are not sure which bioinformatics direction to take your research, we will try to assist you (e-mail jliberle@uwyo.edu).