Publications - Published papers
Please find below publications of our group. Currently, we list 565 papers. Some of the publications are in collaboration with the group of Sonja Prohaska and are also listed in the publication list for her individual group. Access to published papers (
) is restricted to our local network and chosen collaborators.
If you have problems accessing electronic information, please let us know:
) is restricted to our local network and chosen collaborators.
If you have problems accessing electronic information, please let us know:©NOTICE: All papers are copyrighted by the authors; If you would like to use all or a portion of any paper, please contact the author.
Pitfalls of Ascertainment Biases in Genome Annotations —Computing Comparable Protein Domain Distributions in Eukarya
Arli Aditya Parikesit, Lydia Steiner, Peter F Stadler, Sonja J Prohaska
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Status: Published
Malaysian Journal of Fundamental and Applied Sciences, Vol 10, No 2 (2014)
Abstract
Most investigations into the large-scale patterns of protein evolution are based on
gene annotations that have been compiled in reference databases. The use of these resources
for quantitative comparisons, however, is complicated by sometimes vast differences in
coverage. More importantly, however, we also observe substantial ascertainment biases that
cannot be removed by simple normalization procedures. A striking example is provided by
the correlations between protein domains. We observe that statistics derived from different
computational gene annotation procedure show dramatic discrepancies, and even qualitative
changes from negative to positive correlation, when compared to statistics obtained from
annotation databases.
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