Relationship between insertion/deletion (indel) frequency of proteins and essentiality |
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| Authors: | Simon K Chan Michael Hsing Fereydoun Hormozdiari Artem Cherkasov |
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| Institution: | (1) CIHR/MSFHR Strategic Training Program in Bioinformatics, Canada's Michael Smith Genome Sciences Centre, 570 West 7th Ave – Suite 100, Vancouver, BC, V5Z 4S6, Canada;(2) Bioinformatics Graduate Program, University of British Columbia, 570 West 7th Ave – Suite 100, Vancouver, BC, V5Z 4S6, Canada;(3) School of Computing Science, Simon Fraser University, 8888 University Drive, Burnaby, BC, V5A 1S6, Canada;(4) Division of Infectious Diseases, Faculty of Medicine, University of British Columbia, 2733 Heather Street, Vancouver, BC, V5Z 3J5, Canada |
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| Abstract: | Background In a previous study, we demonstrated that some essential proteins from pathogenic organisms contained sizable insertions/deletions
(indels) when aligned to human proteins of high sequence similarity. Such indels may provide sufficient spatial differences
between the pathogenic protein and human proteins to allow for selective targeting. In one example, an indel difference was
targeted via large scale in-silico screening. This resulted in selective antibodies and small compounds which were capable
of binding to the deletion-bearing essential pathogen protein without any cross-reactivity to the highly similar human protein.
The objective of the current study was to investigate whether indels were found more frequently in essential than non-essential
proteins. |
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