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Beyond Bioinformatics | |
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Title
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Targeting pseudoknots in H5N1 hemagglutinin using designed aptamers | |||||||||||||||||||||||||||
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Authors
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Priyanka Dhar1,*, Sayak Ganguli2, Abhijit Datta2
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Affiliation
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1Defence Institute of High Altitude Research, DRDO, C/o 56 APO, Pin- 901205, India; 2Bioinformatics Centre, Presidency College, Kolkata 700073, India | ||||||||||||||||||||||||||||
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priyanko_8@yahoo.co.in | ||||||||||||||||||||||||||||
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Article Type
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Hypothesis | ||||||||||||||||||||||||||||
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Date
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Received June 23, 2009; Revised July 07, 2009; Accepted September 09, 2009; Published October 25, 2009 | ||||||||||||||||||||||||||||
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Abstract |
Influenza A virus subtype H5N1 is highly contagious among birds, causing
high mortality among domestic poultry. The viral genome is contained on
eight single RNA strands of which HA encode the antigenic glycoprotein
called hemagglutinin. Hemagglutinin found on the surface of the
influenza viruses and is responsible for binding the virus to the cell
that is being infected. Among the most prevalent RNA structures the
pseudoknot motif represents an important piece of RNA architecture, as
it provides a means for a single RNA strand to fold upon itself to
produce a globular structure capable of performing important biological
functions. In this analysis we have identified the pseudoknot motifs in
the hemagglutinin gene of HPAI A (H5N1) Asian strains. Specific aptamers
have been designed against these pseudoknots. These in-silico aptamers
can be used to hinder the ability of pseudoknots to facilitate ribosomal
frameshifting. This may ultimately lead to reduce the coding efficiency
of the HA that encodes hemagglutinin and might be used as molecular
medicine for H5N1. | ||||||||||||||||||||||||||||
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Keywords |
H5N1, hemagglutinin, pseudoknot, ribosomal frameshifting, RNA aptamers | ||||||||||||||||||||||||||||
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Citation
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Dhar et al., Bioinformation 4(5): 193-196 (2009) | ||||||||||||||||||||||||||||
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Edited by
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P. Kangueane
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ISSN
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0973-2063
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Publisher
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Biomedical Informatics | ||||||||||||||||||||||||||||
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Copyright
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Publisher
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Copyright Transfer Agreement
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The authors of published articles in Bioinformation automatically transfer the copyright to the publisher upon formal acceptance. However, the authors reserve right to use the information contained in the article for non commercial purposes.
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License
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This is an open-access article, which permits unrestricted use, distribution, and reproduction in any medium, for non-commercial purposes, provided the original author and source are credited.
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