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Method Article
SoCCer: A pipeline to identify classes of soluble proteins in chemical communication in insect genomes
Ramanathan Sowdhamini
National Centre for Biological Sciences
Corresponding Author
ORCiD: https://orcid.org/0000-0002-6642-2367
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Insects require olfactory cues to perform a number of processes. With an increasing number of insect genomes that are getting realized, there is a need for an automatic method to classify proteins involved in olfaction into various types so that their cognate odorant assignment becomes possible and to eliminate errors due to misclassification into protein families with related functions and/ biochemical or structural properties. We propose a near-automatic computational protocol to identify and classify protein sequences of a given genome into odorant binding protein subfamilies and other major soluble protein families involved in insect chemical communication. Such a protocol can be used to identify and classify odorant binding proteins (OBPs) in large genomes but could also be applied to large number of other globular proteins as well.
Keywords
Insect olfaction, Genome Analysis, Sequence Searches, Olfactory binding proteins
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This is a preprint. It has not completed peer review.
Method Article
SoCCer: A pipeline to identify classes of soluble proteins in chemical communication in insect genomes
Ramanathan Sowdhamini
National Centre for Biological Sciences
Corresponding Author
ORCiD: https://orcid.org/0000-0002-6642-2367
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
History
CURRENT STATUS: Posted
Version 1
Posted 03 Sep, 2020
No community comments so far
Metrics
Comments: 0
HTML Views: ...
Subject Areas
Computational biology and bioinformatics
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Insects require olfactory cues to perform a number of processes. With an increasing number of insect genomes that are getting realized, there is a need for an automatic method to classify proteins involved in olfaction into various types so that their cognate odorant assignment becomes possible and to eliminate errors due to misclassification into protein families with related functions and/ biochemical or structural properties. We propose a near-automatic computational protocol to identify and classify protein sequences of a given genome into odorant binding protein subfamilies and other major soluble protein families involved in insect chemical communication. Such a protocol can be used to identify and classify odorant binding proteins (OBPs) in large genomes but could also be applied to large number of other globular proteins as well.
Figure 1
Figure 2