Predicting olfactory perception from chemical structure

Wendy Yu
Posted on Mar 15, 2016


Predicting olfactory perception from chemical structure

Chung Wen Yu , Yusuke Ihara , Joel Mainland

PRESENTED AT 8th Annual RECOMB/ISCB Conference on Regulatory and Systems Genomics, with DREAM Challenges 2015

dream olfaction challenge poster


A fundamental problem in systems neuroscience is mapping the physical properties of a stimulus to perceptual characteristics. In vision, wavelength translates into color; in audition, frequency translates into pitch. In olfaction, however, the translation of physicochemical properties of an odorant to odor perception remains unclear. The DREAM Olfaction Challenge asked competitors to build quantitative models that predict odor intensity, odor pleasantness, and 19 odor character descriptors from molecular structure using a dataset where 49 untrained human subjects rated 476 odorants. Preceding this challenge, two published models (Khan et al., 2007; Kermen et al., 2011) predicted odor pleasantness from chemical structure.  These models successfully predicted odor pleasantness in this dataset (r = 0.49, p < 0.001; r = 0.29, p < 0.001). We built models for all 21 descriptors using the Extremely Randomized Trees algorithm in R.  Our model outperformed previously published models for predicting pleasantness (r = 0.65, p < 0.001).  We found that our intensity model relied largely on physicochemical features underlying the partitioning of odors between air phase and the receptor binding pocket.  In contrast, our models of “burnt” and “bakery” relied heavily on fingerprint similarity to trained target odors as a form of template matching, rather than isolating particular physicochemical features.

About Author

Wendy Yu

Wendy Yu

As a biologist, Wendy believes in evidence-base analysis, and is passionate about data. Wendy graduated from the University of Pennsylvania in 2013 with a Masters in Biotechnology. While pursuing a career as a biologist Wendy quickly realized that...
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