Categorical Dimensions of Human Odor Descriptor Space Revealed by Non-Negative Matrix Factorization

PLoS ONE

Volumn 8, Issue 9, 2013, Pages

  Castro, Jason B ^a   Ramanathan, Arvind ^b   Chennubhotla, Chakra S ^c  

^a BATES COLLEGE   (United States)

^b OAK RIDGE NATIONAL LABORATORY   (United States)

^c UNIVERSITY OF PITTSBURGH SCHOOL OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANALYTIC METHOD; ANALYTICAL PARAMETERS; ARTICLE; CHEMICAL STRUCTURE; CLASSIFIER; CODING; HUMAN; NON NEGATIVE MATRIX FACTORIZATION; ODOR; PREDICTION; SENSORY SYSTEM PARAMETERS; SMELLING; STATISTICAL ANALYSIS;

ALGORITHMS; CLUSTER ANALYSIS; HUMANS; MULTIFACTOR DIMENSIONALITY REDUCTION; ODORS; OLFACTORY PERCEPTION; SENSORY THRESHOLDS; SMELL;

EID: 84884240149     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0073289     Document Type: Article

References (34)

1. Arzi A, Sobel N, (2011) Olfactory perception as a compass for olfactory neural maps. Trends Cogn Sci (Regul Ed) 15: 537-545.
2. Lotto RB, Purves D, (2002) A rationale for the structure of color space. Trends Neurosci 25: 84-88.
3. Lennie P, D'Zmura M, (1988) Mechanisms of color vision. Crit Rev Neurobiol 3: 333-400.
4. Henning H (1916) Der Geruch. Leipzig.
5. Amoore JE, (1974) Evidence for the chemical olfactory code in man. Ann N Y Acad Sci 237: 137-143.
6. Amoore JE, (1967) Specific anosmia: a clue to the olfactory code. Nature 214: 1095-1098.
7. Schiffman SS, (1974) Physicochemical correlates of olfactory quality. Science 185: 112-117.
8. Schiffman SS, (1974) Contributions to the physicochemical dimensions of odor: a psychophysical approach. Ann N Y Acad Sci 237: 164-183.
9. Zarzo M, Stanton DT, (2006) Identification of latent variables in a semantic odor profile database using principal component analysis. Chem Senses 31: 713-724.
10. Khan RM, Luk CH, Flinker A, Aggarwal A, Lapid H, et al. (2007) Predicting odor pleasantness from odorant structure: pleasantness as a reflection of the physical world. J Neurosci 27: 10015-10023.
11. Koulakov AA, Kolterman BE, Enikolopov AG, Rinberg D, (2011) In search of the structure of human olfactory space. Front Syst Neurosci 5: 65.
12. Lapid H, Shushan S, Plotkin A, Voet H, Roth Y, et al. (2011) Neural activity at the human olfactory epithelium reflects olfactory perception. Nat Neurosci 14: 1455-1461.
13. Haddad R, Weiss T, Khan R, Nadler B, Mandairon N, et al. (2010) Global features of neural activity in the olfactory system form a parallel code that predicts olfactory behavior and perception. J Neurosci 30: 9017-9026.
14. Niessing J, Friedrich RW, (2010) Olfactory pattern classification by discrete neuronal network states. Nature 465: 47-52.
15. Laing D (1991) The Human Sense of Smell. Philadelphia: Springer.
16. Paatero P, Tapper U, (1994) Positive matrix factorization: A non-negative factor model with optimal utilization of error estimates of data values. Environmetrics 5: 111-126.
17. Paatero P, (1997) Least squares formulation of robust non-negative factor analysis. Chemometrics Int Lab Sys 37: 23-35.
18. Lee DD, Seung HS, (1999) Learning the parts of objects by non-negative matrix factorization. Nature 401: 788-791.
19. Berry M, Browne M, Langville A, Pauca V, Plemmons R, (2007) Algorithms and Applications for Approximate Nonnegative Matrix Factorization. Computational Statistics & Data Analysis 52: 155-173.
20. Dravnieks A (1985) Atlas of Odor Character Profiles. Philadelphia: ASTM Data Series ed. ASTM Committee E-18 on Sensory Evaluation of Materials and Products. Section E-18.04.12 on Odor Profiling.
21. Xu W, Liu X, Gong Y (2003) Document clustering based on non-negative matrix factorization. In: Proceedings of the 26th annual international ACM SIGIR conference on Research and development in informaion retrieval. SIGIR '03, pp. 267-273.
22. Monti S, Tamayo P, Mesirov J, Golub T (2003) Consensus clustering - a resampling-based method for class discovery and visualization of gene expression microarray data. In: Machine Learning, Functional Genomics Special Issue. 91-118.
23. Brunet JP, Tamayo P, Golub TR, Mesirov JP, (2004) Metagenes and molecular pattern discovery using matrix factorization. Proc Natl Acad Sci USA 101: 4164-4169.
24. van der Maaten L, Hinton G, (2008) Visualizing high-dimensional data using t-SNE. J Mach Learn Res 9: 2579-2605.
25. Hinton G, Roweis S, (2002) Stochastic neighbor embedding. Advances in Neural Informational Processing Systems 15: 833-840.
26. Kim PM, Tidor B, (2003) Subsystem identification through dimensionality reduction of large-scale gene expression data. Genome Res 13: 1706-1718.
27. Mamlouk A, Chee-Ruiter C, Hofmann U, Bower JM, (2003) Quantifying olfactory perception: mapping olfactory perception space by using multidimensional scaling and self-organizing maps. Neurocomputing 52: 591-597.
28. Laurent G, (2002) Olfactory network dynamics and the coding of multidimensional signals. Nat Rev Neurosci 3: 884-895.
29. Bargmann CI, (2006) Comparative chemosensation from receptors to ecology. Nature 444: 295-301.
30. Gottfried JA, (2009) Function follows form: ecological constraints on odor codes and olfactory percepts. Curr Opin Neurobiol 19: 422-429.
31. Zarzo M, Stanton DT, (2009) Understanding the underlying dimensions in perfumers' odor perception space as a basis for developing meaningful odor maps. Atten Percept Psychophys 71: 225-247.
32. Khan AG, Thattai M, Bhalla US, (2008) Odor representations in the rat olfactory bulb change smoothly with morphing stimuli. Neuron 57: 571-585.
33. Dravnieks A, (1982) Odor quality: semantically generated multidimensional profiles are stable. Science 218: 799-801.
34. Wise PM, Olsson MJ, Cain WS, (2000) Quantification of odor quality. Chem Senses 25: 429-443.