Literature DB >> 21270539

To transform or not to transform: that is the dilemma in the statistical analysis of plant volatiles.

Yuvaraj Ranganathan1, Renee M Borges.   

Abstract

Chemical ecology, be it the study of plant volatiles or insect cuticular hydrocarbons, largely involves the analysis of compositions or "blends" of a mixture of compounds. Compositional data have intrinsic properties such as a "constant-sum constraint" which should be taken into account when statistically analysing these data. The field of compositional data analysis has greatly improved our understanding of the nature of such compositions and has provided us with insights on statistically rigorous ways of analysing such constrained data. Employment of standard multivariate statistical procedures on compositional data necessitates the use of appropriate transformation procedures, which removes the non-independence of data points, thus rendering the data suitable for such analysis. Here we present the current situation of the analysis of compositional data in chemical ecology; the awareness of this constraint of compositional data; and alternative ways of analysing such constrained data using Random Forests, a data-mining algorithm which has many features that facilitate the analysis of such data. Two such features of particular relevance to compositional data are that Random Forests does not incorporate implicit assumptions about the distribution of the data and can deal with auto-correlations between data points.

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Year:  2011        PMID: 21270539      PMCID: PMC3122020          DOI: 10.4161/psb.6.1.14191

Source DB:  PubMed          Journal:  Plant Signal Behav        ISSN: 1559-2316


  5 in total

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2.  Reducing the babel in plant volatile communication: using the forest to see the trees.

Authors:  Y Ranganathan; R M Borges
Journal:  Plant Biol (Stuttg)       Date:  2010-09-01       Impact factor: 3.081

3.  How reliable is the analysis of complex cuticular hydrocarbon profiles by multivariate statistical methods?

Authors:  Stephen J Martin; Falko P Drijfhout
Journal:  J Chem Ecol       Date:  2009-03-05       Impact factor: 2.626

4.  Gene selection and classification of microarray data using random forest.

Authors:  Ramón Díaz-Uriarte; Sara Alvarez de Andrés
Journal:  BMC Bioinformatics       Date:  2006-01-06       Impact factor: 3.169

5.  Screening large-scale association study data: exploiting interactions using random forests.

Authors:  Kathryn L Lunetta; L Brooke Hayward; Jonathan Segal; Paul Van Eerdewegh
Journal:  BMC Genet       Date:  2004-12-10       Impact factor: 2.797

  5 in total
  11 in total

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Authors:  Satyajeet Gupta; Anusha L K Kumble; Kaveri Dey; Jean-Marie Bessière; Renee M Borges
Journal:  J Chem Ecol       Date:  2021-01-21       Impact factor: 2.626

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4.  Diel variation in fig volatiles across syconium development: making sense of scents.

Authors:  Renee M Borges; Jean-Marie Bessière; Yuvaraj Ranganathan
Journal:  J Chem Ecol       Date:  2013-04-23       Impact factor: 2.626

5.  Phylogeny-based comparative analysis of venom proteome variation in a clade of rattlesnakes (Sistrurus sp.).

Authors:  H Lisle Gibbs; Libia Sanz; Michael G Sovic; Juan J Calvete
Journal:  PLoS One       Date:  2013-06-24       Impact factor: 3.240

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Authors:  Marie C Galligan; Radka Saldova; Matthew P Campbell; Pauline M Rudd; Thomas B Murphy
Journal:  BMC Bioinformatics       Date:  2013-05-07       Impact factor: 3.169

7.  Age-related environmental gradients influence invertebrate distribution in the Prince Charles Mountains, East Antarctica.

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Journal:  R Soc Open Sci       Date:  2016-12-14       Impact factor: 2.963

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Authors:  Qi Zhang; Shaonong Dang; Ruhai Bai; Baibing Mi; Lingling Wang; Hong Yan
Journal:  Sci Rep       Date:  2018-03-07       Impact factor: 4.379

9.  Diversity and function of terpene synthases in the production of carrot aroma and flavor compounds.

Authors:  Andrew Muchlinski; Mwafaq Ibdah; Shelby Ellison; Mossab Yahyaa; Bhagwat Nawade; Suzanne Laliberte; Douglas Senalik; Philipp Simon; Susan R Whitehead; Dorothea Tholl
Journal:  Sci Rep       Date:  2020-06-19       Impact factor: 4.379

10.  Fruit volatilome profiling through GC × GC-ToF-MS and gene expression analyses reveal differences amongst peach cultivars in their response to cold storage.

Authors:  Antonella Muto; Carsten T Müller; Leonardo Bruno; Laura McGregor; Antonio Ferrante; Adriana Ada Ceverista Chiappetta; Maria Beatrice Bitonti; Hilary J Rogers; Natasha Damiana Spadafora
Journal:  Sci Rep       Date:  2020-10-27       Impact factor: 4.379

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