Literature DB >> 19530677

On entropy-based molecular descriptors: statistical analysis of real and synthetic chemical structures.

Matthias Dehmer1, Kurt Varmuza, Stephan Borgert, Frank Emmert-Streib.   

Abstract

This paper presents an analysis of entropy-based molecular descriptors. Specifically, we use real chemical structures, as well as synthetic isomeric structures, and investigate properties of and among descriptors with respect to the used data set by a statistical analysis. Our numerical results provide evidence that synthetic chemical structures are notably different to real chemical structures and, hence, should not be used to investigate molecular descriptors. Instead, an analysis based on real chemical structures is favorable. Further, we find strong hints that molecular descriptors can be partitioned into distinct classes capturing complementary information.

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Year:  2009        PMID: 19530677     DOI: 10.1021/ci900060x

Source DB:  PubMed          Journal:  J Chem Inf Model        ISSN: 1549-9596            Impact factor:   4.956


  24 in total

Review 1.  Trends in information theory-based chemical structure codification.

Authors:  Stephen J Barigye; Yovani Marrero-Ponce; Facundo Pérez-Giménez; Danail Bonchev
Journal:  Mol Divers       Date:  2014-04-05       Impact factor: 2.943

2.  On the asymptotic behavior of the average geodesic distance L and the compactness CB of simple connected undirected graphs whose order approaches infinity.

Authors:  Tatiana Lokot; Olga Abramov; Alexander Mehler
Journal:  PLoS One       Date:  2021-11-15       Impact factor: 3.240

3.  Connections between classical and parametric network entropies.

Authors:  Matthias Dehmer; Abbe Mowshowitz; Frank Emmert-Streib
Journal:  PLoS One       Date:  2011-01-05       Impact factor: 3.240

4.  Novel topological descriptors for analyzing biological networks.

Authors:  Matthias M Dehmer; Nicola N Barbarini; Kurt K Varmuza; Armin A Graber
Journal:  BMC Struct Biol       Date:  2010-06-17

5.  New polynomial-based molecular descriptors with low degeneracy.

Authors:  Matthias Dehmer; Laurin A J Mueller; Armin Graber
Journal:  PLoS One       Date:  2010-07-30       Impact factor: 3.240

6.  Limitations of gene duplication models: evolution of modules in protein interaction networks.

Authors:  Frank Emmert-Streib
Journal:  PLoS One       Date:  2012-04-18       Impact factor: 3.240

7.  Process-driven inference of biological network structure: feasibility, minimality, and multiplicity.

Authors:  Guanyu Wang; Yongwu Rong; Hao Chen; Carl Pearson; Chenghang Du; Rahul Simha; Chen Zeng
Journal:  PLoS One       Date:  2012-07-18       Impact factor: 3.240

8.  A large scale analysis of information-theoretic network complexity measures using chemical structures.

Authors:  Matthias Dehmer; Nicola Barbarini; Kurt Varmuza; Armin Graber
Journal:  PLoS One       Date:  2009-12-15       Impact factor: 3.240

9.  A survey of quantitative descriptions of molecular structure.

Authors:  Rajarshi Guha; Egon Willighagen
Journal:  Curr Top Med Chem       Date:  2012       Impact factor: 3.295

10.  RMol: a toolset for transforming SD/Molfile structure information into R objects.

Authors:  Martin Grabner; Kurt Varmuza; Matthias Dehmer
Journal:  Source Code Biol Med       Date:  2012-11-14
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