Literature DB >> 2706398

Weak hierarchies associated with similarity measures--an additive clustering technique.

H J Bandelt, A W Dress.   

Abstract

A new and apparently rather useful and natural concept in cluster analysis is studied: given a similarity measure on a set of objects, a sub-set is regarded as a cluster if any two objects a, b inside this sub-set have greater similarity than any third object outside has to at least one of a, b. These clusters then form a closure system which can be described as a hypergraph without triangles. Conversely, given such a system, one may attach some weight to each cluster and then compose a similarity measure additively, by letting the similarity of a pair be the sum of weights of the clusters containing that particular pair. The original clusters can be reconstructed from the obtained similarity measure. This clustering model is thus located between the general additive clustering model of Shepard and Arabie (1979) and the standard hierarchical model. Potential applications include fitting dendrograms with few additional nonnested clusters and simultaneous representation of some families of multiple dendrograms (in particular, two-dendrogram solutions), as well as assisting the search for phylogenetic relationships by proposing a somewhat larger system of possibly relevant "family groups", from which an appropriate choice (based on additional insight or individual preferences) remains to be made.

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Year:  1989        PMID: 2706398     DOI: 10.1007/BF02458841

Source DB:  PubMed          Journal:  Bull Math Biol        ISSN: 0092-8240            Impact factor:   1.758


  2 in total

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Authors:  C G Sibley; J E Ahlquist
Journal:  J Mol Evol       Date:  1984       Impact factor: 2.395

2.  Evolutionary relationships amongst archaebacteria. A comparative study of 23 S ribosomal RNAs of a sulphur-dependent extreme thermophile, an extreme halophile and a thermophilic methanogen.

Authors:  H Leffers; J Kjems; L Ostergaard; N Larsen; R A Garrett
Journal:  J Mol Biol       Date:  1987-05-05       Impact factor: 5.469

  2 in total
  7 in total

1.  Consensus weak hierarchies.

Authors:  F R McMorris; R C Powers
Journal:  Bull Math Biol       Date:  1991       Impact factor: 1.758

2.  On encodings of phylogenetic networks of bounded level.

Authors:  Philippe Gambette; Katharina T Huber
Journal:  J Math Biol       Date:  2011-07-14       Impact factor: 2.259

3.  Weighting in sequence space: a comparison of methods in terms of generalized sequences.

Authors:  M Vingron; P R Sibbald
Journal:  Proc Natl Acad Sci U S A       Date:  1993-10-01       Impact factor: 11.205

4.  A distance metric for a class of tree-sibling phylogenetic networks.

Authors:  Gabriel Cardona; Mercè Llabrés; Francesc Rosselló; Gabriel Valiente
Journal:  Bioinformatics       Date:  2008-05-12       Impact factor: 6.937

5.  The paradox of MHC-DRB exon/intron evolution: alpha-helix and beta-sheet encoding regions diverge while hypervariable intronic simple repeats coevolve with beta-sheet codons.

Authors:  F W Schwaiger; E Weyers; C Epplen; J Brün; G Ruff; A Crawford; J T Epplen
Journal:  J Mol Evol       Date:  1993-09       Impact factor: 2.395

6.  Multifunctional proteins revealed by overlapping clustering in protein interaction network.

Authors:  Emmanuelle Becker; Benoît Robisson; Charles E Chapple; Alain Guénoche; Christine Brun
Journal:  Bioinformatics       Date:  2011-11-10       Impact factor: 6.937

7.  Prokaryotic evolution and the tree of life are two different things.

Authors:  Eric Bapteste; Maureen A O'Malley; Robert G Beiko; Marc Ereshefsky; J Peter Gogarten; Laura Franklin-Hall; François-Joseph Lapointe; John Dupré; Tal Dagan; Yan Boucher; William Martin
Journal:  Biol Direct       Date:  2009-09-29       Impact factor: 4.540

  7 in total

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