Literature DB >> 17952479

Syntactic structures in languages and biology.

David Horn1.   

Abstract

Both natural languages and cell biology make use of one-dimensional encryption. Their investigation calls for syntactic deciphering of the text and semantic understanding of the resulting structures. Here we discuss recently published algorithms that allow for such searches: automatic distillation of structure (ADIOS) that is successful in discovering syntactic structures in linguistic texts and its motif extraction (MEX) component that can be used for uncovering motifs in DNA and protein sequences. The underlying principles of these syntactic algorithms and some of their results will be described.

Mesh：

Year:  2007        PMID： 17952479     DOI： 10.1007/s10339-007-0194-7

Source DB:  PubMed          Journal:  Cogn Process        ISSN： 1612-4782


  9 in total

Review 1.  The language of genes.

Authors:  David B Searls
Journal:  Nature       Date:  2002-11-14       Impact factor: 49.962

2.  How well is enzyme function conserved as a function of pairwise sequence identity?

Authors:  Weidong Tian; Jeffrey Skolnick
Journal:  J Mol Biol       Date:  2003-10-31       Impact factor: 5.469

3.  SVM-Prot: Web-based support vector machine software for functional classification of a protein from its primary sequence.

Authors:  C Z Cai; L Y Han; Z L Ji; X Chen; Y Z Chen
Journal:  Nucleic Acids Res       Date:  2003-07-01       Impact factor: 16.971

4.  Unsupervised learning of natural languages.

Authors:  Zach Solan; David Horn; Eytan Ruppin; Shimon Edelman
Journal:  Proc Natl Acad Sci U S A       Date:  2005-08-08       Impact factor: 11.205

5.  Nucleotide variation of regulatory motifs may lead to distinct expression patterns.

Authors:  Liat Segal; Michal Lapidot; Zach Solan; Eytan Ruppin; Yitzhak Pilpel; David Horn
Journal:  Bioinformatics       Date:  2007-07-01       Impact factor: 6.937

6.  The child language data exchange system.

Authors:  B MacWhinney; C Snow
Journal:  J Child Lang       Date:  1985-06

7.  Identification of common molecular subsequences.

Authors:  T F Smith; M S Waterman
Journal:  J Mol Biol       Date:  1981-03-25       Impact factor: 5.469

Review 8.  Computational and evolutionary aspects of language.

Authors:  Martin A Nowak; Natalia L Komarova; Partha Niyogi
Journal:  Nature       Date:  2002-06-06       Impact factor: 49.962

9.  Functional representation of enzymes by specific peptides.

Authors:  Vered Kunik; Yasmine Meroz; Zach Solan; Ben Sandbank; Uri Weingart; Eytan Ruppin; David Horn
Journal:  PLoS Comput Biol       Date:  2007-07-11       Impact factor: 4.475
  9 in total

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