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Literature DB >> 10782117

Homology a personal view on some of the problems.

Abstract

There are many problems relating to defining the terminology used to describe various biological relationships and getting agreement on which definitions are best. Here, I examine 15 terminological problems, all of which are current, and all of which relate to the usage of homology and its associated terms. I suggest a set of definitions that are intended to be totally consistent among themselves and also as consistent as possible with most current usage.

Mesh：

Year: 2000 PMID： 10782117 DOI： 10.1016/s0168-9525(00)02005-9

Source DB: PubMed Journal: Trends Genet ISSN： 0168-9525 Impact factor: 11.639

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Cited

197 in total

1. A single Hox3 gene with composite bicoid and zerknullt expression characteristics in non-Cyclorrhaphan flies.

Authors: Michael Stauber; Alexander Prell; Urs Schmidt-Ott
Journal: Proc Natl Acad Sci U S A Date: 2002-01-02 Impact factor: 11.205

2. Wanda: a database of duplicated fish genes.

Authors: Yves Van de Peer; John S Taylor; Jayabalan Joseph; Axel Meyer
Journal: Nucleic Acids Res Date: 2002-01-01 Impact factor: 16.971

3. SCOP database in 2002: refinements accommodate structural genomics.

Authors: Loredana Lo Conte; Steven E Brenner; Tim J P Hubbard; Cyrus Chothia; Alexey G Murzin
Journal: Nucleic Acids Res Date: 2002-01-01 Impact factor: 16.971

4. A strategy to retrieve the whole set of protein modules in microbial proteomes.

Authors: Stéphanie Le Bouder-Langevin; Isabelle Capron-Montaland; Renaud De Rosa; Bernard Labedan
Journal: Genome Res Date: 2002-12 Impact factor: 9.043

5. Enzyme-specific profiles for genome annotation: PRIAM.

Authors: Clotilde Claudel-Renard; Claude Chevalet; Thomas Faraut; Daniel Kahn
Journal: Nucleic Acids Res Date: 2003-11-15 Impact factor: 16.971

6. Variability-based sequence alignment identifies residues responsible for functional differences in alpha and beta tubulin.

Authors: D Kuchnir Fygenson; Daniel J Needleman; Kim Sneppen
Journal: Protein Sci Date: 2004-01 Impact factor: 6.725

Homology a personal view on some of the problems.

1. A single Hox3 gene with composite bicoid and zerknullt expression characteristics in non-Cyclorrhaphan flies.

2. Wanda: a database of duplicated fish genes.

3. SCOP database in 2002: refinements accommodate structural genomics.

4. A strategy to retrieve the whole set of protein modules in microbial proteomes.

5. Enzyme-specific profiles for genome annotation: PRIAM.

6. Variability-based sequence alignment identifies residues responsible for functional differences in alpha and beta tubulin.

7. Comprehensive analysis of orthologous protein domains using the HOPS database.

8. Prevalence of intron gain over intron loss in the evolution of paralogous gene families.

9. Molecular clock and gene function.

10. Biologically feasible gene trees, reconciliation maps and informative triples.