Endre søk
RefereraExporteraLink to record
Permanent link

Direct link
Referera
Referensformat
  • apa
  • harvard1
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Annet format
Fler format
Språk
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Annet språk
Fler språk
Utmatningsformat
  • html
  • text
  • asciidoc
  • rtf
Estimation of Reversible Substitution Matrices from Multiple Pairs of Sequences
KTH, Tidigare Institutioner, Numerisk analys och datalogi, NADA.
Los Alamos National Laboratory.
1997 (engelsk)Inngår i: Journal of Molecular Evolution, ISSN 0022-2844, E-ISSN 1432-1432, Vol. 45, nr 6, s. 696-703Artikkel i tidsskrift (Fagfellevurdert) Published
Abstract [en]

We present a method for estimating the most general reversible substitution matrix corresponding to a given collection of pairwise aligned DNA sequences. This matrix can then be used to calculate evolutionary distances between pairs of sequences in the collection. If only two sequences are considered, our method is equivalent to that of Lanave et al. (1984). The main novelty of our approach is in combining data from different sequence pairs. We describe a weighting method for pairs of taxa related by a known tree that results in uniform weights for all branches. Our method for estimating the rate matrix results in fast execution times, even on large data sets, and does not require knowledge of the phylogenetic relationships among sequences. In a test case on a primate pseudogene, the matrix we arrived at resembles one obtained using maximum likelihood, and the resulting distance measure is shown to have better linearity than is obtained in a less general model.

sted, utgiver, år, opplag, sider
1997. Vol. 45, nr 6, s. 696-703
Emneord [en]
Evolutionary distance, General reversible model, Rate matrix, Eigenvalues
HSV kategori
Identifikatorer
URN: urn:nbn:se:kth:diva-39799DOI: 10.1007/PL00006274ISI: 000071307200014OAI: oai:DiVA.org:kth-39799DiVA, id: diva2:440459
Merknad
QC 20110913Tilgjengelig fra: 2011-09-13 Laget: 2011-09-13 Sist oppdatert: 2018-01-12bibliografisk kontrollert

Open Access i DiVA

Fulltekst mangler i DiVA

Andre lenker

Forlagets fulltekst

Søk i DiVA

Av forfatter/redaktør
Arvestad, Lars
Av organisasjonen
I samme tidsskrift
Journal of Molecular Evolution

Søk utenfor DiVA

GoogleGoogle Scholar

doi
urn-nbn

Altmetric

doi
urn-nbn
Totalt: 371 treff
RefereraExporteraLink to record
Permanent link

Direct link
Referera
Referensformat
  • apa
  • harvard1
  • ieee
  • modern-language-association-8th-edition
  • vancouver
  • Annet format
Fler format
Språk
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Annet språk
Fler språk
Utmatningsformat
  • html
  • text
  • asciidoc
  • rtf