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Pregled bibliografske jedinice broj: 1268896

An Alignment-Free Distance Measure for Closely Related Genomes

Haubold, Bernhard; Domazet-Lošo, Mirjana; Wiehe, Thomas
An Alignment-Free Distance Measure for Closely Related Genomes // Lecture notes in computer science, 5267 (2008), 87-99 doi:10.1007/978-3-540-87989-3_7 (međunarodna recenzija, članak, znanstveni)

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Naslov
An Alignment-Free Distance Measure for Closely Related Genomes

Autori
Haubold, Bernhard ; Domazet-Lošo, Mirjana ; Wiehe, Thomas

Izvornik
Lecture notes in computer science (0302-9743) 5267 (2008); 87-99

Vrsta, podvrsta i kategorija rada
Radovi u časopisima, članak, znanstveni

Ključne riječi
Phylogeny Reconstruction ; Drosophila Species ; Drosophila Genome ; Guide Tree ;

Sažetak
Phylogeny reconstruction on a genome scale remains computationally challenging even for closely related organisms. Here we propose an alignment-free pairwise distance measure, Kr, for genomes separated by less than approximately 0.5 mismatches/nucleotide. We have implemented the computation of Kr based on enhanced suffix arrays in the program kr, which is freely available from guanine.evolbio.mpg.de/kr/. The software is applied to genomes obtained from three sets of taxa: 27 primate mitochondria, eight Staphylococcus agalactiae strains, and 12 Drosophila species. Subsequent clustering of the Kr values always recovers phylogenies that are similar or identical to the accepted branching order.

Izvorni jezik
Engleski

Znanstvena područja
Biologija, Računarstvo



POVEZANOST RADA

Ustanove:
Fakultet elektrotehnike i računarstva, Zagreb

Profili:

Avatar Url Mirjana Domazet Lošo (autor)

Poveznice na cjeloviti tekst rada:

Pristup cjelovitom tekstu rada doi link.springer.com

Citiraj ovu publikaciju:

Haubold, Bernhard; Domazet-Lošo, Mirjana; Wiehe, Thomas
An Alignment-Free Distance Measure for Closely Related Genomes // Lecture notes in computer science, 5267 (2008), 87-99 doi:10.1007/978-3-540-87989-3_7 (međunarodna recenzija, članak, znanstveni)
Haubold, B., Domazet-Lošo, M. & Wiehe, T. (2008) An Alignment-Free Distance Measure for Closely Related Genomes. Lecture notes in computer science, 5267, 87-99 doi:10.1007/978-3-540-87989-3_7.
@article{article, author = {Haubold, Bernhard and Domazet-Lo\v{s}o, Mirjana and Wiehe, Thomas}, year = {2008}, pages = {87-99}, DOI = {10.1007/978-3-540-87989-3\_7}, keywords = {Phylogeny Reconstruction, Drosophila Species, Drosophila Genome, Guide Tree, }, journal = {Lecture notes in computer science}, doi = {10.1007/978-3-540-87989-3\_7}, volume = {5267}, issn = {0302-9743}, title = {An Alignment-Free Distance Measure for Closely Related Genomes}, keyword = {Phylogeny Reconstruction, Drosophila Species, Drosophila Genome, Guide Tree, } }
@article{article, author = {Haubold, Bernhard and Domazet-Lo\v{s}o, Mirjana and Wiehe, Thomas}, year = {2008}, pages = {87-99}, DOI = {10.1007/978-3-540-87989-3\_7}, keywords = {Phylogeny Reconstruction, Drosophila Species, Drosophila Genome, Guide Tree, }, journal = {Lecture notes in computer science}, doi = {10.1007/978-3-540-87989-3\_7}, volume = {5267}, issn = {0302-9743}, title = {An Alignment-Free Distance Measure for Closely Related Genomes}, keyword = {Phylogeny Reconstruction, Drosophila Species, Drosophila Genome, Guide Tree, } }

Časopis indeksira:


  • Scopus

Uključenost u ostale bibliografske baze podataka::


  • MathSciNet
  • ACM Digital Library
  • DBLP
  • Zentralblatt MATH
  • Conference Proceedings Citation Index (CPCI), part of Clarivate Analytics’ Web of Science
  • EI Engineering Index (Compendex and Inspec databases)

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