Analysis of phylogenetic profiles using Bayesian decomposition

G. Bidaut, Karsten Suhre, J. M. Claverie, M. F. Ochs

Research output: Chapter in Book/Report/Conference proceedingConference contribution

1 Citation (Scopus)

Abstract

Antibiotic resistance together with the side effects of broad spectrum antibacterials make development of targeted antibiotics of great interest. To meet the problem of identifying potential targets specific to some genuses, a dataset comprising a series of phylogenetic profiles was built for a series of pathogenic bacteria of interest. The profiles are the highest BLAST scores for genes compared to selected genes of E. coli and M. tuberculosis. The dataset reflects the past evolution of those genes due to adaptation to specific niches, marked by lateral gene transfer, duplication and mutation of existing genes, or merging of existing genes. Genes that function together will be constrained to evolve together, to maintain viability in the organism. However, a given gene may have a role in multiple functional groups through the evolutionary process. Analysis using Bayesian decomposition helps to retrieve those relationships by retrieving fundamental patterns related to the evolutionary retained functions.

Original languageEnglish
Title of host publicationProceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages480-481
Number of pages2
ISBN (Electronic)0769520006, 9780769520001
DOIs
Publication statusPublished - 2003
Externally publishedYes
Event2nd International IEEE Computer Society Computational Systems Bioinformatics Conference, CSB 2003 - Stanford, United States
Duration: 11 Aug 200314 Aug 2003

Other

Other2nd International IEEE Computer Society Computational Systems Bioinformatics Conference, CSB 2003
CountryUnited States
CityStanford
Period11/8/0314/8/03

Fingerprint

Genes
Decomposition
Antibiotics
Gene transfer
Merging
Escherichia coli
Functional groups
Bacteria

ASJC Scopus subject areas

  • Electrical and Electronic Engineering
  • Computer Science Applications

Cite this

Bidaut, G., Suhre, K., Claverie, J. M., & Ochs, M. F. (2003). Analysis of phylogenetic profiles using Bayesian decomposition. In Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003 (pp. 480-481). [1227380] Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/CSB.2003.1227380

Analysis of phylogenetic profiles using Bayesian decomposition. / Bidaut, G.; Suhre, Karsten; Claverie, J. M.; Ochs, M. F.

Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003. Institute of Electrical and Electronics Engineers Inc., 2003. p. 480-481 1227380.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Bidaut, G, Suhre, K, Claverie, JM & Ochs, MF 2003, Analysis of phylogenetic profiles using Bayesian decomposition. in Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003., 1227380, Institute of Electrical and Electronics Engineers Inc., pp. 480-481, 2nd International IEEE Computer Society Computational Systems Bioinformatics Conference, CSB 2003, Stanford, United States, 11/8/03. https://doi.org/10.1109/CSB.2003.1227380
Bidaut G, Suhre K, Claverie JM, Ochs MF. Analysis of phylogenetic profiles using Bayesian decomposition. In Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003. Institute of Electrical and Electronics Engineers Inc. 2003. p. 480-481. 1227380 https://doi.org/10.1109/CSB.2003.1227380
Bidaut, G. ; Suhre, Karsten ; Claverie, J. M. ; Ochs, M. F. / Analysis of phylogenetic profiles using Bayesian decomposition. Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003. Institute of Electrical and Electronics Engineers Inc., 2003. pp. 480-481
@inproceedings{8f5fe5f7e55f47a0afed0067d998ac7e,
title = "Analysis of phylogenetic profiles using Bayesian decomposition",
abstract = "Antibiotic resistance together with the side effects of broad spectrum antibacterials make development of targeted antibiotics of great interest. To meet the problem of identifying potential targets specific to some genuses, a dataset comprising a series of phylogenetic profiles was built for a series of pathogenic bacteria of interest. The profiles are the highest BLAST scores for genes compared to selected genes of E. coli and M. tuberculosis. The dataset reflects the past evolution of those genes due to adaptation to specific niches, marked by lateral gene transfer, duplication and mutation of existing genes, or merging of existing genes. Genes that function together will be constrained to evolve together, to maintain viability in the organism. However, a given gene may have a role in multiple functional groups through the evolutionary process. Analysis using Bayesian decomposition helps to retrieve those relationships by retrieving fundamental patterns related to the evolutionary retained functions.",
author = "G. Bidaut and Karsten Suhre and Claverie, {J. M.} and Ochs, {M. F.}",
year = "2003",
doi = "10.1109/CSB.2003.1227380",
language = "English",
pages = "480--481",
booktitle = "Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003",
publisher = "Institute of Electrical and Electronics Engineers Inc.",

}

TY - GEN

T1 - Analysis of phylogenetic profiles using Bayesian decomposition

AU - Bidaut, G.

AU - Suhre, Karsten

AU - Claverie, J. M.

AU - Ochs, M. F.

PY - 2003

Y1 - 2003

N2 - Antibiotic resistance together with the side effects of broad spectrum antibacterials make development of targeted antibiotics of great interest. To meet the problem of identifying potential targets specific to some genuses, a dataset comprising a series of phylogenetic profiles was built for a series of pathogenic bacteria of interest. The profiles are the highest BLAST scores for genes compared to selected genes of E. coli and M. tuberculosis. The dataset reflects the past evolution of those genes due to adaptation to specific niches, marked by lateral gene transfer, duplication and mutation of existing genes, or merging of existing genes. Genes that function together will be constrained to evolve together, to maintain viability in the organism. However, a given gene may have a role in multiple functional groups through the evolutionary process. Analysis using Bayesian decomposition helps to retrieve those relationships by retrieving fundamental patterns related to the evolutionary retained functions.

AB - Antibiotic resistance together with the side effects of broad spectrum antibacterials make development of targeted antibiotics of great interest. To meet the problem of identifying potential targets specific to some genuses, a dataset comprising a series of phylogenetic profiles was built for a series of pathogenic bacteria of interest. The profiles are the highest BLAST scores for genes compared to selected genes of E. coli and M. tuberculosis. The dataset reflects the past evolution of those genes due to adaptation to specific niches, marked by lateral gene transfer, duplication and mutation of existing genes, or merging of existing genes. Genes that function together will be constrained to evolve together, to maintain viability in the organism. However, a given gene may have a role in multiple functional groups through the evolutionary process. Analysis using Bayesian decomposition helps to retrieve those relationships by retrieving fundamental patterns related to the evolutionary retained functions.

UR - http://www.scopus.com/inward/record.url?scp=84960427897&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84960427897&partnerID=8YFLogxK

U2 - 10.1109/CSB.2003.1227380

DO - 10.1109/CSB.2003.1227380

M3 - Conference contribution

SP - 480

EP - 481

BT - Proceedings of the 2003 IEEE Bioinformatics Conference, CSB 2003

PB - Institute of Electrical and Electronics Engineers Inc.

ER -