Journal Article
@Article
Artikel in Fachzeitschrift


Show entries of:

this year (2019) | last year (2018) | two years ago (2017) | Notes URL

Action:

login to update

Options:








Author, Editor(s)

Author(s):

Maydt, Jochen
Lengauer, Thomas

dblp
dblp



BibTeX cite key*:

Maydt2006

Title

Title*:

Recco: recombination analysis using cost optimization

Journal

Journal Title*:

Bioinformatics

Journal's URL:

http://bioinformatics.oxfordjournals.org/

Download URL
for the article:

http://bioinformatics.oxfordjournals.org/cgi/reprint/22/9/1064

Language:

English

Publisher

Publisher's
Name:

Oxford University Press

Publisher's URL:


Publisher's
Address:

Oxford, UK

ISSN:


Vol, No, pp, Date

Volume*:

22

Number:

9

Publishing Date:

February 2006

Pages*:

1064-1071

Number of
VG Pages:

8

Page Start:

1064

Page End:

1071

Sequence Number:


DOI:


Note, Abstract, ©

Note:


(LaTeX) Abstract:

Motivation: Recombination plays an important role in the evolution of many pathogens, such as HIV or malaria. Despite substantial prior work, there is still a pressing need for efficient and effective methods of detecting recombination and analyzing recombinant sequences.
Results: We introduce Recco, a novel fast method that, given a multiple sequence alignment, scores the cost of obtaining one of the sequences from the others by mutation and recombination. The algorithm comes with an illustrative visualization tool for locating recombination breakpoints. We analyze the sequence alignment with respect to all choices of the parameter {alpha}weighting recombination cost against mutation cost. The analysis of the resulting cost curve yields additional information as to which sequence might be recombinant. On random genealogies Recco is comparable in its power of detecting recombination with the algorithm Geneconv (Sawyer, 1989). For specific relevant recombination scenarios Recco significantly outperforms Geneconv.
Availability: Recco is available at http://bioinf.mpi-inf.mpg.de/recco/
Contact: jmaydt@mpi-inf.mpg.de

URL for the Abstract:

http://bioinformatics.oxfordjournals.org/cgi/content/abstract/22/9/1064

Categories,
Keywords:


HyperLinks / References / URLs:


Copyright Message:


Personal Comments:


Download
Access Level:

Public

Correlation

MPG Unit:

Max-Planck-Institut für Informatik



MPG Subunit:

Computational Biology and Applied Algorithmics

Audience:

Expert

Appearance:

MPII WWW Server, MPII FTP Server, MPG publications list, university publications list, working group publication list, Fachbeirat, VG Wort


BibTeX Entry:

@ARTICLE{Maydt2006,
AUTHOR = {Maydt, Jochen and Lengauer, Thomas},
TITLE = {{R}ecco: recombination analysis using cost optimization},
JOURNAL = {Bioinformatics},
PUBLISHER = {Oxford University Press},
YEAR = {2006},
NUMBER = {9},
VOLUME = {22},
PAGES = {1064--1071},
ADDRESS = {Oxford, UK},
MONTH = {February},
}


Entry last modified by Christine Kiesel, 02/21/2007
Show details for Edit History (please click the blue arrow to see the details)Edit History (please click the blue arrow to see the details)
Hide details for Edit History (please click the blue arrow to see the details)Edit History (please click the blue arrow to see the details)

Editor(s)
Jochen Maydt
Created
11/06/2006 02:16:42 PM
Revision
1.
0.


Editor
Christine Kiesel
Jochen Maydt


Edit Date
21.02.2007 09:36:49
06.11.2006 14:25:46


Show details for Attachment SectionAttachment Section
Hide details for Attachment SectionAttachment Section