Nadia El-Mabrouk's Web Page
List of Publications
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Evolution of Genome Organization by Duplication and Loss: an Alignment
Approach
(preview)
P. Holloway, K. Swenson, D. Ardell and N. El-Mabrouk
RECOMB, 2012.
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Analysis of Gene Order Evolution beyond Single-Copy Genes
(preview)
N. El-Mabrouk and D. Sankoff
Series. Methods in Molecular Biology, Vol. Evolutionary Genomics: statistical and computational methods; Part II; Springer (Humana), 2012 (to appear).
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Evolution of orthologous tandemly arrayed gene clusters
(preview)
O. Tremblay-Savard, D. Bertrand and N. El-Mabrouk
BMC Bioinformatics, 12(Suppl 9):S2 doi:10.1186/1471-2105-12-S9-S2, 2011.
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Removing Noise from Gene Trees
(preview)
A. Doroftei and N. El-Mabrouk
Proceedings of WABI 2011,
Algorithms in Bioinformatics, LNCS/LNBI 6833, pp.76-91, 2011.
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Genome Halving and Double Distance with Losses
(preview)
O. Tremblay-Savard, Y. Gagnon, D. Bertrand and N. El-Mabrouk
J. Comp. Biol., Vol. 18, Num. 9, pp. 1185-1199, 2011.
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Advances on Genome Duplication Distances
(preview)
Y. Gagnon, O. Tremblay-Savard, D. Bertrand and N. El-Mabrouk
Proceedings of RECOMB-CG 2010 , LNCS/LNBI 6398, pp. 25-38, 2010.
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Reconstruction of Ancestral Genome subject to Whole
Genome Duplication, Speciation, Rearrangement and Loss
(preview)
D. Bertrand, Y. Gagnon, M. Blanchette and
N. El-Mabrouk
Proceedings of WABI 2010 , LNCS/LNBI 6293, pp. 78- 89, 2010.
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Genetic Map Refinement using a Comparative Genomic Approach.
(journal version)
D. Bertrand, M. Blanchette and N. El-Mabrouk.
J. Comp. Biol., Vol. 16, No. 10, 1475-1486, 2009.
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New perspectives on gene family evolution: losses in reconciliation and a link with supertrees.
(preview)
C. Chauve and N. El-Mabrouk.
Proceedings of RECOMB 2009 , LNCS 5541, pp. 46-58, 2009.
- R.S. LaRue, S.R. Jonsson, K.A.T. Silverstein, M. Lajoie,
D. Bertrand, N. El-Mabrouk, I. Hotzel, V. Andresdottir,
T.P.L. Smith and R.S. Harris. The artiodactyl APOBEC3 innate
immune repertoire shows evidence for a multi-functional domain
organization that existed in the ancestor of placental mammals.
BMC Molecular Biology, Vol.9, No. 104, 20 pages, 2008.
- N. El-Mabrouk. Deriving Haplotypes through Recombination and
Gene Conversion. Journal of Bioinformatics and Computational Biology,
Vol. 2, No. 2, pp. 241-256, June 2004.
- J.F. Lefebvre and N. El-Mabrouk, E. Tillier and
D. Sankoff. Detection and Validation
of Single Gene Inversions . Bioinformatics, Vol. 19, Suppl. 1,
special issue, 11th International Conference on Intelligent Systems
for Molecular Biology (ISMB), pp 190-196, 2003.
- N. El-Mabrouk and M. Raffinot. Approximate Matching of
Secondary Structures - Extended Abstract. Proceedings of the sixth
annual international conference on computational molecular biology
(RECOMB02), pages 156-164, April 2002.
The algorithm contains a
flaw. For the complete and corrected version, consult our paper
in Journal of Bioinformatics and Computational Biology above.
- D. Sankoff, N. El-Mabrouk. "Computational Methods for Genome
Comparison and Applications". Current Topics in Computational
Biology, Chapter 10, Computational Molecular Biology Series,
MIT Press, 2001.
- N. El-Mabrouk.
Recovery of ancestral tetraploids. Comparative Genomics: Empirical
and Analytical Approaches to Gene Order Dynamics, Map alignment and
the Evolution of Gene Families. Computational Biology Series. Kluwer
Academic Publishers. Vol 1. pp. 465-477, 2000.
- N. El-Mabrouk.
Duplication, rearrangement and reconciliation. Comparative
Genomics: Empirical and Analytical Approaches to Gene Order Dynamics,
Map alignment and the Evolution of Gene Families. Computational
Biology Series. Kluwer Academic Publishers. Vol. 1, pp. 537-550,
2000.
- N. El-Mabrouk and D. Bryant and D. Sankoff. Reconstructing the Pre-Doubling Genome. Third annual international conference on computational molecular biology (RECOMB99), to appear in the conference proceedings, ACM press. Lyon, France, April 1999.
- N. El-Mabrouk and J. Nadeau and D. Sankoff. Genome Halving. In M. Farach editor, Lecture Notes in Computer Science, volume 1448 of CPM, 9th annual symposium, pages 235-250. Piscataway, New-Jersey, USA, July 1998.
- N. El-Mabrouk and F. Lisacek. Very fast identification of
RNA motifs in genomic DNA. Application to tRNA search in the yeast
genome. Journal of Molecular Biology, 264:46-55, November 1996.