Mapping ancestral genomes with massive gene loss: A matrix sandwich problem

DRIMM-Synteny: decomposing genomes into evolutionary conserved segments

(2010) Son K. Pham et al.   BIOINFORMATICS

Genomicus: a database and a browser to study gene synteny in modern and ancestral genomes

(2010) M. Muffato et al.   BIOINFORMATICS

Ancestral grass karyotype reconstruction unravels new mechanisms of genome shuffling as a source of plant evolution

(2010) F. Murat et al.   GENOME RESEARCH

Yeast Ancestral Genome Reconstructions: The Possibilities of Computational Methods II

(2010) Cedric Chauve et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Minimal Conflicting Sets for the Consecutive Ones Property in Ancestral Genome Reconstruction

(2010) Cedric Chauve et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Palaeogenomics of plants: synteny-based modelling of extinct ancestors

(2010) Michael Abrouk et al.   TRENDS IN PLANT SCIENCE

Breakpoint graphs and ancestral genome reconstructions

(2009) M. A. Alekseyev et al.   GENOME RESEARCH

Recovering genome rearrangements in the mammalian phylogeny

(2009) H. Zhao et al.   GENOME RESEARCH

A Unified Approach for Reconstructing Ancient Gene Clusters

(2009) J. Stoye et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Approximation and fixed-parameter algorithms for consecutive ones submatrix problems

(2009) Michael Dom et al.   JOURNAL OF COMPUTER AND SYSTEM SCIENCES

Reconstruction of monocotelydoneous proto-chromosomes reveals faster evolution in plants than in animals

(2009) J. Salse et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Enredo and Pecan: Genome-wide mammalian consistency-based multiple alignment with paralogs

(2008) B. Paten et al.   GENOME RESEARCH

DUPCAR: Reconstructing Contiguous Ancestral Regions with Duplications

(2008) Jian Ma et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

A Methodological Framework for the Reconstruction of Contiguous Regions of Ancestral Genomes and Its Application to Mammalian Genomes

(2008) Cedric Chauve et al.   PLoS Computational Biology