Genome alignment with graph data structures: a comparison

Integrating Genomes

(2012) D. R. Zerbino et al.   SCIENCE

A greedy, graph-based algorithm for the alignment of multiple homologous gene lists

(2011) Jan Fostier et al.   BIOINFORMATICS

Positional orthology: putting genomic evolutionary relationships into context

(2011) C. N. Dewey   BRIEFINGS IN BIOINFORMATICS

Cactus: Algorithms for genome multiple sequence alignment

(2011) B. Paten et al.   GENOME RESEARCH

A Theoretical Model for Whole Genome Alignment

(2011) Nahla A. Belal et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Cactus Graphs for Genome Comparisons

(2011) Benedict Paten et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

How to apply de Bruijn graphs to genome assembly

(2011) Phillip E C Compeau et al.   NATURE BIOTECHNOLOGY

DRIMM-Synteny: decomposing genomes into evolutionary conserved segments

(2010) Son K. Pham et al.   BIOINFORMATICS

Mugsy: fast multiple alignment of closely related whole genomes

(2010) Samuel V. Angiuoli et al.   BIOINFORMATICS

progressiveMauve: Multiple Genome Alignment with Gene Gain, Loss and Rearrangement

(2010) Aaron E. Darling et al.   PLoS One

Upcoming challenges for multiple sequence alignment methods in the high-throughput era

(2009) Carsten Kemena et al.   BIOINFORMATICS

Multiple whole-genome alignments without a reference organism

(2009) I. Dubchak et al.   GENOME RESEARCH

Breakpoint graphs and ancestral genome reconstructions

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

Fast Statistical Alignment

(2009) Robert K. Bradley et al.   PLoS Computational Biology

Segment-based multiple sequence alignment

(2008) T. Rausch et al.   BIOINFORMATICS

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

(2008) B. Paten et al.   GENOME RESEARCH