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Abstract. Genome doubling simultaneously doubles all genetic markers. Genome rearrangement phylogenetics requires that all genomes analyzed have the same set of orthologs, so that ...
A complete understanding of transcriptional regulatory processes in the cell requires identification of transcription factor binding sites on a genomewide scale. Unfortunately, th...
Publicly-available data sets provide detailed and large-scale information on multiple types of molecular interaction networks in a number of model organisms. These multi-modal univ...
Accurately reconstructing the large-scale gene order in an ancestral genome is a critical step to better understand genome evolution. In this paper, we propose a heuristic algorith...
It is often impossible to sequence all descendent genomes to reconstruct an ancestral genome. In addition, more genomes do not necessarily give a higher accuracy for the reconstruc...
Learning the structure of a gene regulatory network from time-series gene expression data is a significant challenge. Most approaches proposed in the literature to date attempt to ...
The problem of Sorting signed permutations by reversals is a well studied problem in computational biology. The first polynomial time algorithm was presented by Hannenhalli and Pev...