Reconstructing Domain Compositions of Ancestral Multi-domain Proteins -- Domain Architecture in Homolog Identification -- Inferring Positional Homologs with Common Intervals of Sequences -- On Genome Evolution with Accumulated Change and Innovation -- Paths and Cycles in Breakpoint Graphs of Random Multichromosomal Genomes -- Common Intervals and Symmetric Difference in a Model-Free Phylogenomics, with an Application to Streptophyte Evolution -- How Pseudo-boolean Programming Can Help Genome Rearrangement Distance Computation -- Sorting by Translocations Via Reversals Theory -- Inferring Gene Orders from Gene Maps Using the Breakpoint Distance -- Ordering Partially Assembled Genomes Using Gene Arrangements -- Evolution of Tandemly Repeated Sequences Through Duplication and Inversion -- A PQ Framework for Reconstructions of Common Ancestors and Phylogeny -- Intron Loss Dynamics in Mammals -- Finding Maximum Likelihood Indel Scenarios -- Conservation Patterns in cis-Elements Reveal Compensatory Mutations -- Transcription Factor Centric Discovery of Regulatory Elements in Mammalian Genomes Using Alignment-Independent Conservation Maps -- Identifiability Issues in Phylogeny-Based Detection of Horizontal Gene Transfer.