| 341 | -- | 342 | Susana Vinga. Editorial: Alignment-free methods in computational biology |
| 343 | -- | 353 | Kai Song, Jie Ren, Gesine Reinert, Minghua Deng, Michael S. Waterman, Fengzhu Sun. New developments of alignment-free sequence comparison: measures, statistics and next-generation sequencing |
| 354 | -- | 368 | Isabel Schwende, Tuan D. Pham. Pattern recognition and probabilistic measures in alignment-free sequence analysis |
| 369 | -- | 375 | Jonas S. Almeida. Sequence analysis by iterated maps, a review |
| 376 | -- | 389 | Susana Vinga. Information theory applications for biological sequence analysis |
| 390 | -- | 406 | Raffaele Giancarlo, Simona E. Rombo, Filippo Utro. Compressive biological sequence analysis and archival in the era of high-throughput sequencing technologies |
| 407 | -- | 418 | Bernhard Haubold. Alignment-free phylogenetics and population genetics |
| 419 | -- | 430 | Luca Pinello, Giosuè Lo Bosco, Guo-Cheng Yuan. Applications of alignment-free methods in epigenomics |
| 431 | -- | 442 | Melanie Schirmer, William T. Sloan, Christopher Quince. Benchmarking of viral haplotype reconstruction programmes: an overview of the capacities and limitations of currently available programmes |
| 443 | -- | 454 | Vasilis J. Promponas, Christos A. Ouzounis, Ioannis Iliopoulos. Experimental evidence validating the computational inference of functional associations from gene fusion events: a critical survey |
| 455 | -- | 470 | Miranda D. Stobbe, Gerbert A. Jansen, Perry D. Moerland, Antoine H. C. van Kampen. Knowledge representation in metabolic pathway databases |