DISTAN–a program which detects significant distances between short oligonucleotides. - Andrzej K. Konopka; G. W. Smythers (Comput. Appl. Biosci., 1987)

A fixed-point alignment technique for detection of recurrent and common sequence motifs associated with biological features. - John Owens; Devjani Chatterjee; Ruth Nussinov; Andrzej K. Konopka; Jacob V. Maizel (Comput. Appl. Biosci., 1988)

Sequences, Codes and Functions. - Andrzej K. Konopka (Comput. Chem., 1992)

A Maximum Entropy Principle for the Distribution of Local Complexity in Naturally Occurring Nucleotide Sequences. - Peter Salamon; Andrzej K. Konopka (Comput. Chem., 1992)

Computational Molecular Biology: From Sequence Research to Software Development. - Andrzej K. Konopka (Comput. Chem., 1993)

On the Robustness of Maximum Entropy Relationships for Complexity Distributions of Nucleotide Sequences. - Peter Salamon; John C. Wootton; Andrzej K. Konopka; Lars Kai Hansen (Comput. Chem., 1993)

Computational Experiments in Molecular Biology: Searching for the 'Big Picture'. - Andrzej K. Konopka (Comput. Chem., 1994)

Oligonucleotide Frequencies in DNA Follow a Yule Distribution. - Colin Martindale; Andrzej K. Konopka (Comput. Chem., 1996)

Towards Understanding Life Itself. - Andrzej K. Konopka (Comput. Chem., 2001)

Grand Metaphors of Biology in the Genome Era. - Andrzej K. Konopka (Comput. Chem., 2002)

This Is Biology: The Science of the Living World: Ernst Mayr, Harvard University Press, Cambridge, MA, Publication Date, July 1998. ISBN: 0674884698, Paperback, 1st Ed., 352Pp. - Andrzej K. Konopka (Comput. Chem., 2002)

Mathematics of Genome Analysis: Jerome K. Percus, Cambridge University Press, Cambridge, 2002. Paperback, ISBN 0-521-58526-0, 139Pp. - Andrzej K. Konopka (Comput. Chem., 2002)

Editorial. - M. James C. Crabbe; Andrzej K. Konopka (Comput. Biol. Chem., 2003)

Selected dreams and nightmares about computational biology. - Andrzej K. Konopka (Comput. Biol. Chem., 2003)

All we need is truth. - Andrzej K. Konopka (Comput. Biol. Chem., 2004)

Measuring quality of research: what do they mean and why they mean so?. - Andrzej K. Konopka (Comput. Biol. Chem., 2004)

Editors' note concerning an EST analysis pipeline by Zhu et al. (2006). - Andrzej K. Konopka; M. James C. Crabbe (Comput. Biol. Chem., 2008)