Natural networks as thermodynamic systems. - Tuomo Hartonen; Arto Annila (Complex., 2012)

Patterns, entropy, and predictability of human mobility and life - Shaomeng Qin; Hannu Verkasalo; Mikael Mohtaschemi; Tuomo Hartonen; Mikko Alava (CoRR, 2012)

How important tasks are performed: peer review - Tuomo Hartonen; Mikko Alava (CoRR, 2013)

Fast pseudolikelihood maximization for direct-coupling analysis of protein structure from many homologous amino-acid sequences. - Magnus Ekeberg; Tuomo Hartonen; Erik Aurell (J. Comput. Phys., 2014)

PeakXus: comprehensive transcription factor binding site discovery from ChIP-Nexus and ChIP-Exo experiments. - Tuomo Hartonen; Biswajyoti Sahu; Kashyap Dave; Teemu Kivioja; Jussi Taipale (Bioinform., 2016)