Robust detection of periodic time series measured from biological systems. - Miika Ahdesmäki; Harri Lähdesmäki; Ronald K. Pearson; Heikki Huttunen; Olli Yli-Harja (BMC Bioinform., 2005)

Simulation of microarray data with realistic characteristics. - Matti Nykter; Tommi Aho; Miika Ahdesmäki; Pekka Ruusuvuori; Antti Lehmussola; Olli Yli-Harja (BMC Bioinform., 2006)

Robust regression for periodicity detection in non-uniformly sampled time-course gene expression data. - Miika Ahdesmäki; Harri Lähdesmäki; Andrew Gracey; Ilya Shmulevich; Olli Yli-Harja (BMC Bioinform., 2007)

Computational Methods for Estimation of Cell Cycle Phase Distributions of Yeast Cells. - Antti Niemistö; Matti Nykter; Tommi Aho; Henna Jalovaara; Kalle Marjanen; Miika Ahdesmäki; Pekka Ruusuvuori; Mikko Tiainen; Marja-Leena Linne; Olli Yli-Harja (EURASIP J. Bioinform. Syst. Biol., 2007)

Robust signal processing methods for genomic time series and protein accessibility data. - Miika Ahdesmäki (2008)

Disambiguate: An open-source application for disambiguating two species in next generation sequencing data from grafted samples. - Miika Ahdesmäki; Simon R. Gray; Justin H. Johnson; Zhongwu Lai (F1000Research, 2016)