| Analysis of the properties of median and weighted median filters using threshold logic and stack filter representation O Yli-Harja, J Astola, Y Neuvo IEEE Transactions on Signal Processing 39 (2), 395-410, 1991 | 441 | 1991 |
| On learning gene regulatory networks under the Boolean network model H Lähdesmäki, I Shmulevich, O Yli-Harja Machine learning 52, 147-167, 2003 | 368 | 2003 |
| Software for quantification of labeled bacteria from digital microscope images by automated image analysis J Selinummi, J Seppälä, O Yli-Harja, JA Puhakka Biotechniques 39 (6), 859-863, 2005 | 332 | 2005 |
| A review of connectivity map and computational approaches in pharmacogenomics A Musa, LS Ghoraie, SD Zhang, G Glazko, O Yli-Harja, M Dehmer, ... Briefings in bioinformatics 19 (3), 506-523, 2018 | 326 | 2018 |
| High-resolution DNA analysis of human embryonic stem cell lines reveals culture-induced copy number changes and loss of heterozygosity E Närvä, R Autio, N Rahkonen, L Kong, N Harrison, D Kitsberg, ... Nature biotechnology 28 (4), 371-377, 2010 | 323 | 2010 |
| Gene expression dynamics in the macrophage exhibit criticality M Nykter, ND Price, M Aldana, SA Ramsey, SA Kauffman, LE Hood, ... Proceedings of the National Academy of Sciences 105 (6), 1897-1900, 2008 | 275 | 2008 |
| Computational framework for simulating fluorescence microscope images with cell populations A Lehmussola, P Ruusuvuori, J Selinummi, H Huttunen, O Yli-Harja IEEE transactions on medical imaging 26 (7), 1010-1016, 2007 | 272 | 2007 |
| The tumorigenic FGFR3-TACC3 gene fusion escapes miR-99a regulation in glioblastoma BC Parker, MJ Annala, DE Cogdell, KJ Granberg, Y Sun, P Ji, X Li, ... The Journal of clinical investigation 123 (2), 2013 | 268 | 2013 |
| Robust quantification of in vitro angiogenesis through image analysis A Niemisto, V Dunmire, O Yli-Harja, W Zhang, I Shmulevich IEEE transactions on medical imaging 24 (4), 549-553, 2005 | 231 | 2005 |
| Robust detection of periodic time series measured from biological systems M Ahdesmäki, H Lähdesmäki, R Pearson, H Huttunen, O Yli-Harja BMC bioinformatics 6, 1-18, 2005 | 172 | 2005 |
| Global Gene Expression Profile of Human Cord Blood–Derived CD133+ Cells T Jaatinen, H Hemmoranta, S Hautaniemi, J Niemi, D Nicorici, J Laine, ... Stem cells 24 (3), 631-641, 2006 | 158 | 2006 |
| Programmed cell death detection methods: a systematic review and a categorical comparison S Kari, K Subramanian, IA Altomonte, A Murugesan, O Yli-Harja, ... Apoptosis 27 (7), 482-508, 2022 | 156 | 2022 |
| Perturbation avalanches and criticality in gene regulatory networks P Rämö, J Kesseli, O Yli-Harja Journal of Theoretical Biology 242 (1), 164-170, 2006 | 156 | 2006 |
| Relationships between probabilistic Boolean networks and dynamic Bayesian networks as models of gene regulatory networks H Lähdesmäki, S Hautaniemi, I Shmulevich, O Yli-Harja Signal processing 86 (4), 814-834, 2006 | 147 | 2006 |
| CGH-Plotter: MATLAB toolbox for CGH-data analysis R Autio, S Hautaniemi, P Kauraniemi, O Yli-Harja, J Astola, M Wolf, ... Bioinformatics 19 (13), 1714-1715, 2003 | 142 | 2003 |
| Bright field microscopy as an alternative to whole cell fluorescence in automated analysis of macrophage images J Selinummi, P Ruusuvuori, I Podolsky, A Ozinsky, E Gold, O Yli-Harja, ... PloS one 4 (10), e7497, 2009 | 132 | 2009 |
| Genomically amplified Akt3 activates DNA repair pathway and promotes glioma progression KM Turner, Y Sun, P Ji, KJ Granberg, B Bernard, L Hu, DE Cogdell, ... Proceedings of the National Academy of Sciences 112 (11), 3421-3426, 2015 | 126 | 2015 |
| Critical networks exhibit maximal information diversity in structure-dynamics relationships M Nykter, ND Price, A Larjo, T Aho, SA Kauffman, O Yli-Harja, ... Physical review letters 100 (5), 058702, 2008 | 124 | 2008 |
| Explainable artificial intelligence and machine learning: A reality rooted perspective F Emmert‐Streib, O Yli‐Harja, M Dehmer Wiley Interdisciplinary Reviews: Data Mining and Knowledge Discovery 10 (6 …, 2020 | 120 | 2020 |
| Evaluation of methods for detection of fluorescence labeled subcellular objects in microscope images P Ruusuvuori, T Äijö, S Chowdhury, C Garmendia-Torres, J Selinummi, ... BMC bioinformatics 11, 1-17, 2010 | 114 | 2010 |
Ilya ShmulevichProfessor, Institute for Systems BiologyVerified email at systemsbiology.org
