| Chipster: user-friendly analysis software for microarray and other high-throughput data MA Kallio, J Tuimala, T Hupponen, P Klemela, M Gentile, I Scheinin, ... BMC genomics 12 (1), 507, 2011 | 426 | 2011 |
| Hadoop-BAM: directly manipulating next generation sequencing data in the cloud M Niemenmaa, A Kallio, A Schumacher, P Klemelä, E Korpelainen, ... Bioinformatics 28 (6), 876-877, 2012 | 188 | 2012 |
| SeqPig: simple and scalable scripting for large sequencing data sets in Hadoop A Schumacher, L Pireddu, M Niemenmaa, A Kallio, E Korpelainen, ... Bioinformatics 30 (1), 119-120, 2014 | 123 | 2014 |
| MicroRNA Expression Profiling Reveals MiRNA Families Regulating Specific Biological Pathways in Mouse Frontal Cortex and Hippocampus J Juhila, T Sipilä, K Icay, D Nicorici, P Ellonen, A Kallio, E Korpelainen, ... PloS one 6 (6), e21495, 2011 | 100 | 2011 |
| Experiences with workflows for automating data-intensive bioinformatics O Spjuth, E Bongcam-Rudloff, GC Hernández, L Forer, M Giovacchini, ... Biology direct 10 (1), 1-12, 2015 | 89 | 2015 |
| The utility of gingival crevicular fluid matrix metalloproteinase‐8 response patterns in prediction of site‐level clinical treatment outcome JM Leppilahti, T Sorsa, MA Kallio, T Tervahartiala, G Emingil, B Han, ... Journal of periodontology 86 (6), 777-787, 2015 | 71 | 2015 |
| Gingival crevicular fluid matrix metalloproteinase‐8 levels predict treatment outcome among smokers with chronic periodontitis JM Leppilahti, MA Kallio, T Tervahartiala, T Sorsa, P Mäntylä Journal of Periodontology 85 (2), 250-260, 2014 | 67 | 2014 |
| Optimized detection of differential expression in global profiling experiments: case studies in clinical transcriptomic and quantitative proteomic datasets LL Elo, J Hiissa, J Tuimala, A Kallio, E Korpelainen, T Aittokallio Briefings in bioinformatics 10 (5), 547-555, 2009 | 36 | 2009 |
| Randomization methods for assessing data analysis results on real‐valued matrices M Ojala, N Vuokko, A Kallio, N Haiminen, H Mannila Statistical Analysis and Data Mining 2 (4), 209-230, 2009 | 28 | 2009 |
| Recommendations on e-infrastructures for next-generation sequencing O Spjuth, E Bongcam-Rudloff, J Dahlberg, M Dahlö, A Kallio, L Pireddu, ... GigaScience 5 (1), 26, 2016 | 22 | 2016 |
| Randomization of real-valued matrices for assessing the significance of data mining results M Ojala, N Vuokko, A Kallio, N Haiminen, H Mannila SDM '08: Proceedings of the Eighth SIAM International Conference on Data …, 2008 | 22 | 2008 |
| Correlations and co-occurrences of taxa: the role of temporal, geographic, and taxonomic restrictions A Kallio, K Puolamäki, M Fortelius, H Mannila Palaeontologia Electronica 14 (1), 2011 | 18 | 2011 |
| BioImg. org: A Catalog of Virtual Machine Images for the Life Sciences M Dahlö, F Haziza, A Kallio, E Korpelainen, E Bongcam-Rudloff, O Spjuth Bioinformatics and Biology Insights 9, 125, 2015 | 16 | 2015 |
| Randomization techniques for assessing the significance of gene periodicity results A Kallio, N Vuokko, M Ojala, N Haiminen, H Mannila BMC bioinformatics 12 (1), 330, 2011 | 16 | 2011 |
| Individual FEV1 Trajectories Can Be Identified from a COPD Cohort J Koskela, M Katajisto, A Kallio, M Kilpeläinen, A Lindqvist, T Laitinen COPD: Journal of Chronic Obstructive Pulmonary Disease 13 (4), 425-430, 2016 | 15 | 2016 |
| Optimized detection of transcription factor-binding sites in ChIP-seq experiments LL Elo, A Kallio, TD Laajala, RD Hawkins, E Korpelainen, T Aittokallio Nucleic acids research 40 (1), e1-e1, 2012 | 9 | 2012 |
| R, Programming Language J Tuimala, A Kallio Encyclopedia of Systems Biology, 1809-1811, 2013 | 8 | 2013 |
| Sisällönkuvailun automatisoinnin haasteita ja ratkaisuja kulttuuriperintöorganisaatiossa J Hulkkonen, J Inkinen, A Kallio, M Koskela, M Lappalainen, M Lehtinen, ... Kansalliskirjasto, 2021 | 5 | 2021 |
| Properties of Fixed-Fixed Models and Alternatives in Presence-Absence Data Analysis A Kallio PloS one 11 (11), e0165456, 2016 | 5 | 2016 |
| Gingival crevicular fluid (GCF) matrix metalloproteinase-8 levels predict treatment outcome among smoking chronic periodontitis patients JM Leppilahti, MA Kallio, T Tervahartiala, T Sorsa, P Mantyla Journal of periodontology 85, 2013 | 5 | 2013 |