| The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color JC Motamayor, K Mockaitis, J Schmutz, N Haiminen, O Cornejo, ... Genome biology 14 (6), 1-25, 2013 | 256 | 2013 |
| Segmentation and dimensionality reduction E Bingham, A Gionis, N Haiminen, H Hiisilä, H Mannila, E Terzi Proceedings of the 2006 SIAM International Conference on Data Mining, 372-383, 2006 | 59 | 2006 |
| Human skin, oral, and gut microbiomes predict chronological age S Huang, N Haiminen, AP Carrieri, R Hu, L Jiang, L Parida, B Russell, ... Msystems 5 (1), e00630-19, 2020 | 50* | 2020 |
| GenomicTools: a computational platform for developing high-throughput analytics in genomics A Tsirigos, N Haiminen, E Bilal, F Utro Bioinformatics 28 (2), 282-283, 2012 | 48 | 2012 |
| Evaluation of methods for de novo genome assembly from high-throughput sequencing reads reveals dependencies that affect the quality of the results N Haiminen, DN Kuhn, L Parida, I Rigoutsos PloS one 6 (9), e24182, 2011 | 42 | 2011 |
| SARS-CoV-2 detection status associates with bacterial community composition in patients and the hospital environment C Marotz, P Belda-Ferre, F Ali, P Das, S Huang, K Cantrell, L Jiang, ... Microbiome 9 (1), 1-15, 2021 | 30* | 2021 |
| Explainable AI reveals changes in skin microbiome composition linked to phenotypic differences AP Carrieri, N Haiminen, S Maudsley-Barton, LJ Gardiner, B Murphy, ... Scientific reports 11 (1), 1-18, 2021 | 29* | 2021 |
| Application of genome wide association and genomic prediction for improvement of cacao productivity and resistance to black and frosty pod diseases JA Romero Navarro, W Phillips-Mora, A Arciniegas-Leal, A Mata-Quirós, ... Frontiers in plant science 8, 1905, 2017 | 29 | 2017 |
| Challenges in benchmarking metagenomic profilers Z Sun, S Huang, M Zhang, Q Zhu, N Haiminen, AP Carrieri, ... Nature methods 18 (6), 618-626, 2021 | 27 | 2021 |
| 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: The ASA Data Science Journal 2 (4 …, 2009 | 27 | 2009 |
| Bacterial modification of the host glycosaminoglycan heparan sulfate modulates SARS-CoV-2 infectivity C Martino, BP Kellman, DR Sandoval, TM Clausen, CA Marotz, SJ Song, ... BioRxiv, 2020 | 26 | 2020 |
| Comparing segmentations by applying randomization techniques N Haiminen, H Mannila, E Terzi BMC bioinformatics 8 (1), 1-8, 2007 | 26 | 2007 |
| Randomization of real-valued matrices for assessing the significance of data mining results M Ojala, N Vuokko, A Kallio, N Haiminen, H Mannila Proceedings of the 2008 SIAM International Conference on Data Mining, 494-505, 2008 | 23 | 2008 |
| Determining significance of pairwise co-occurrences of events in bursty sequences N Haiminen, H Mannila, E Terzi BMC bioinformatics 9 (1), 1-10, 2008 | 21 | 2008 |
| Discovering isochores by least-squares optimal segmentation N Haiminen, H Mannila Gene 394 (1-2), 53-60, 2007 | 21 | 2007 |
| Unimodal segmentation of sequences N Haiminen, A Gionis Fourth IEEE International Conference on Data Mining (ICDM'04), 106-113, 2004 | 21 | 2004 |
| Sequencing of a QTL-rich region of the Theobroma cacao genome using pooled BACs and the identification of trait specific candidate genes FA Feltus, CA Saski, K Mockaitis, N Haiminen, L Parida, Z Smith, J Ford, ... BMC genomics 12 (1), 1-16, 2011 | 18 | 2011 |
| Assessing pooled BAC and whole genome shotgun strategies for assembly of complex genomes N Haiminen, FA Feltus, L Parida BMC genomics 12 (1), 1-13, 2011 | 17 | 2011 |
| Functional profiling of COVID-19 respiratory tract microbiomes N Haiminen, F Utro, E Seabolt, L Parida Scientific reports 11 (1), 1-8, 2021 | 16* | 2021 |
| EMPress enables tree-guided, interactive, and exploratory analyses of multi-omic data sets K Cantrell, MW Fedarko, G Rahman, D McDonald, Y Yang, T Zaw, ... Msystems 6 (2), e01216-20, 2021 | 16 | 2021 |
