Unimodal Segmentation of Sequences. - Niina Haiminen; Aristides Gionis (ICDM, 2004)

Segmentation and dimensionality reduction. - Ella Bingham; Aristides Gionis; Niina Haiminen; Heli Hiisilä; Heikki Mannila; Evimaria Terzi (SDM, 2006)

Comparing segmentations by applying randomization techniques. - Niina Haiminen; Heikki Mannila; Evimaria Terzi (BMC Bioinform., 2007)

Randomization of real-valued matrices for assessing the significance of data mining results. - Markus Ojala; Niko Vuokko; Aleksi Kallio; Niina Haiminen; Heikki Mannila (SDM, 2008)

Determining significance of pairwise co-occurrences of events in bursty sequences. - Niina Haiminen; Heikki Mannila; Evimaria Terzi (BMC Bioinform., 2008)

Algorithms for unimodal segmentation with applications to unimodality detection. - Niina Haiminen; Aristides Gionis; Kari Laasonen (Knowl. Inf. Syst., 2008)

Randomization methods for assessing data analysis results on real-valued matrices. - Markus Ojala; Niko Vuokko; Aleksi Kallio; Niina Haiminen; Heikki Mannila (Stat. Anal. Data Min., 2009)

Evaluation of BIC and Cross Validation for model selection on sequence segmentations. - Niina Haiminen; Heikki Mannila (Int. J. Data Min. Bioinform., 2010)

Randomization techniques for assessing the significance of gene periodicity results. - Aleksi Kallio; Niko Vuokko; Markus Ojala; Niina Haiminen; Heikki Mannila (BMC Bioinform., 2011)

GenomicTools: a computational platform for developing high-throughput analytics in genomics. - Aristotelis Tsirigos; Niina Haiminen; Erhan Bilal; Filippo Utro (Bioinform., 2012)

Efficient in silico Chromosomal Representation of Populations via Indexing Ancestral Genomes. - Niina Haiminen; Filippo Utro; Claude Lebreton; Pascal Flament; Zivan Karaman; Laxmi Parida (Algorithms, 2013)

Best-Fit in Linear Time for Non-generative Population Simulation - (Extended Abstract). - Niina Haiminen; Claude Lebreton; Laxmi Parida (WABI, 2014)

Host Trait Prediction of Metagenomic Data for Topology-Based Visualization. - Laxmi Parida; Niina Haiminen; David Haws; Jan Suchodolski (ICDCIT, 2015)

SimBA: simulation algorithm to fit extant-population distributions. - Laxmi Parida; Niina Haiminen (BMC Bioinform., 2015)

Scalable Algorithms at Genomic Resolution to fit LD Distributions. - Laxmi Parida; Niina Haiminen (BCB, 2016)

Host Phenotype Prediction from Differentially Abundant Microbes Using RoDEO. - Anna Paola Carrieri; Niina Haiminen; Laxmi Parida (CIBB, 2016)

Design of the MCAW compute service for food safety bioinformatics. - Stefan Edlund; Kristen L. Beck; Niina Haiminen; Laxmi Parida; Brian D. Storey; Bart C. Weimer; James H. Kaufman; David D. Chambliss (IBM J. Res. Dev., 2016)

Haplotype assembly of autotetraploid potato using integer linear programing. - Enrico Siragusa; Niina Haiminen; Richard Finkers; Richard G. F. Visser; Laxmi Parida (Bioinform., 2019)

Signal enrichment with strain-level resolution in metagenomes using topological data analysis. - Aldo Guzmán-Sáenz; Niina Haiminen; Saugata Basu; Laxmi Parida (BMC Genom., 2019)

Linear Time Algorithms to Construct Populations Fitting Multiple Constraint Distributions at Genomic Scales. - Enrico Siragusa; Niina Haiminen; Filippo Utro; Laxmi Parida (IEEE ACM Trans. Comput. Biol. Bioinform., 2019)

A Topological Data Analysis Approach on Predicting Phenotypes from Gene Expression Data. - Sayan Mandal; Aldo Guzmán-Sáenz; Niina Haiminen; Saugata Basu; Laxmi Parida (AlCoB, 2020)

Utilizing stability criteria in choosing feature selection methods yields reproducible results in microbiome data. - Lingjing Jiang; Niina Haiminen; Anna Paola Carrieri; Shi Huang; Yoshiki Vazquez-Baeza; Laxmi Parida; Ho-Cheol Kim; Austin D. Swafford; Rob Knight 001; Loki Natarajan (CoRR, 2020)

AutoXAI4Omics: an automated explainable AI tool for omics and tabular data. - James Strudwick; Laura-Jayne Gardiner; Kate Denning-James; Niina Haiminen; Ashley Evans; Jennifer Kelly; Matthew Madgwick; Filippo Utro; Ed Seabolt; Christopher Gibson; Bharat Bedi; Daniel Clayton; et al. (Briefings Bioinform., 2024)