Olli-P. Kallioniemi

Publication Activity (10 Years)

Years Active: 1999-2023
Publications (10 Years): 4

Top Topics

Visual Analysis

Matrix Factorization

Variational Bayesian

Quality Control

Top Venues

J. Chem. Inf. Model.

Nucleic Acids Res.

Publications

Potdar Swapnil, Filipp Ianevski, Aleksandr Ianevski, ZiaurRehman Tanoli, Krister Wennerberg, Brinton Seashore-Ludlow, Olli-P. Kallioniemi, Päivi Östling, Tero Aittokallio, Saarela Jani
Breeze 2.0: an interactive web-tool for visual analysis and comparison of drug response data. Nucleic Acids Res. 51 (W1) (2023)
Potdar Swapnil, Aleksandr Ianevski, John-Patrick Mpindi, Dmitrii Bychkov, Clément Fiere, Philipp Ianevski, Bhagwan Yadav, Krister Wennerberg, Tero Aittokallio, Olli-P. Kallioniemi, Saarela Jani, Päivi Östling
Breeze: an integrated quality control and data analysis application for high-throughput drug screening. Bioinform. 36 (11) (2020)
Muhammad Ammad-ud-din, Suleiman A. Khan, Disha Malani, Astrid Murumägi, Olli-P. Kallioniemi, Tero Aittokallio, Samuel Kaski
Drug response prediction by inferring pathway-response associations with Kernelized Bayesian Matrix Factorization. CoRR (2016)
Muhammad Ammad-ud-din, Suleiman A. Khan, Disha Malani, Astrid Murumägi, Olli-P. Kallioniemi, Tero Aittokallio, Samuel Kaski
Drug response prediction by inferring pathway-response associations with kernelized Bayesian matrix factorization. Bioinform. 32 (17) (2016)
John-Patrick Mpindi, Potdar Swapnil, Dmitrii Bychkov, Saarela Jani, Khalid Saeed, Krister Wennerberg, Tero Aittokallio, Päivi Östling, Olli-P. Kallioniemi
Impact of normalization methods on high-throughput screening data with high hit rates and drug testing with dose-response data. Bioinform. 31 (23) (2015)
Suleiman A. Khan, Seppo Virtanen, Olli-P. Kallioniemi, Krister Wennerberg, Antti Poso, Samuel Kaski
Identification of structural features in chemicals associated with cancer drug response: a systematic data-driven analysis. Bioinform. 30 (17) (2014)
Muhammad Ammad-ud-din, Elisabeth Georgii, Mehmet Gönen, Tuomo Laitinen, Olli-P. Kallioniemi, Krister Wennerberg, Antti Poso, Samuel Kaski
Integrative and Personalized QSAR Analysis in Cancer by Kernelized Bayesian Matrix Factorization. J. Chem. Inf. Model. 54 (8) (2014)
Tommi H. Nyrönen, Jarno Laitinen, Olli Tourunen, Danny Sternkopf, Risto Laurikainen, Per Öster, Pekka T. Lehtovuori, Timo A. Miettinen, Tomi Simonen, Teemu Perheentupa, Imre Vastrik, Olli-P. Kallioniemi, Andrew Lyall, Janet M. Thornton
Delivering ICT infrastructure for biomedical research. WICSA/ECSA Companion Volume (2012)
Suleiman A. Khan, Ali Faisal, John Mpindi, Juuso A. Parkkinen, Tuomo Kalliokoski, Antti Poso, Olli-P. Kallioniemi, Krister Wennerberg, Samuel Kaski
Comprehensive data-driven analysis of the impact of chemoinformatic structure on the genome-wide biological response profiles of cancer cells to 1159 drugs. BMC Bioinform. 13 (2012)
Sami Kilpinen, Kalle A. Ojala, Olli-P. Kallioniemi
Alignment of gene expression profiles from test samples against a reference database: New method for context-specific interpretation of microarray data. BioData Min. 4 (2011)
Olli-P. Kallioniemi, Lodewyk F. A. Wessels, Alfonso Valencia
On the organization of bioinformatics core services in biology-based research institutes. Bioinform. 27 (10) (2011)
Reija Autio, Sami Kilpinen, Matti Saarela, Olli-P. Kallioniemi, Sampsa Hautaniemi, Jaakko Astola
Comparison of Affymetrix data normalization methods using 6, 926 experiments across five array generations. BMC Bioinform. 10 (S-1) (2009)
Pekka Tiikkainen, Patrick Markt, Gerhard Wolber, Johannes Kirchmair, Simona Distinto, Antti Poso, Olli-P. Kallioniemi
Critical Comparison of Virtual Screening Methods against the MUV Data Set. J. Chem. Inf. Model. 49 (10) (2009)
Pekka Tiikkainen, Antti Poso, Olli-P. Kallioniemi
Comparison of structure fingerprint and molecular interaction field based methods in explaining biological similarity of small molecules in cell-based screens. J. Comput. Aided Mol. Des. 23 (4) (2009)
Sampsa Hautaniemi, Olli Yli-Harja, Jaakko Astola, Päivikki Kauraniemi, Anne Kallioniemi, Maija Wolf, Jimmy Ruiz, Spyro Mousses, Olli-P. Kallioniemi
Analysis and Visualization of Gene Expression Microarray Data in Human Cancer Using Self-Organizing Maps. Mach. Learn. 52 (1-2) (2003)
Sampsa Hautaniemi, Henrik Edgren, Petri Vesanen, Maija Wolf, Anna-Kaarina Järvinen, Olli Yli-Harja, Jaakko Astola, Olli-P. Kallioniemi, Outi Monni
A novel strategy for microarray quality control using Bayesian networks. Bioinform. 19 (16) (2003)
Artyom M. Grigoryan, Galen Hostetter, Olli-P. Kallioniemi, Edward R. Dougherty
Simulation Toolbox for 3D-FISH Spot-Counting Algorithms. Real Time Imaging 8 (3) (2002)
Richard Desper, Feng Jiang, Olli-P. Kallioniemi, Holger Moch, Christos H. Papadimitriou, Alejandro A. Schäffer
Distance-Based Reconstruction of Tree Models for Oncogenesis. J. Comput. Biol. 7 (6) (2000)
Richard Desper, Feng Jiang, Olli-P. Kallioniemi, Holger Moch, Christos H. Papadimitriou, Alejandro A. Schäffer
Inferring Tree Models for Oncogenesis from Comparative Genome Hybridization Data. J. Comput. Biol. 6 (1) (1999)