Pekka Ruusuvuori

49 papers B 4C 2Journal 31Unranked 12

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	dMMR prediction from colorectal cancer histopathology: Leveraging non-tumor and low-magnification regions. Comput. Methods Programs Biomed. Liisa Petäinen, Juha P. Väyrynen, Jan Böhm, Pekka Ruusuvuori, Maarit Ahtiainen, Hanna Elomaa, Henna Karjalainen, Meeri Kastinen, Vilja V. Tapiainen, Ville K. Äijälä, Päivi Sirniö, Anne Tuomisto, Markus J. Mäkinen, Jukka-Pekka Mecklin, Ilkka Pölönen, Sami Äyrämö
2025	J	`jnl`	Foundation Models - A Panacea for Artificial Intelligence in Pathology? CoRR Nita Mulliqi, Anders Blilie, Xiaoyi Ji, Kelvin Szolnoky, Henrik Olsson, Sol Erika Boman, Matteo Titus, Geraldine Martinez Gonzalez, Julia Anna Mielcarz, Masi Valkonen, Einar Gudlaugsson, Svein Reidar Kjosavik, José Asenjo, Marcello Gambacorta, Paolo Libretti, Marcin Braun, Radzislaw Kordek, Roman Lowicki, Kristina Hotakainen, Päivi Väre, Bodil Ginnerup Pedersen, Karina Dalsgaard Sørensen, Benedicte Parm Ulhøi, Pekka Ruusuvuori, Brett Delahunt, Hemamali Samaratunga, Toyonori Tsuzuki, Emilius A. M. Janssen, Lars Egevad, Martin Eklund, Kimmo Kartasalo
2025	J	`jnl`	Staining normalization in histopathology: Method benchmarking using multicenter dataset. CoRR Umair Khan, Jouni Härkönen, Marjukka Friman, Leena Latonen, Teijo Kuopio, Pekka Ruusuvuori
2024	J	`jnl`	The ACROBAT 2022 challenge: Automatic registration of breast cancer tissue. Medical Image Anal. Philippe Weitz, Masi Valkonen, Leslie Solorzano, Circe Carr, Kimmo Kartasalo, Constance Boissin, Sonja Koivukoski, Aino Kuusela, Dusan Rasic, Yanbo Feng, Sandra Kristiane Sinius Pouplier, Abhinav Sharma, Kajsa Ledesma Eriksson, Stephanie Robertson, Christian Marzahl, Chandler D. Gatenbee, Alexander R. A. Anderson, Marek Wodzinski, Artur Jurgas, Niccolò Marini, Manfredo Atzori, Henning Müller, Daniel Budelmann, Nick Weiss, Stefan Heldmann, Johannes Lotz, Jelmer M. Wolterink, Bruno De Santi, Abhijeet Patil, Amit Sethi, Satoshi Kondo, Satoshi Kasai, Kousuke Hirasawa, Mahtab Farrokh, Neeraj Kumar, Russell Greiner, Leena Latonen, Anne-Vibeke Laenkholm, Johan Hartman, Pekka Ruusuvuori, Mattias Rantalainen
2023	J	`jnl`	Deformation equivariant cross-modality image synthesis with paired non-aligned training data. Medical Image Anal. Joel Honkamaa, Umair Khan, Sonja Koivukoski, Mira Valkonen, Leena Latonen, Pekka Ruusuvuori, Pekka Marttinen
2023	J	`jnl`	Improving Performance in Colorectal Cancer Histology Decomposition using Deep and Ensemble Machine Learning. CoRR Fabi Prezja, Leevi Annala, Sampsa Kiiskinen, Suvi Lahtinen, Timo Ojala, Pekka Ruusuvuori, Teijo Kuopio
2023	J	`jnl`	Physical Color Calibration of Digital Pathology Scanners for Robust Artificial Intelligence Assisted Cancer Diagnosis. CoRR Xiaoyi Ji, Richard Salmon, Nita Mulliqi, Umair Khan, Yinxi Wang, Anders Blilie, Henrik Olsson, Bodil Ginnerup Pedersen, Karina Dalsgaard Sørensen, Benedicte Parm Ulhøi, Svein Reidar Kjosavik, Emilius A. M. Janssen, Mattias Rantalainen, Lars Egevad, Pekka Ruusuvuori, Martin Eklund, Kimmo Kartasalo
2023	J	`jnl`	The ACROBAT 2022 Challenge: Automatic Registration Of Breast Cancer Tissue. CoRR Philippe Weitz, Masi Valkonen, Leslie Solorzano, Circe Carr, Kimmo Kartasalo, Constance Boissin, Sonja Koivukoski, Aino Kuusela, Dusan Rasic, Yanbo Feng, Sandra Kristiane Sinius Pouplier, Abhinav Sharma, Kajsa Ledesma Eriksson, Stephanie Robertson, Christian Marzahl, Chandler D. Gatenbee, Alexander R. A. Anderson, Marek Wodzinski, Artur Jurgas, Niccolò Marini, Manfredo Atzori, Henning Müller, Daniel Budelmann, Nick Weiss, Stefan Heldmann, Johannes Lotz, Jelmer M. Wolterink, Bruno De Santi, Abhijeet Patil, Amit Sethi, Satoshi Kondo, Satoshi Kasai, Kousuke Hirasawa, Mahtab Farrokh, Neeraj Kumar, Russell Greiner, Leena Latonen, Anne-Vibeke Laenkholm, Johan Hartman, Pekka Ruusuvuori, Mattias Rantalainen
2023	J	`jnl`	The effect of neural network architecture on virtual H&E staining: Systematic assessment of histological feasibility. Patterns Umair Khan, Sonja Koivukoski, Mira Valkonen, Leena Latonen, Pekka Ruusuvuori
2022	J	`jnl`	ACROBAT - a multi-stain breast cancer histological whole-slide-image data set from routine diagnostics for computational pathology. CoRR Philippe Weitz, Masi Valkonen, Leslie Solorzano, Circe Carr, Kimmo Kartasalo, Constance Boissin, Sonja Koivukoski, Aino Kuusela, Dusan Rasic, Yanbo Feng, Sandra Kristiane Sinius Pouplier, Abhinav Sharma, Kajsa Ledesma Eriksson, Leena Latonen, Anne-Vibeke Laenkholm, Johan Hartman, Pekka Ruusuvuori, Mattias Rantalainen
2022	J	`jnl`	Deformation equivariant cross-modality image synthesis with paired non-aligned training data. CoRR Joel Honkamaa, Umair Khan, Sonja Koivukoski, Leena Latonen, Pekka Ruusuvuori, Pekka Marttinen
2022	J	`jnl`	Domain-specific transfer learning in the automated scoring of tumor-stroma ratio from histopathological images of colorectal cancer. CoRR Liisa Petäinen, Juha P. Väyrynen, Pekka Ruusuvuori, Ilkka Pölönen, Sami Äyrämö, Teijo Kuopio
2021	J	`jnl`	Generalized Fixation Invariant Nuclei Detection Through Domain Adaptation Based Deep Learning. IEEE J. Biomed. Health Informatics Mira Valkonen, Gunilla Högnäs, G. Steven Bova, Pekka Ruusuvuori
2021	J	`jnl`	OpenPhi: an interface to access Philips iSyntax whole slide images for computational pathology. Bioinform. Nita Mulliqi, Kimmo Kartasalo, Henrik Olsson, Xiaoyi Ji, Lars Egevad, Martin Eklund, Pekka Ruusuvuori
2020	J	`jnl`	ANHIR: Automatic Non-Rigid Histological Image Registration Challenge. IEEE Trans. Medical Imaging Jirí Borovec, Jan Kybic, Ignacio Arganda-Carreras, Dmitry V. Sorokin, Gloria Bueno, Alexander V. Khvostikov, Spyridon Bakas, Eric I-Chao Chang, Stefan Heldmann, Kimmo Kartasalo, Leena Latonen, Johannes Lotz, Michelle Noga, Sarthak Pati, Kumaradevan Punithakumar, Pekka Ruusuvuori, Andrzej Skalski, Nazanin Tahmasebi, Masi Valkonen, Ludovic Venet, Yizhe Wang, Nick Weiss, Marek Wodzinski, Yu Xiang, Yan Xu, Yan Yan, Paul A. Yushkevich, Shengyu Zhao, Arrate Muñoz-Barrutia
2020	J	`jnl`	Cytokeratin-Supervised Deep Learning for Automatic Recognition of Epithelial Cells in Breast Cancers Stained for ER, PR, and Ki-67. IEEE Trans. Medical Imaging Mira Valkonen, Jorma Isola, Onni Ylinen, Ville Muhonen, Anna Saxlin, Teemu Tolonen, Matti Nykter, Pekka Ruusuvuori
2020	J	`jnl`	Detection of Perineural Invasion in Prostate Needle Biopsies with Deep Neural Networks. CoRR Peter Ström, Kimmo Kartasalo, Pekka Ruusuvuori, Henrik Grönberg, Hemamali Samaratunga, Brett Delahunt, Toyonori Tsuzuki, Lars Egevad, Martin Eklund
2020	J	`jnl`	Predicting molecular phenotypes from histopathology images: a transcriptome-wide expression-morphology analysis in breast cancer. CoRR Yinxi Wang, Kimmo Kartasalo, Masi Valkonen, Christer Larsson, Pekka Ruusuvuori, Johan Hartman, Mattias Rantalainen
2020	J	`jnl`	Virtual reality for 3D histology: multi-scale visualization of organs with interactive feature exploration. CoRR Kaisa Liimatainen, Leena Latonen, Masi Valkonen, Kimmo Kartasalo, Pekka Ruusuvuori
2019	—	`conf`	3D-Printed Whole Prostate Models with Tumor Hotspots Using Dual-Extruder Printer. EMBC Kaisa Liimatainen, Leena Latonen, Kimmo Kartasalo, Pekka Ruusuvuori
2019	J	`jnl`	Iterative unsupervised domain adaptation for generalized cell detection from brightfield z-stacks. BMC Bioinform. Kaisa Liimatainen, Lauri Kananen, Leena Latonen, Pekka Ruusuvuori
2019	J	`jnl`	Pathologist-Level Grading of Prostate Biopsies with Artificial Intelligence. CoRR Peter Ström, Kimmo Kartasalo, Henrik Olsson, Leslie Solorzano, Brett Delahunt, Daniel M. Berney, David G. Bostwick, Andrew J. Evans, David J. Grignon, Peter A. Humphrey, Kenneth A. Iczkowski, James G. Kench, Glen Kristiansen, Theodorus H. van der Kwast, Katia R. M. Leite, Jesse K. McKenney, Jon Oxley, Chin-Chen Pan, Hemamali Samaratunga, John R. Srigley, Hiroyuki Takahashi, Toyonori Tsuzuki, Murali Varma, Ming Zhou, Johan Lindberg, Cecilia Bergström, Pekka Ruusuvuori, Carolina Wählby, Henrik Grönberg, Mattias Rantalainen, Lars Egevad, Martin Eklund
2018	J	`jnl`	Comparative analysis of tissue reconstruction algorithms for 3D histology. Bioinform. Kimmo Kartasalo, Leena Latonen, Jorma Vihinen, Tapio Visakorpi, Matti Nykter, Pekka Ruusuvuori
2017	—	`conf`	Dual Structured Convolutional Neural Network with Feature Augmentation for Quantitative Characterization of Tissue Histology. ICCV Workshops Mira Valkonen, Kimmo Kartasalo, Kaisa Liimatainen, Matti Nykter, Leena Latonen, Pekka Ruusuvuori
2016	B	`conf`	Benchmarking of algorithms for 3D tissue reconstruction. ICIP Kimmo Kartasalo, Leena Latonen, Tapio Visakorpi, Matti Nykter, Pekka Ruusuvuori
2016	—	`conf`	Supervised method for cell counting from bright field focus stacks. ISBI Kaisa Liimatainen, Pekka Ruusuvuori, Leena Latonen, Heikki Huttunen
2015	J	`jnl`	Data-Driven Approach to Benthic Cover Type Classification Using Bathymetric LiDAR Waveform Analysis. Remote. Sens. Teemu Kumpumäki, Pekka Ruusuvuori, Ville Kangasniemi, Tarmo Lipping
2015	C	`conf`	Training based cell detection from bright-field microscope images. ISPA Tuomas Tikkanen, Pekka Ruusuvuori, Leena Latonen, Heikki Huttunen
2013	—	`conf`	Graph cut and image intensity-based splitting improves nuclei segmentation in high-content screening. Image Processing: Algorithms and Systems Muhammad Farhan, Pekka Ruusuvuori, Mario Emmenlauer, Pauli Rämö, Olli Yli-Harja, Christoph Dehio
2013	J	`jnl`	Multi-scale Gaussian representation and outline-learning based cell image segmentation. BMC Bioinform. Muhammad Farhan, Pekka Ruusuvuori, Mario Emmenlauer, Pauli Rämö, Christoph Dehio, Olli Yli-Harja
2013	—	`conf`	The 9th annual MLSP competition: New methods for acoustic classification of multiple simultaneous bird species in a noisy environment. MLSP Forrest Briggs, Yonghong Huang, Raviv Raich, Konstantinos Eftaxias, Zhong Lei, William Cukierski, Sarah Frey Hadley, Adam Hadley, Matthew Betts, Xiaoli Z. Fern, Jed Irvine, Lawrence Neal, Anil Thomas, Gábor Fodor, Grigorios Tsoumakas, Hong Wei Ng, Thi Ngoc Tho Nguyen, Heikki Huttunen, Pekka Ruusuvuori, Tapio Manninen, Aleksandr Diment, Tuomas Virtanen, Julien Marzat, Joseph Defretin, Dave Callender, Chris Hurlburt, Ken Larrey, Maxim Milakov
2012	—	`conf`	Application independent greedy particle tracking method for 3D fluorescence microscopy image series. ISBI Lassi Paavolainen, Pasi Kankaanpää, Pekka Ruusuvuori, Gregory McNerney, Mikko Karjalainen, Varpu Marjomaki
2012	—	`conf`	Image segmentation using sparse logistic regression with spatial prior. EUSIPCO Pekka Ruusuvuori, Tapio Manninen, Heikki Huttunen
2012	—	`conf`	Polynomial pulp fiber modeling. EUSIPCO Heikki Huttunen, Hannu Oinonen, Jyrki Selinummi, Pekka Ruusuvuori, Ville Voipio
2012	—	`conf`	The eighth annual MLSP competition: Second place team. MLSP Heikki Huttunen, Timo Erkkilä, Pekka Ruusuvuori, Tapio Manninen
2010	J	`jnl`	Evaluation of methods for detection of fluorescence labeled subcellular objects in microscope images. BMC Bioinform. Pekka Ruusuvuori, Tarmo Äijö, Sharif Chowdhury, Cecilia Garmendia-Torres, Jyrki Selinummi, Mirko Birbaumer, Aimée M. Dudley, Lucas Pelkmans, Olli Yli-Harja
2010	B	`conf`	Identity verification based on vessel matching from fundus images. ICIP Hannu Oinonen, Heikki Forsvik, Pekka Ruusuvuori, Olli Yli-Harja, Ville Voipio, Heikki Huttunen
2010	J	`jnl`	Probabilistic analysis of gene expression measurements from heterogeneous tissues. Bioinform. Timo Erkkilä, Saara Lehmusvaara, Pekka Ruusuvuori, Tapio Visakorpi, Ilya Shmulevich, Harri Lähdesmäki
2008	—	`conf`	Benchmark set of synthetic images for validating cell image analysis algorithms. EUSIPCO Pekka Ruusuvuori, Antti Lehmussola, Jyrki Selinummi, Tiina Rajala, Heikki Huttunen, Olli Yli-Harja
2008	B	`conf`	Efficient automated method for image-based classification of microbial cells. ICPR Pekka Ruusuvuori, Jenni Seppälä, Timo Erkkilä, Antti Lehmussola, Jaakko A. Puhakka, Olli Yli-Harja
2008	B	`conf`	Object detection for dynamic adaptation of interconnections in inkjet printed electronics. ICIP Heikki Huttunen, Pekka Ruusuvuori, Tapio Manninen, Kalle Rutanen, Risto Rönkkä, Ari Visa
2008	J	`jnl`	Synthetic Images of High-Throughput Microscopy for Validation of Image Analysis Methods. Proc. IEEE Antti Lehmussola, Pekka Ruusuvuori, Jyrki Selinummi, Tiina Rajala, Olli Yli-Harja
2007	J	`jnl`	Computational Framework for Simulating Fluorescence Microscope Images With Cell Populations. IEEE Trans. Medical Imaging Antti Lehmussola, Pekka Ruusuvuori, Jyrki Selinummi, Heikki Huttunen, Olli Yli-Harja
2007	J	`jnl`	Computational Methods for Estimation of Cell Cycle Phase Distributions of Yeast Cells. EURASIP J. Bioinform. Syst. Biol. Antti Niemistö, Matti Nykter, Tommi Aho, Henna Jalovaara, Kalle Marjanen, Miika Ahdesmäki, Pekka Ruusuvuori, Mikko Tiainen, Marja-Leena Linne, Olli Yli-Harja
2006	J	`jnl`	Evaluating the performance of microarray segmentation algorithms. Bioinform. Antti Lehmussola, Pekka Ruusuvuori, Olli Yli-Harja
2006	C	`conf`	Learning-based method for spot addressing in microarray images. Image Processing: Algorithms and Systems Pekka Ruusuvuori, Antti Lehmussola, Olli Yli-Harja
2006	J	`jnl`	Simulation of microarray data with realistic characteristics. BMC Bioinform. Matti Nykter, Tommi Aho, Miika Ahdesmäki, Pekka Ruusuvuori, Antti Lehmussola, Olli Yli-Harja
2006	—	`conf`	Three-Dimensional Digital Image Analysis of Immunostained Neurons in Thick Tissue Sections. EMBC Jyrki Selinummi, Pekka Ruusuvuori, Antti Lehmussola, Heikki Huttunen, Olli Yli-Harja, Riitta Miettinen
2005	—	`conf`	Exploring subjective image quality through isopreference curves. ICIP (1) Antti Lehmussola, Pekka Ruusuvuori, Olli Yli-Harja