Mattias Rantalainen

22 papers Journal 21Unranked 1
YearRankTypeTitle / Venue / Authors
2026 J jnl
Scanner-Induced Domain Shifts Undermine the Robustness of Pathology Foundation Models.
CoRR
Erik Thiringer, Fredrik K. Gustafsson, Kajsa Ledesma Eriksson, Mattias Rantalainen
2025 J jnl
A mixture of experts (MoE) model to improve AI-based computational pathology prediction performance under variable levels of image blur.
BMC Medical Imaging
Yujie Xiang, Bojing Liu, Mattias Rantalainen
2024 J jnl
Deep Blur Multi-Model (DeepBlurMM) - a strategy to mitigate the impact of image blur on deep learning model performance in histopathology image analysis.
CoRR
Yujie Xiang, Bojing Liu, Mattias Rantalainen
2024 J jnl
Evaluating Computational Pathology Foundation Models for Prostate Cancer Grading under Distribution Shifts.
CoRR
Fredrik K. Gustafsson, Mattias Rantalainen
2024 J jnl
Evaluating Deep Regression Models for WSI-Based Gene-Expression Prediction.
CoRR
Fredrik K. Gustafsson, Mattias Rantalainen
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
2024 J jnl
WEEP: A method for spatial interpretation of weakly supervised CNN models in computational pathology.
CoRR
Abhinav Sharma, Bojing Liu, Mattias Rantalainen
2023 J jnl
Increasing the usefulness of already existing annotations through WSI registration.
CoRR
Philippe Weitz, Viktoria Sartor, Balazs Acs, Stephanie Robertson, Daniel Budelmann, Johan Hartman, Mattias Rantalainen
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
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
Transcriptome-wide prediction of prostate cancer gene expression from histopathology images using co-expression-based convolutional neural networks.
Bioinform.
Philippe Weitz, Yinxi Wang, Kimmo Kartasalo, Lars Egevad, Johan Lindberg, Henrik Grönberg, Martin Eklund, Mattias Rantalainen
2021 — conf
An investigation of attention mechanisms in histopathology whole-slide-image analysis for regression objectives.
ICCVW
Philippe Weitz, Yinxi Wang, Johan Hartman, Mattias Rantalainen
2021 J jnl
Transcriptome-wide prediction of prostate cancer gene expression from histopathology images using co-expression based convolutional neural networks.
CoRR
Philippe Weitz, Yinxi Wang, Kimmo Kartasalo, Lars Egevad, Johan Lindberg, Henrik Grönberg, Martin Eklund, Mattias Rantalainen
2021 J jnl
Using deep learning to detect patients at risk for prostate cancer despite benign biopsies.
CoRR
Bojing Liu, Yinxi Wang, Philippe Weitz, Johan Lindberg, Lars Egevad, Henrik Grönberg, Martin Eklund, Mattias Rantalainen
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
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
Isoform-level gene expression patterns in single-cell RNA-sequencing data.
Bioinform.
Trung-Nghia Vu, Quin F. Wills, Krishna R. Kalari, Nifang Niu, Liewei Wang, Yudi Pawitan, Mattias Rantalainen
2017 J jnl
E-Science technologies in a workflow for personalized medicine using cancer screening as a case study.
J. Am. Medical Informatics Assoc.
Ola Spjuth, Andreas Karlsson, Mark Clements, Keith Humphreys, Emma Ivansson, Jim Dowling, Martin Eklund, Alexandra Jauhiainen, Kamila Czene, Henrik Gronberg, Pär Sparén, Fredrik Wiklund, Abbas Cheddad, þorgerður Pálsdóttir, Mattias Rantalainen, Linda Abrahamsson, Erwin Laure, Jan-Eric Litton, Juni Palmgren
2016 J jnl
Beta-Poisson model for single-cell RNA-seq data analyses.
Bioinform.
Trung-Nghia Vu, Quin F. Wills, Krishna R. Kalari, Nifang Niu, Liewei Wang, Mattias Rantalainen, Yudi Pawitan
2008 J jnl
K-OPLS package: Kernel-based orthogonal projections to latent structures for prediction and interpretation in feature space.
BMC Bioinform.
Max Bylesjö, Mattias Rantalainen, Jeremy K. Nicholson, Elaine Holmes, Johan Trygg
2008 J jnl
Piecewise multivariate modelling of sequential metabolic profiling data.
BMC Bioinform.
Mattias Rantalainen, Olivier Cloarec, Timothy M. D. Ebbels, Torbjörn Lundstedt, Jeremy K. Nicholson, Elaine Holmes, Johan Trygg