Mattias Rantalainen

Publication Activity (10 Years)

Years Active: 2008-2024
Publications (10 Years): 16

Top Topics

Weakly Supervised

Histopathology Images

Gene Expression

Top Venues

Medical Image Anal.

J. Am. Medical Informatics Assoc.

Publications

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
The ACROBAT 2022 challenge: Automatic registration of breast cancer tissue. Medical Image Anal. 97 (2024)
Abhinav Sharma, Bojing Liu, Mattias Rantalainen
WEEP: A method for spatial interpretation of weakly supervised CNN models in computational pathology. CoRR (2024)
Yujie Xiang, Bojing Liu, Mattias Rantalainen
Deep Blur Multi-Model (DeepBlurMM) - a strategy to mitigate the impact of image blur on deep learning model performance in histopathology image analysis. CoRR (2024)
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 AM Janssen, Mattias Rantalainen, Lars Egevad, Pekka Ruusuvuori, Martin Eklund, Kimmo Kartasalo
Physical Color Calibration of Digital Pathology Scanners for Robust Artificial Intelligence Assisted Cancer Diagnosis. CoRR (2023)
Philippe Weitz, Viktoria Sartor, Balazs Acs, Stephanie Robertson, Daniel Budelmann, Johan Hartman, Mattias Rantalainen
Increasing the usefulness of already existing annotations through WSI registration. CoRR (2023)
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
The ACROBAT 2022 Challenge: Automatic Registration Of Breast Cancer Tissue. CoRR (2023)
Philippe Weitz, Yinxi Wang, Kimmo Kartasalo, Lars Egevad, Johan Lindberg, Henrik Grönberg, Martin Eklund, Mattias Rantalainen
Transcriptome-wide prediction of prostate cancer gene expression from histopathology images using co-expression-based convolutional neural networks. Bioinform. 38 (13) (2022)
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
ACROBAT - a multi-stain breast cancer histological whole-slide-image data set from routine diagnostics for computational pathology. CoRR (2022)
Philippe Weitz, Yinxi Wang, Johan Hartman, Mattias Rantalainen
An investigation of attention mechanisms in histopathology whole-slide-image analysis for regression objectives. ICCVW (2021)
Boing Liu, Yinxi Wang, Philippe Weitz, Johan Lindberg, Lars Egevad, Henrik Grönberg, Martin Eklund, Mattias Rantalainen
Using deep learning to detect patients at risk for prostate cancer despite benign biopsies. CoRR (2021)
Philippe Weitz, Yinxi Wang, Kimmo Kartasalo, Lars Egevad, Johan Lindberg, Henrik Grönberg, Martin Eklund, Mattias Rantalainen
Transcriptome-wide prediction of prostate cancer gene expression from histopathology images using co-expression based convolutional neural networks. CoRR (2021)
Yinxi Wang, Kimmo Kartasalo, Masi Valkonen, Christer Larsson, Pekka Ruusuvuori, Johan Hartman, Mattias Rantalainen
Predicting molecular phenotypes from histopathology images: a transcriptome-wide expression-morphology analysis in breast cancer. CoRR (2020)
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
Pathologist-Level Grading of Prostate Biopsies with Artificial Intelligence. CoRR (2019)
Trung-Nghia Vu, Quin F. Wills, Krishna R. Kalari, Nifang Niu, Liewei Wang, Yudi Pawitan, Mattias Rantalainen
Isoform-level gene expression patterns in single-cell RNA-sequencing data. Bioinform. 34 (14) (2018)
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
E-Science technologies in a workflow for personalized medicine using cancer screening as a case study. J. Am. Medical Informatics Assoc. 24 (5) (2017)
Trung-Nghia Vu, Quin F. Wills, Krishna R. Kalari, Nifang Niu, Liewei Wang, Mattias Rantalainen, Yudi Pawitan
Beta-Poisson model for single-cell RNA-seq data analyses. Bioinform. 32 (14) (2016)
Max Bylesjö, Mattias Rantalainen, Jeremy K. Nicholson, Elaine Holmes, Johan Trygg
K-OPLS package: Kernel-based orthogonal projections to latent structures for prediction and interpretation in feature space. BMC Bioinform. 9 (2008)
Mattias Rantalainen, Olivier Cloarec, Timothy M. D. Ebbels, Torbjörn Lundstedt, Jeremy K. Nicholson, Elaine Holmes, Johan Trygg
Piecewise multivariate modelling of sequential metabolic profiling data. BMC Bioinform. 9 (2008)