Preprints

Preprints

  1. Tiihonen, A.M., Salonen, I., Koivisto, I., Ritamäki, A.S., Jaatinen, S., Hyvärinen, T., … Hypoxia and associated acidosis generate cell-type specific myeloid responses in glioblastoma. bioRxiv, 2026.02.26.707379, 2026.
  2. Mikkola, L., Bölük, A., Piipponen, M., Mikocziova, I., Valkonen, M., Fagersund, J., … Adipose tissue-derived fibroblasts engage in immune-stromal crosstalk during obesity-aggravated atherosclerosis in mice. bioRxiv, 2025.09.02.673686, 2025.
  3. Mulliqi, N., Blilie, A., Ji, X., Szolnoky, K., Olsson, H., Boman, S.E., Titus, M., … Ruusuvuori, P., … Kartasalo, K. Foundation Models — A Panacea for Artificial Intelligence in Pathology? arXiv:2502.21264, 2025.
  4. Khan, U., Härkönen, J., Friman, M., Latonen, L., Kuopio, T., Ruusuvuori, P. Staining normalization in histopathology: Multi-center dataset and method benchmarking. arXiv, 2024.
  5. Mulliqi, N., Blilie, A., Ji, X., Szolnoky, K., Olsson, H., Titus, M., Gonzalez, G.M., … Study protocol: Development and retrospective validation of an artificial intelligence system for diagnostic assessment of prostate biopsies. medRxiv, 2024.07.04.24309948, 2024.
  6. Weitz*, P., Valkonen*, M., Solorzano*, L., Carr, C., Kartasalo, K., Boissin, C., … Hartman, J.§, Ruusuvuori, P.§, Rantalainen, M.§ ACROBAT — a multi-stain breast cancer histological whole-slide-image data set from routine diagnostics for computational pathology. arXiv:2211.13621, 2022.
  7. Honkamaa, J., Khan, U., Koivukoski, S., Latonen, L., Ruusuvuori, P., Marttinen, P. Deformation equivariant cross-modality image synthesis with paired non-aligned training data. arXiv:2208.12491, 2022.
  8. Wang, Y., Kartasalo, K., Valkonen, M., Larsson, C., Ruusuvuori, P.*, Hartman, J.*, Rantalainen, M.* Predicting molecular phenotypes from histopathology images: a transcriptome-wide expression-morphology analysis in breast cancer. arXiv:2009.08917, 2020. *Equal contribution
  9. Mehtonen, J., Teppo, S., Lahnalampi, M., … Ruusuvuori, P., … Heinäniemi, M. Single cell characterization of B-lymphoid differentiation and leukemic cell states during chemotherapy in ETV6-RUNX1 positive pediatric leukemia. bioRxiv, 2020.05.27.116293, 2020.
  10. Ström, P., Kartasalo, K., Ruusuvuori, P., Grönberg, H., Samaratunga, H., Delahunt, B., Tsuzuki, T., Egevad, L., Eklund, M. Detection of perineural invasion in prostate needle biopsies with deep neural networks. arXiv:2004.01589, 2020.
  11. Liimatainen, K., Latonen, L., Valkonen, M., Kartasalo, K., Ruusuvuori, P. Virtual reality for 3D histology: multi-scale visualization of organs with interactive feature exploration. arXiv:2003.11148, 2020.
  12. Ström, P., Kartasalo, K., Olsson, H., Solorzano, L., Delahunt, B., Berney, D.M., … Iczkowski, K.A. Pathologist-level grading of prostate biopsies with artificial intelligence. arXiv:1907.01368, 2019.

Bioimage Informatics Group • Institute of Biomedicine • University of Turku, Finland