Projects per year
Organisation profile
Organisation Profile
Our research group focuses on uncovering complex information from bioimages using machine learning. We are interested in developing novel deep learning solutions for bioimage analysis, study various learning approaches to create general models, and to apply these methods and models to profile cancer cell and tissue samples imaged using fluorescence microscopy.
Fields of Science
- 113 Computer and information sciences
- 1182 Biochemistry, cell and molecular biology
International and National Collaboration
Publications and projects within past five years.
Profiles
-
Gantugs Atarsaikhan
- Institute for Molecular Medicine Finland - Postdoctoral Researcher
Person: U2 Teaching and research staff
-
Isabel Mogollon Figueroa
- Institute for Molecular Medicine Finland - Postdoctoral Researcher
- Bioimage Profiling
Person: U2 Teaching and research staff
-
Lassi Paavolainen
- Institute for Molecular Medicine Finland - Academy Research Fellow
- Bioimage Profiling
- Doctoral Programme in Integrative Life Science - Supervisor for doctoral programme
Person: U3 Research and teaching staff
-
Mohammad Vali Sanian
- Institute for Molecular Medicine Finland - Doctoral Researcher
- Bioimage Profiling
- Doctoral Programme in Computer Science
Person: U1 Research and teaching staff, Doctoral Researcher
-
Uncovering patterns in cancer cells with visual representation learning
Paavolainen, L. (Project manager), Atarsaikhan, G. (Participant), Mogollon Figueroa, I. (Participant) & Sanian, M. V. (Participant)
01/09/2021 → 31/08/2026
Project: Research project
-
Pan-cancer tumor microenvironment exploration with vision transformers
Paavolainen, L. (Project manager), Atarsaikhan, G. (Participant), Mogollon Figueroa, I. (Participant) & Mogollon Figueroa, I. (Participant)
Syöpäsäätiö sr Cancerstiftelsen sr
01/01/2023 → 31/12/2024
Project: Foundations (Private Foundations, Non-Profit Foundations, Charitable Trusts)
-
iCAN-DIP: AI-driven deep image-based profiling of pan-cancer tumor microenvironment
Atarsaikhan, G. (Participant) & Paavolainen, L. (Principal Investigator)
01/01/2023 → 31/12/2024
Project: Research project
-
Academy of Finland FIRI2020/ Biocenter Finland/ Single Cell Competence Center
Pietiäinen, V. (Participant), Hassinen, A. (Participant), Polso, M. M. M. (Participant), Horvarth, P. (Participant) & Paavolainen, L. (Participant)
01/12/2020 → 31/12/2021
Project: Research Council of Finland: Research infrastructure
-
Covid-19 immunofluoresenssidetektiomenetelmän kehitys
Pietiäinen, V. (Principal Investigator), Polso, M. M. M. (Participant), Horvarth, P. (Participant) & Paavolainen, L. (Participant)
01/01/2020 → 31/01/2021
Project: Research project
-
Drug repurposing platform for deciphering the druggable SARS-CoV-2 interactome
Bogacheva, M., Kuivanen, S., Potdar, S., Hassinen, A., Huuskonen, S., Pöhner, I., Luck, T. J., Turunen, L., Feodoroff, M., Szirovicza, L., Savijoki, K., Saarela, J., Tammela, P., Paavolainen, L., Poso, A., Varjosalo, M., Kallioniemi, O., Pietiäinen, V. & Vapalahti, O., Mar 2024, In: Antiviral Research. 223, 15 p., 105813.Research output: Contribution to journal › Article › Scientific › peer-review
Open AccessFile -
Image-based and machine learning-guided multiplexed serology test for SARS-CoV-2
Paavolainen, L., Hassinen, A., Polso, M. M. M., Pietiäinen, V. & Kemmer, I., 7 Mar 2024Research output: Non-textual form › Digital or Visual Products › Scientific
Open Access -
Analysis of cellular phenotypes with unbiased image-based generative models
Fonnegra, R., Sanian, M. V., Chen, Z. S., Paavolainen, L. & Caicedo, J. C., 28 Nov 2023.Research output: Conference materials › Paper › peer-review
Open AccessFile -
Application of Self Supervised Vision Transformers for Multiplexed Microscopy Images and Its Challenges
Atarsaikhan, G., Mogollon Figueroa, I., Välimäki, K., Pellinen, T., Mirtti, T. & Paavolainen, L., 16 Dec 2023.Research output: Conference materials › Paper › peer-review
Open AccessFile -
Comparison of two supporting matrices for patient-derived cancer cells in 3D drug sensitivity and resistance testing assay (3D-DSRT)
Feoforoff, M., Mikkonen, P., Turunen, L., Hassinen, A., Paasonen, L., Paavolainen, L., Potdar, S., Murumagi, A., Kallioniemi, O. & Pietiainen, V., Jun 2023, In: SLAS discovery . 28, 4, p. 138-148 11 p.Research output: Contribution to journal › Article › Scientific › peer-review
Open AccessFile
Activities
-
CytoData and SBI2 2024
Paavolainen, L. (Scientific Committee Member)
17 Sept 2024 → 20 Sept 2024Activity: Participating in or organising an event types › Organisation and participation in conferences, workshops, courses, seminars
-
Mitä tekoäly on?
Paavolainen, L. (Invited speaker)
15 Nov 2024Activity: Talk or presentation types › Invited talk
-
EMC2024, 17th European Microscopy Congress
Paavolainen, L. (Scientific Committee Member)
25 Aug 2024 → 30 Aug 2024Activity: Participating in or organising an event types › Organisation and participation in conferences, workshops, courses, seminars
-
AACR Annual Meeting 2024
Paavolainen, L. (Poster Presentation)
5 Apr 2024 → 10 Apr 2024Activity: Participating in or organising an event types › Organisation and participation in conferences, workshops, courses, seminars
-
EMC2024, 17th European Microscopy Congress
Paavolainen, L. (Speaker: Chair)
29 Aug 2024 → 30 Aug 2024Activity: Participating in or organising an event types › Organisation and participation in conferences, workshops, courses, seminars