Esa Pitkänen

Principal Researcher, Institute for Molecular Medicine Finland (FIMM), University of Helsinki

Joined

October 2024

Names

Esa Pitkänen (Preferred)

Emails

****@helsinki.fi (Confirmed)

****@gmail.com (Confirmed)

Personal Links

Career & Education History

Principal Researcher

Institute for Molecular Medicine Finland (FIMM), University of Helsinki (helsinki.fi)

2019 – Present

Advisors, Relations & Conflicts

PhD Advisor

Juho Rousu

2004 – 2010

Expertise

foundation models

2021 – 2024

machine learning in biomedicine

2019 – 2024

digital histopathology

2019 – 2024

deep learning

2016 – 2024

integrative modeling

2016 – 2024

genomics

2016 – 2024

Publications

Exposing and addressing the fragility of neural networks in digital pathology
Joona Pohjonen, Carolin Stürenberg, Atte Föhr, Esa Pitkänen, Antti Rannikko, Tuomas Mirtti
- CoRR 2022
- Readers: Everyone
Identification of multiplicatively acting modulatory mutational signatures in cancer
Dovydas Kiciatovas, Qingli Guo, Miika Kailas, Henri Pesonen, Jukka Corander, Samuel Kaski, Esa Pitkänen, Ville Mustonen
- BMC Bioinform. 2022
- Readers: Everyone
Training robust deep learning models for medical imaging tasks with spectral decoupling
Joona Pohjonen, Carolin Stürenberg, Antti Rannikko, Tuomas Mirtti, Esa Pitkänen
- CoRR 2021
- Readers: Everyone
Comparative analysis of molecular fingerprints in prediction of drug combination effects
Bulat Zagidullin, Ziyan Wang, Yuanfang Guan, Esa Pitkänen, Jing Tang
- 2021 (modified: 16 Apr 2023)
- Briefings Bioinform. 2021
- Readers: Everyone
Towards pan-genome read alignment to improve variation calling
Daniel Valenzuela, Tuukka Norri, Niko Välimäki, Esa Pitkänen, Veli Mäkinen
- BMC Genom. 2018
- Readers: Everyone
Service Outsourcing with Process Views
Rik Eshuis, Alex Norta, Oliver Kopp, Esa Pitkänen
- IEEE Trans. Serv. Comput. 2015
- Readers: Everyone
Comparative Genome-Scale Reconstruction of Gapless Metabolic Networks for Present and Ancestral Species
Esa Pitkänen, Paula Jouhten, Jian Hou, Muhammad Fahad Syed, Peter Blomberg, Jana Kludas, Merja Oja, Liisa Holm, Merja Penttilä, Juho Rousu, Mikko Arvas
- 2014 (modified: 24 Apr 2023)
- PLoS Comput. Biol. 2014
- Readers: Everyone
Minimum Mutation Algorithm for Gapless Metabolic Network Evolution
Esa Pitkänen, Juho Rousu, Mikko Arvas
- 2011 (modified: 24 Oct 2024)
- BIOINFORMATICS 2011
- Readers: Everyone
Reconstructing Gapless Ancestral Metabolic Networks
Esa Pitkänen, Mikko Arvas, Juho Rousu
- 2011 (modified: 24 Oct 2024)
- BIOSTEC (Selected Papers) 2011
- Readers: Everyone
Computational Methods for Reconstruction and Analysis of Genome-Scale Metabolic Networks
Esa Pitkänen
- undefined 2010
- Readers: Everyone

View all 20 publications

Co-Authors

View all 45 co-authors