Sampo Pyysalo
sampo.pyysalo@utu.fi ORCID identifier: https://orcid.org/0000-0002-6279-5000 |
natural language processing; machine learning; scientific text mining
I am a researcher in the TurkuNLP group (https://turkunlp.org/) and Research Fellow at the Department of Computing, University of Turku. My work focuses on machine learning for natural language processing, with particular application domains including scientific text mining, Finnish language technology, and large language models.
After defending my PhD thesis in computer science at the University of Turku, I held researcher positions at the University of Tokyo, University of Manchester and University of Cambridge before returning to the University of Turku in 2019.
The primary focus of my research is on natural language processing using machine learning approaches, with recent emphasis on deep learning methods and large language models. I have been working on scientific text mining as an application area for nearly 20 years, with specific focus on the English biomedical literature, and have in recent years also addressed a variety of tasks in the processing of Finnish text as well as multi- and cross-lingual applications. My work covers the full range of natural language processing development from initial task design to the development of practical applications and organizing community challenges, including also running manual annotation efforts and developing annotation tools and machine learning methods for various natural language processing tasks.
My current teaching focuses on the natural language processing study module shared between the departments of Languages and Computing, with courses ranging from introductory to a course on deep learning for natural language processing.
- FinGPT: Large Generative Models for a Small Language (2023) Proceedings of the 2023 Conference on Empirical Methods in Natural Language Processing Luukkonen Risto, Komulainen Ville, Luoma Jouni, Eskelinen Anni, Kanerva Jenna, Kupari Hanna-Mari, Ginter Filip, Laippala Veronika, Muennighoff Niklas, Piktus Aleksandra, Wang Thomas, Tazi Nouamane, Scao Le Teven, Wolf Thomas, Suominen Osma, Sairanen Samuli, Merioksa Mikko, Heinonen Jyrki, Vahtola Aija, Antao Samuel, Pyysalo Sampo
(A4 Refereed article in a conference publication ) - Kohti suomenkielisiä keskustelumalleja: tule kehittämään tekoälyä (2023)
- Hiiskuttua: Turun yliopiston humanistisen tiedekunnan verkkolehti
(D1 Article in a professional journal) - Multi-CrossRE A Multi-Lingual Multi-Domain Dataset for Relation Extraction (2023)
- NEALT proceedings series
(A4 Refereed article in a conference publication ) - Overview of DrugProt task at BioCreative VII: data and methods for large-scale text mining and knowledge graph generation of heterogenous chemical-protein relations (2023)
- Database: The Journal of Biological Databases and Curation
(A1 Refereed original research article in a scientific journal) - S1000: a better taxonomic name corpus for biomedical information extraction (2023)
- Bioinformatics
(A1 Refereed original research article in a scientific journal) - Scaling Data-Constrained Language Models (2023)
- Advances in Neural Information Processing Systems
(A4 Refereed article in a conference publication ) - Silver Syntax Pre-training for Cross-Domain Relation Extraction (2023) Findings of the Association for Computational Linguistics: ACL 2023 Bassignana Elisa, Ginter Filip, Pyysalo Sampo, van der Goot Rob, Plank Barbara
(A4 Refereed article in a conference publication ) - The STRING database in 2023: protein-protein association networks and functional enrichment analyses for any sequenced genome of interest (2023)
- Nucleic Acids Research
(A1 Refereed original research article in a scientific journal) - Toxicity Detection in Finnish Using Machine Translation (2023)
- NEALT proceedings series
(A4 Refereed article in a conference publication ) - Register identification from the unrestricted open Web using the Corpus of Online Registers of English (2022)
- Language Resources and Evaluation
(A1 Refereed original research article in a scientific journal) - Towards better structured and less noisy Web data: Oscar with Register annotations (2022)
- International Conference on Computational Linguistics
(A4 Refereed article in a conference publication ) - Beyond the English web: Zero-shot cross-lingual and lightweight monolingual classification of registers (2021) Proceedings of the 16th Conference of the European Chapter of the Association for Computational Linguistics: Student Research Workshop Repo Liina, Skantsi Valtteri, Rönnqvist Samuel, Hellström Saara, Oinonen Miika, Salmela Anna, Biber Douglas, Egbert Jesse, Pyysalo Sampo, Laippala Veronika
(A4 Refereed article in a conference publication ) - Correction to 'The STRING database in 2021: customizable protein-protein networks, and functional characterization of user-uploaded gene/measurement sets' (vol 49, pg D605, 2021) (2021)
- Nucleic Acids Research
(Other publication) - Deep learning for sentence clustering in essay grading support (2021) Proceedings of the 14th International Conference on Educational Data Mining (EDM 2021) Chang Li-Hsin, Rastas Iiro, Pyysalo Sampo, Ginter Filip
(D3 Article in a professional conference publication) - Fine-grained Named Entity Annotation for Finnish (2021)
- Linköping Electronic Conference Proceedings
(A4 Refereed article in a conference publication ) - Overview of DrugProt BioCreative VII track: quality evaluation and large scale text mining of drug-gene/protein relations (2021) Proceedings of the BioCreative VII Challenge Evaluation Workshop Miranda Antonio, Mehryary Farrokh, Luoma Jouni, Pyysalo Sampo, Valencia Alfonso, Krallinger Martin
(B3 Non-refereed article in a conference publication) - Quantitative Evaluation of Alternative Translations in a Corpus of Highly Dissimilar Finnish Paraphrases (2021) Proceedings for the First Workshop on Modelling Translation: Translatology in the Digital Age Chang Li-Hsin, Pyysalo Sampo, Kanerva Jenna, Ginter Filip
(A4 Refereed article in a conference publication ) - The STRING database in 2021: customizable protein–protein networks, and functional characterization of user-uploaded gene/measurement sets (2021)
- Nucleic Acids Research
(A1 Refereed original research article in a scientific journal) - WikiBERT Models: Deep Transfer Learning for Many Languages (2021)
- Linköping Electronic Conference Proceedings
(A4 Refereed article in a conference publication ) - A broad-coverage corpus for finnish named entity recognition (2020) 12th International Conference on Language Resources and Evaluation Jouni Luoma, Miika Oinonen, Maria Pyykönen, Veronika Laippala, Sampo Pyysalo
(A4 Refereed article in a conference publication )



