2026 Sampo Pyysalo: Computer Science Researcher – H-Index, Publications & Awards

Discipline name	D-Index	World Ranking	Current World Ranking	National Ranking	Current National Ranking	Publications	Citations
Computer Science	55	4176	4059	24	21	164	32036

Overview

Sampo Pyysalo is affiliated with the University of Turku in Finland. Their research spans several interdisciplinary fields, with a focus on computational methods related to biology and language processing.

Their primary fields of study include:

Computer Science
Biochemistry, Genetics and Molecular Biology

Within these fields, Pyysalo has contributed extensively to subfields such as:

Artificial Intelligence
Molecular Biology
Spectroscopy
Computational Theory and Mathematics
Information Systems

The main research topics addressed by Pyysalo encompass:

Topic Modeling
Natural Language Processing Techniques
Biomedical Text Mining and Ontologies
Bioinformatics and Genomic Networks
Text Readability and Simplification
Semantic Web and Ontologies
Advanced Proteomics Techniques and Applications

Among Pyysalo's frequent co-authors are:

Katerina Nastou
Lars Juhl Jensen
Farrokh Mehryary
Filip Ginter
Jouni Luoma

Pyysalo has published in a variety of scientific venues. The most common publication forums include:

arXiv (Cornell University)
Zenodo (CERN European Organization for Nuclear Research)
bioRxiv (Cold Spring Harbor Laboratory)
Nucleic Acids Research
Bioinformatics

Recent notable papers authored or co-authored by Pyysalo include:

The STRING database in 2021: customizable protein-protein networks, and functional characterization of user-uploaded gene/measurement sets, 2020, Nucleic Acids Research
The STRING database in 2023: protein-protein association networks and functional enrichment analyses for any sequenced genome of interest, 2022, Nucleic Acids Research
Correction to 'The STRING database in 2021: customizable protein-protein networks, and functional characterization of user-uploaded gene/measurement sets', 2021, Nucleic Acids Research
Universal Dependencies v2: An Evergrowing Multilingual Treebank Collection, 2020, arXiv (Cornell University)
The STRING database in 2025: protein networks with directionality of regulation, 2024, Nucleic Acids Research

Best Publications

The STRING database in 2023: protein–protein association networks and functional enrichment analyses for any sequenced genome of interest

Unknown

8302
Citations
The STRING database in 2021: customizable protein-protein networks, and functional characterization of user-uploaded gene/measurement sets.

Damian Szklarczyk;Annika L. Gable;Katerina C. Nastou;David Lyon

8192
Citations
Universal Dependencies v1: A Multilingual Treebank Collection

Joakim Nivre;Marie-Catherine de Marneffe;Filip Ginter;Yoav Goldberg

1322
Citations
BLOOM: A 176B-Parameter Open-Access Multilingual Language Model

Unknown

1282
Citations
brat: a Web-based Tool for NLP-Assisted Text Annotation

Pontus Stenetorp;Sampo Pyysalo;Goran Topić;Tomoko Ohta

1254
Citations
Overview of BioNLP'09 Shared Task on Event Extraction

Jin-Dong Kim;Tomoko Ohta;Sampo Pyysalo;Yoshinobu Kano

799
Citations
Universal Dependencies 2.2

Joakim Nivre;Mitchell Abrams;Željko Agić;Lars Ahrenberg

608
Citations
BioInfer: a corpus for information extraction in the biomedical domain

Sampo Pyysalo;Filip Ginter;Juho Heimonen;Jari Björne

588
Citations
Correction to ‘The STRING database in 2021: customizable protein–protein networks, and functional characterization of user-uploaded gene/measurement sets’

Unknown

583
Citations
Distributional Semantics Resources for Biomedical Text Processing

S Pyysalo;F Ginter;H Moen;T Salakoski

521
Citations
CoNLL 2017 Shared Task: Multilingual Parsing from Raw Text to Universal Dependencies

Daniel Zeman;Martin Popel;Milan Straka;Jan Hajic

520
Citations
How to Train good Word Embeddings for Biomedical NLP

Billy Chiu;Gamal K. O. Crichton;Anna Korhonen;Sampo Pyysalo

391
Citations
All-paths graph kernel for protein-protein interaction extraction with evaluation of cross-corpus learning

Antti Airola;Sampo Pyysalo;Jari Björne;Tapio Pahikkala

373
Citations
Universal Dependencies v2: An Evergrowing Multilingual Treebank Collection

Joakim Nivre;Marie-Catherine de Marneffe;Filip Ginter;Jan Hajic

371
Citations
Comparative analysis of five protein-protein interaction corpora

Sampo Pyysalo;Antti Airola;Juho Heimonen;Jari Björne

304
Citations
Event extraction for systems biology by text mining the literature.

Sophia Ananiadou;Sampo Pyysalo;Jun’ichi Tsujii;Douglas B. Kell

278
Citations
Universal Dependencies 1.0

Joakim Nivre;Cristina Bosco;Jinho Choi;Marie-Catherine de Marneffe

268
Citations
Universal Dependencies 2.1

Joakim Nivre;Željko Agić;Lars Ahrenberg;Lene Antonsen

250
Citations
A neural network multi-task learning approach to biomedical named entity recognition

Gamal K. O. Crichton;Sampo Pyysalo;Billy Chiu;Anna Korhonen

244
Citations
Overview of BioNLP Shared Task 2013

Claire Nédellec;Robert Bossy;Jin-Dong Kim;Jung-Jae Kim

234
Citations
Overview of BioNLP Shared Task 2011

Jin-Dong Kim;Sampo Pyysalo;Tomoko Ohta;Robert Bossy

223
Citations
Multilingual is not enough: BERT for Finnish

Antti Virtanen;Jenna Kanerva;Rami Ilo;Jouni Luoma

216
Citations
Universal Dependencies 2.7

Daniel Zeman;Joakim Nivre;Mitchell Abrams;Elia Ackermann

16
Citations

Frequent Co-Authors

Filip Ginter University of Turku

Jun'ichi Tsujii University of Manchester

Tomoko Ohta University of Tokyo

Tapio Salakoski University of Turku

Sophia Ananiadou University of Manchester

Christopher D. Manning Stanford University

Joakim Nivre Uppsala University

Jan Hajič Charles University

Marie-Catherine de Marneffe The Ohio State University

Slav Petrov Google (United States)

External Links

Personal website of Sampo Pyysalo Google Scholar page

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