Publications by authors named "Filip Ginter"

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TCBLex - A lexical database of Finnish literary texts for children.
Tapio Nojonen, Kiia Korsu, Filip Ginter, Veronika Laippala, Jenna Kanerva

Behav Res Methods· October 2025

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Annotated textual dataset PV600 of perovskite bandgaps for information extraction from literature.
Matilda Sipilä, Farrokh Mehryary, Sampo Pyysalo, Filip Ginter, Milica Todorović

Sci Data· August 2025

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Neural Network and Random Forest Models in Protein Function Prediction.
Kai Hakala, Suwisa Kaewphan, Jari Bjorne, Farrokh Mehryary, Hans Moen, Filip Ginter

IEEE/ACM Trans Comput Biol Bioinform· June 2022

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Dependency parsing of biomedical text with BERT.
Jenna Kanerva, Filip Ginter, Sampo Pyysalo

BMC Bioinformatics· December 2020

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Assisting nurses in care documentation: from automated sentence classification to coherent document structures with subject headings.
Hans Moen, Kai Hakala, Laura-Maria Peltonen, Hanna-Maria Matinolli, Henry Suhonen, Filip Ginter

J Biomed Semantics· September 2020

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Supporting the use of standardized nursing terminologies with automatic subject heading prediction: a comparison of sentence-level text classification methods.
Hans Moen, Kai Hakala, Laura-Maria Peltonen, Henry Suhonen, Filip Ginter

J Am Med Inform Assoc· January 2020

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The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens.
Naihui Zhou, Yuxiang Jiang, Timothy R Bergquist, Alexandra J Lee, Balint Z Kacsoh, Filip Ginter

Genome Biol· November 2019

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Data and systems for medication-related text classification and concept normalization from Twitter: insights from the Social Media Mining for Health (SMM4H)-2017 shared task.
Abeed Sarker, Maksim Belousov, Jasper Friedrichs, Kai Hakala, Svetlana Kiritchenko, Filip Ginter

J Am Med Inform Assoc· October 2018

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Improving Layman Readability of Clinical Narratives with Unsupervised Synonym Replacement.
Hans Moen, Laura-Maria Peltonen, Mikko Koivumäki, Henry Suhonen, Tapio Salakoski, Filip Ginter

Stud Health Technol Inform· June 2018

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Finding novel relationships with integrated gene-gene association network analysis of PCC 6803 using species-independent text-mining.
Sanna M Kreula, Suwisa Kaewphan, Filip Ginter, Patrik R Jones

PeerJ· May 2018

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Wide-scope biomedical named entity recognition and normalization with CRFs, fuzzy matching and character level modeling.
Suwisa Kaewphan, Kai Hakala, Niko Miekka, Tapio Salakoski, Filip Ginter

Database (Oxford)· January 2018

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Potent pairing: ensemble of long short-term memory networks and support vector machine for chemical-protein relation extraction.
Farrokh Mehryary, Jari Björne, Tapio Salakoski, Filip Ginter

Database (Oxford)· January 2018

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Filtering large-scale event collections using a combination of supervised and unsupervised learning for event trigger classification.
Farrokh Mehryary, Suwisa Kaewphan, Kai Hakala, Filip Ginter

J Biomed Semantics· November 2017

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An expanded evaluation of protein function prediction methods shows an improvement in accuracy.
Yuxiang Jiang, Tal Ronnen Oron, Wyatt T Clark, Asma R Bankapur, Daniel D'Andrea, Filip Ginter

Genome Biol· September 2016

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Application of the EVEX resource to event extraction and network construction: Shared Task entry and result analysis.
Kai Hakala, Sofie Van Landeghem, Tapio Salakoski, Yves Van de Peer, Filip Ginter

BMC Bioinformatics· June 2016

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Care episode retrieval: distributional semantic models for information retrieval in the clinical domain.
Hans Moen, Filip Ginter, Erwin Marsi, Laura-Maria Peltonen, Tapio Salakoski

BMC Med Inform Decis Mak· March 2016

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Cell line name recognition in support of the identification of synthetic lethality in cancer from text.
Suwisa Kaewphan, Sofie Van Landeghem, Tomoko Ohta, Yves Van de Peer, Filip Ginter

Bioinformatics· January 2016

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Statistical parsing of varieties of clinical Finnish.
Veronika Laippala, Timo Viljanen, Antti Airola, Jenna Kanerva, Sanna Salanterä, Filip Ginter

Artif Intell Med· July 2014

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Large-scale event extraction from literature with multi-level gene normalization.
Sofie Van Landeghem, Jari Björne, Chih-Hsuan Wei, Kai Hakala, Sampo Pyysalo, Filip Ginter

PLoS One· November 2013

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Exploring Biomolecular Literature with EVEX: Connecting Genes through Events, Homology, and Indirect Associations.
Sofie Van Landeghem, Kai Hakala, Samuel Rönnqvist, Tapio Salakoski, Yves Van de Peer, Filip Ginter

Adv Bioinformatics· August 2012

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University of Turku in the BioNLP'11 Shared Task.
Jari Björne, Filip Ginter, Tapio Salakoski

BMC Bioinformatics· June 2012

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U-Compare bio-event meta-service: compatible BioNLP event extraction services.
Yoshinobu Kano, Jari Björne, Filip Ginter, Tapio Salakoski, Ekaterina Buyko

BMC Bioinformatics· December 2011

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Complex event extraction at PubMed scale.
Jari Björne, Filip Ginter, Sampo Pyysalo, Jun'ichi Tsujii, Tapio Salakoski

Bioinformatics· June 2010

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Towards automated processing of clinical Finnish: sublanguage analysis and a rule-based parser.
Veronika Laippala, Filip Ginter, Sampo Pyysalo, Tapio Salakoski

Int J Med Inform· December 2009

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Combining hidden Markov models and latent semantic analysis for topic segmentation and labeling: method and clinical application.
Filip Ginter, Hanna Suominen, Sampo Pyysalo, Tapio Salakoski

Int J Med Inform· December 2009

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