Sampo Pyysalo

Affiliations

Language Technology Laboratory, MML, University of Cambridge, 9 West Road, Cambridge, CB39DB, UK.

Publications (12)

A neural classification method for supporting the creation of BioVerbNet.

Journal of biomedical semantics

Avec: Billy Chiu , Olga Majewska , Sampo Pyysalo , Laura Wey , Ulla Stenius , Anna Korhonen , Martha Palmer

Dependency parsing of biomedical text with BERT.

BMC bioinformatics

Avec: Jenna Kanerva , Filip Ginter , Sampo Pyysalo

LION LBD: a literature-based discovery system for cancer biology.

Bioinformatics (Oxford, England)

Avec: Sampo Pyysalo , Simon Baker , Imran Ali , Stefan Haselwimmer , Tejas Shah , Andrew Young , Yufan Guo , Johan Högberg , Ulla Stenius , Masashi Narita , Anna Korhonen

Improving dictionary-based named entity recognition with deep learning.

Bioinformatics (Oxford, England)

Avec: Katerina Nastou , Mikaela Koutrouli , Sampo Pyysalo , Lars Juhl Jensen

S1000: a better taxonomic name corpus for biomedical information extraction.

Bioinformatics (Oxford, England)

Avec: Jouni Luoma , Katerina Nastou , Tomoko Ohta , Harttu Toivonen , Evangelos Pafilis , Lars Juhl Jensen , Sampo Pyysalo

RegulaTome: a corpus of typed, directed, and signed relations between biomedical entities in the scientific literature.

Database : the journal of biological databases and curation

Avec: Katerina Nastou , Farrokh Mehryary , Tomoko Ohta , Jouni Luoma , Sampo Pyysalo , Lars Juhl Jensen

CoNECo: a Corpus for Named Entity recognition and normalization of protein Complexes.

Bioinformatics advances

Avec: Katerina Nastou , Mikaela Koutrouli , Sampo Pyysalo , Lars Juhl Jensen

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

Nucleic acids research

Avec: Damian Szklarczyk , Rebecca Kirsch , Mikaela Koutrouli , Katerina Nastou , Farrokh Mehryary , Radja Hachilif , Annika L Gable , Tao Fang , Nadezhda T Doncheva , Sampo Pyysalo , Peer Bork , Lars J Jensen , Christian von Mering

Overview of DrugProt task at BioCreative VII: data and methods for large-scale text mining and knowledge graph generation of heterogenous chemical-protein relations.

Database : the journal of biological databases and curation

Avec: Antonio Miranda-Escalada , Farrokh Mehryary , Jouni Luoma , Darryl Estrada-Zavala , Luis Gasco , Sampo Pyysalo , Alfonso Valencia , Martin Krallinger

Lifestyle factors in the biomedical literature: An ontology and comprehensive resources for named entity recognition.

Bioinformatics (Oxford, England)

Avec: Esmaeil Nourani , Mikaela Koutrouli , Yijia Xie , Danai Vagiaki , Sampo Pyysalo , Katerina Nastou , Søren Brunak , Lars Juhl Jensen

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

Nucleic acids research

Avec: Damian Szklarczyk , Annika L Gable , Katerina C Nastou , David Lyon , Rebecca Kirsch , Sampo Pyysalo , Nadezhda T Doncheva , Marc Legeay , Tao Fang , Peer Bork , Lars J Jensen , Christian von Mering

STRING-ing together protein complexes: Corpus and methods for extracting physical protein interactions from the biomedical literature.

Bioinformatics (Oxford, England)

Avec: Farrokh Mehryary , Katerina Nastou , Tomoko Ohta , Lars Juhl Jensen , Sampo Pyysalo

Réseau de co-auteurs

Katerina Nastou 7 collaborations

Lars Juhl Jensen 6 collaborations

Mikaela Koutrouli 4 collaborations

Farrokh Mehryary 4 collaborations

Jouni Luoma 3 collaborations

Tomoko Ohta 3 collaborations

Ulla Stenius 2 collaborations

Anna Korhonen 2 collaborations

Damian Szklarczyk 2 collaborations

Rebecca Kirsch 2 collaborations

Annika L Gable 2 collaborations

Tao Fang 2 collaborations

Nadezhda T Doncheva 2 collaborations

Peer Bork 2 collaborations

Lars J Jensen 2 collaborations

Christian von Mering 2 collaborations

Billy Chiu 1 collaboration

Olga Majewska 1 collaboration

Laura Wey 1 collaboration

Martha Palmer 1 collaboration

Jenna Kanerva 1 collaboration

Filip Ginter 1 collaboration

Simon Baker 1 collaboration

Imran Ali 1 collaboration

Stefan Haselwimmer 1 collaboration

Tejas Shah 1 collaboration

Andrew Young 1 collaboration

Yufan Guo 1 collaboration

Johan Högberg 1 collaboration

Masashi Narita 1 collaboration

Harttu Toivonen 1 collaboration

Evangelos Pafilis 1 collaboration

Radja Hachilif 1 collaboration

Antonio Miranda-Escalada 1 collaboration

Darryl Estrada-Zavala 1 collaboration

Luis Gasco 1 collaboration

Alfonso Valencia 1 collaboration

Martin Krallinger 1 collaboration

Esmaeil Nourani 1 collaboration

Yijia Xie 1 collaboration

Danai Vagiaki 1 collaboration

Søren Brunak 1 collaboration

Katerina C Nastou 1 collaboration

David Lyon 1 collaboration

Marc Legeay 1 collaboration