Tapio Salakoski
Tapio Salakoski
Professor of Computer Science, University of Turku
Verified email at utu.fi
Title
Cited by
Cited by
Year
A large-scale evaluation of computational protein function prediction
P Radivojac, WT Clark, TR Oron, AM Schnoes, T Wittkop, A Sokolov, ...
Nature methods 10 (3), 221-227, 2013
8042013
BioInfer: a corpus for information extraction in the biomedical domain
S Pyysalo, F Ginter, J Heimonen, J Björne, J Boberg, J Järvinen, ...
BMC bioinformatics 8 (1), 1-24, 2007
4882007
All-paths graph kernel for protein-protein interaction extraction with evaluation of cross-corpus learning
A Airola, S Pyysalo, J Björne, T Pahikkala, F Ginter, T Salakoski
BMC bioinformatics 9 (11), 1-12, 2008
3372008
An expanded evaluation of protein function prediction methods shows an improvement in accuracy
Y Jiang, TR Oron, WT Clark, AR Bankapur, D D’Andrea, R Lepore, ...
Genome biology 17 (1), 1-19, 2016
2872016
Comparative analysis of five protein-protein interaction corpora
S Pyysalo, A Airola, J Heimonen, J Björne, F Ginter, T Salakoski
BMC bioinformatics 9 (3), 1-11, 2008
2642008
Extracting complex biological events with rich graph-based feature sets
J Björne, J Heimonen, F Ginter, A Airola, T Pahikkala, T Salakoski
Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, 10-18, 2009
2422009
Lactobacillus-dominated cervicovaginal microbiota associated with reduced HIV/STI prevalence and genital HIV viral load in African women
H Borgdorff, E Tsivtsivadze, R Verhelst, M Marzorati, S Jurriaans, ...
The ISME journal 8 (9), 1781-1793, 2014
1942014
Complex event extraction at PubMed scale
J Björne, F Ginter, S Pyysalo, J Tsujii, T Salakoski
Bioinformatics 26 (12), i382-i390, 2010
1422010
Why complicate things? Introducing programming in high school using Python
L Grandell, M Peltomäki, RJ Back, T Salakoski
Proceedings of the 8th Australasian Conference on Computing Education-Volume …, 2006
1382006
Generalizing biomedical event extraction
J Björne, T Salakoski
Proceedings of BioNLP Shared Task 2011 Workshop, 183-191, 2011
1332011
VILLE: a language-independent program visualization tool
T Rajala, MJ Laakso, E Kaila, T Salakoski
Proceedings of the Seventh Baltic Sea Conference on Computing Education …, 2007
1282007
TEES 2.1: Automated annotation scheme learning in the BioNLP 2013 Shared Task
J Björne, T Salakoski
Proceedings of the BioNLP shared task 2013 workshop, 16-25, 2013
1182013
Large-scale event extraction from literature with multi-level gene normalization
S Van Landeghem, J Björne, CH Wei, K Hakala, S Pyysalo, S Ananiadou, ...
PloS one 8 (4), e55814, 2013
1162013
An experimental comparison of cross-validation techniques for estimating the area under the ROC curve
A Airola, T Pahikkala, W Waegeman, B De Baets, T Salakoski
Computational Statistics & Data Analysis 55 (4), 1828-1844, 2011
1142011
A graph kernel for protein-protein interaction extraction
A Airola, S Pyysalo, J Björne, T Pahikkala, F Ginter, T Salakoski
Proceedings of the workshop on current trends in biomedical natural language …, 2008
1132008
The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens
N Zhou, Y Jiang, TR Bergquist, AJ Lee, BZ Kacsoh, AW Crocker, ...
Genome biology 20 (1), 1-23, 2019
1122019
Effectiveness of Program Visualization: A Case Study with the ViLLE Tool.
T Rajala, MJ Laakso, E Kaila, T Salakoski
Journal of Information Technology Education 7, 2008
1102008
Regularized machine learning in the genetic prediction of complex traits
S Okser, T Pahikkala, A Airola, T Salakoski, S Ripatti, T Aittokallio
PLoS genetics 10 (11), e1004754, 2014
1092014
What about a simple language? Analyzing the difficulties in learning to program
L Mannila, M Peltomäki, T Salakoski
Computer science education 16 (3), 211-227, 2006
1072006
Building the essential resources for Finnish: the Turku Dependency Treebank
K Haverinen, J Nyblom, T Viljanen, V Laippala, S Kohonen, A Missilä, ...
Language Resources and Evaluation 48 (3), 493-531, 2014
1052014
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