Journal publications

George Papamokos and Ilona Silins. 2016. Combining QSAR Modeling and Text-MiningTechniques to Link Chemical Structures and Carcinogenic Modes of Action. Front. Pharmacol. 30 August 2016; 7:284.

Imran Ali, Yufan Guo, Ilona Silins, Johan Högberg, Ulla Stenius, Anna Korhonen. 2016. Grouping chemicals for health risk assessment: A text mining-based case study of polychlorinated biphenyls (PCBs). Toxicol Lett. 2016 Jan 22; 241:32-7. doi: 10.1016/j.toxlet.  

Ilona Silins, Anna Korhonen, Ulla Stenius. 2014. Evaluation of carcinogenic modes of action for pesticides in fruit on the Swedish market using a text-mining tool. Front Pharmacol. 2014 Jun 23;5:145. doi: 10.3389/fphar.

Yufan Guo, Ilona Silins, Ulla Stenius, Anna Korhonen. Active learning-based information structure analysis of full scientific articles and two applications for biomedical literature review. Bioinformatics. 2013 Jun 1;29(11):1440-7. doi: 10.1093/bioinformatics/btt163.

Sandeep Kadekar, Ilona Silins, Anna Korhonen, Kristian Dreij, Lauy Al-Anati, Johan Högberg and Ulla Stenius. 2012. Exocrine pancreatic carcinogenesis and autotaxin expression. PLoS One. 2012;7(8):e43209. doi: 10.1371/journal.pone.0043209.
Anna Korhonen, Diarmuid O'Séaghdha, Ilona Silins, Lin Sun, Johan Högberg and Ulla Stenius. 2012. Text mining for literature review and knowledge discovery in cancer risk assessment and research. PLoS One. 2012;7(4):e33427.
Ilona Silins, Anna Korhonen, Johan Högberg and Ulla Stenius. 2012. Data and literature gathering in chemical cancer risk assessment. Integrated Environmental Assessment and Management. 2012 Jan 3. doi: 10.1002/ieam.1278.
Yufan Guo, Anna Korhonen, Ilona Silins and Ulla Stenius. 2011. Weakly-supervised learning of information structure of scientific abstracts - is it accurate enough to benefit real-world tasks in biomedicine? Bioinformatics 2011; doi: 10.1093/bioinformatics/btr536. 

Yufan Guo, Anna Korhonen, Maria Liakata, Ilona Silins, Johan Hogberg and Ulla Stenius. 2011. A comparison and user-based evaluation of models of textual information structure in the context of cancer risk assessment. BMC Bioinformatics 2011, 12:69. 

Anna Korhonen, Lin Sun, Ilona Silins, and Ulla Stenius. 2009. The First Step in the Development of Text Mining Technology for Cancer Risk Assessment: Identifying and Organizing Scientific Evidence in Risk Assessment Literature. In BMC Bioinformatics 10:303. 

Conference publications

Yufan Guo, Diarmuid Ó Séaghdha, Ilona Silins, Lin Sun, Johan Högberg, Ulla Stenius and Anna Korhonen. 2014. CRAB: A text mining tool for supporting literature review in chemical cancer risk assessment.To appear in Proceedings of COLING 2014Dublin, Ireland.

Anna Korhonen, Yufan Guo, Meliha Yetisgen-Yildiz, Ulla Stenius, Masashi Narita, Pietro Lio. 2014. Improving Literature-Based Discovery with Text Mining. In Proceedings of CIBB 2014. Cambridge, UK.

Yufan Guo, Ilona Silins, Roi Reichart and Anna Korhonen. 2012. CRAB Reader: A Tool for Analysis and Visualization of Argumentative Zones in Scientific Literature. In Proceedings of COLING 2012. Mumbai, India.

Yufan Guo, Anna Korhonen, Maria Liakata, Ilona Silins, Lin Sun and Ulla Stenius. 2010. Identifying the Information Structure of Scientific Abstracts: An Investigation of Three Different Schemes. In Proceedings of the BioNLP 2010. Uppsala, Sweden.  
Lin Sun, Anna Korhonen, Ilona Silins, and Ulla Stenius. 2009. User-Driven Development of Text Mining Resources for Cancer Risk Assessment. In Proceedings of the BioNLP 2009. Boulder, Colorado. 

Ian Lewin, Ilona Silins, Anna Korhonen, Johan Hogberg, and Ulla Stenius. 2008. A New Challenge for Text Mining: Cancer Risk Assessment. In Proceedings of the ISMB BioLINK Special Interest Group on Text Data Mining. Toronto, Canada. 

Conference Presentations and Posters

Ilona Silins, Anna Korhonen, Yufan Guo, Ulla Stenius. 2014. A text mining approach for chemical risk assessment and cancer research. Eurotox 2014, Edinburgh, UK.

Ilona Silins, Anna Korhonen, Johan Högberg, Ulla Stenius. 2011. A text mining approach to identify chemicals' modes of action in risk assessment of combined exposures. Toxicology of Mixtures Conference, Arlington, VA, USA.
Sandeep Kadekar, Ilona Silins, Anna Korhonen, Johan Hogberg, Kristian Dreij, and Ulla Stenius. 2010. Carcinogen-induced inflammation and pancreatic cancer. 101th Annual Meeting of the American Association for Cancer Research. Washington D.C., USA.
Ilona Silins, Anna Korhonen, Lin Sun, Johan Högberg, and Ulla Stenius. 2010. Chemical Carcinogenesis and Biomedical Text Mining. Karolinska Institutet Cancer Conference, Stockholm, Sweden.  

Ilona Silins, Anna Korhonen, Johan Hogberg, Lin Sun, and Ulla Stenius. 2009. Improved Cancer Risk Assessment Using Text Mining. Proceedings of the 100th Annual Meeting of the American Association for Cancer Research. Denver, Colorado, USA.

Emma Westerholm, Jordi Boix, Hanna Miettinen, Robert Roos, Elsa Antunes-Fernandes, Remco Westerink, Majorie van Duursen, Mia Stenberg, Sara Carreira, Miroslav Machala, Ilona Silins, Ulla Stenius, Krister Halldin, Annika Hanberg, and Helen Hakansson. 2009. ATHON NDL-PCB effect database - a tool to facilitate the cumulative risk assessment of NDL-PCBs. In Toxicology Letters, Volume 189, Supplement 1, 13 September 2009. Abstracts of the 46th Congress of the European Societies of Toxicology. 

Anna Korhonen, Ian Lewin, Ilona Silins, Johan Hogberg, and Ulla Stenius. 2008. CRAB - Cancer Risk Assessment and Biomedical Text Mining . European Conference on Computational Biology. Sardinia, Italy. 
See the ECCB08 website