Janna Hastings

Janna Hastings's picture
Personal website

Projects & Foci

Emotion, Feeling and Value
Other Staff
Project TM4: TM Methods
Other Staff

Research activity

Biographical note

I am a computer scientist by training and have more than a decade of experience in creating rich applications in support of sophisticated business automation.  Since 2006, I have been involved in the development of scientific ontologies for standardisation and machine reasoning in the life sciences, and in chemistry in particular.  I joined the CISA in 2010 to work on a new ontology for the affective sciences, the Emotion Ontology.

Current research

Affective science conducts interdisciplinary research into the emotions and other affective phenomena.  Currently, such research is hampered by the lack of common definitions of terms used to describe, categorise and report both individual emotional experiences and the results of scientific investigations of such experiences.  Ontologies are machine-readable tools which provide formal definitions for types of entities in reality and for the relationships between such entities, definitions which can be used to disambiguate and unify data across different disciplines. Together with collaborators at the University at Buffalo's National Centre for Ontological Research, we are developing an Emotion Ontology to address the need for standardisation and intelligent applications to support sophisticated data mining and scientific research in the affective sciences. 

The full ontology is available for download from https://emotion-ontology.googlecode.com/svn/trunk/.

List of publications

Emotion project-related:

  1. Janna Hastings, Nicolas le Novere, Werner Ceusters, Kevin Mulligan and Barry Smith. Wanting what we don't want to want: Representing addiction in interoperable bio-ontologies. Accepted for presentation at ICBO 2012, Graz, Austria. 
  2. Janna Hastings, Werner Ceusters, Barry Smith and Kevin Mulligan.  The Emotion Ontology: enabling interdisciplinary research in the affective sciences. Proceedings of Context 2011, Karlsruhe, Germany, September 28-30.
  3. Jee-Hyub Kim, Maria Liakata, Shyamasree Saha, Janna Hastings and Dietrich Rebholz-Schuhmann. Three hybrid classifiers for the detection of emotions in suicide notes. Proceedings of the I2B2 Challenge workshop co-located with AMIA 2011, Washington, USA, 22-25 October 2011, 22-25 October 2011.
  4. Janna Hastings, Werner Ceusters, Barry Smith and Kevin Mulligan. Dispositions and processes in the Emotion Ontology. Proceedings of ICBO 2011, Buffalo, July 26-30.

Other:

  1. Colin Batchelor and Janna Hastings. Waves and fields in bio-ontologies. Accepted for presentation at ICBO 2012, Graz, Austria.
  2. Leonid L Chepelev, Janna Hastings, Marcus Ennis, Christoph Steinbeck and Michel Dumontier. Self-organizing ontology of biochemically relevant small molecules. BMC Bioinformatics 2012, 13:3 doi:10.1186/1471-2105-13-3.
  3. Martin Boeker, Ilinca Tudose, Janna Hastings, Daniel Schober and Stefan Schulz. Unintended consequences of existential quantifications in biomedical ontologies. BMC Bioinformatics 2011, 12:456
  4. Paula de Matos, Nico Adams, Janna Hastings, Pablo Moreno and Christoph Steinbeck. A Database for Chemical Proteomics: ChEBI. Methods Mol Biol. 2012;803:273-96
  5. Janna Hastings, Leonid Chepelev, Egon Willighagen, Nico Adams, Christoph Steinbeck and Michel Dumontier. The Chemical Information Ontology: provenance and disambiguation for chemical data on the biological semantic web. PLoS ONE,  6(10): e25513. doi:10.1371/journal.pone.0025513.
  6. Melanie Courtot, Nick Juty, Christian Knuepfer, Dagmar Waltemath, Anna Zhukova, Andreas Draeger, Michel Dumontier, Andrew Finney, Martin Golebiewski, Janna Hastings, Stefan Hoops, Sarah Keating, Douglas B Kell, Samuel Kerrien, James Lawson, Allyson Lister, James Lu, Rainer Machne, Pedro Mendes, Matthew Pocock, Nicolas Rodriguez, Alice Villeger, Darren J Wilkinson, Sarala Wimalaratne, Camille Laibe, Michael Hucka, Nicolas Le Novere. Controlled vocabularies and semantics in Systems Biology. Molecular Systems Biology, to appear.
  7. Janna Hastings, Oliver Kutz, Till Mossakowski. How to model the shapes of molecules? Combining topology and ontology using heterogeneous specifications. Presented at the Deep Knowledge Representation Challenge Workshop, Banff, Alberta, Canada, 26 June 2011.
  8. Janna Hastings, Colin Batchelor, Stefan Schulz and Christoph Steinbeck. Modularization requirements in bio-ontologies: A case study of ChEBI. Proceedings of the Workshop on Modular Ontologies (WoMO 2011), Slovenia.
  9. Oliver Kutz, Till Mossakowski, Janna Hastings, Alexander Garcia Castro and Aleksandra Sojic. Hyperontology for the Biomedical Ontologist: A sketch and some examples. Proceedings of the Workshop on Working with Multiple Biomedical Ontologies co-located with ICBO 2011, Buffalo, USA.
  10. Ying Yan, Janna Hastings, Jee-Hyub Kim, Stefan Schulz, Christoph Steinbeck and Dietrich Rebholz-Schuhmann. Use of multiple ontologies to characterise the bioactivity of small molecules. Proceedings of the Workshop on Working with Multiple Biomedical Ontologies co-located with ICBO 2011, Buffalo, USA.
  11. Colin Batchelor, Janna Hastings and Christoph Steinbeck. Processes and properties. Proceedings of the 2011 Bio-ontologies SIG, Vienna, July 15-16.
  12. Janna Hastings, Paula de Matos, Adriano Dekker, Marcus Ennis, Kenneth Haug, Zara Josephs, Gareth Owen, Steve Turner and Christoph Steinbeck. What's new and what's changing in ChEBI in 2011 (Flash update) Proceedings of the 2011 Bio-ontologies SIG, Vienna, July 15-16.
  13. Janna Hastings, Ludger Jansen, Christoph Steinbeck and Stefan Schulz. Modelling threshold phenomena in OWL: Metabolite concentrations as evidence for disorders. Proceedings of OWLED 2011, San Francisco, June 5-6.
  14. Martin Boeker, Janna Hastings, Daniel Schober and Stefan Schulz. A T-Box Generator for testing scalability of OWL mereotopological patterns. Proceedings of OWLED 2011, San Francisco, June 5-6.
  15. Janna Hastings, Colin Batchelor, Fabian Neuhaus and Christoph Steinbeck. What's in an 'is about' link? Chemical diagrams and the Information Artifact Ontology. Proceedings of ICBO 2011, Buffalo, July 26-30.
  16. Janna Hastings, Christoph Steinbeck, Ludger Jansen and Stefan Schulz. Substance concentrations as conditions for the realization of dispositions. Proceedings of the ISMB Bio-ontologies SIG, July 9-10 2010, Boston, Massachusetts, USA.
  17. Janna Hastings, Michel Dumontier, Duncan Hull, Matthew Horridge, Christoph Steinbeck, Ulrike Sattler, Robert Stevens, Tertia Horne and Katarina Britz. Representing chemicals using OWL, description graphs and rules. In K. Clark and E. Sirin, editors, OWLED 2010: OWL: Experiences and Directions, Seventh International Workshop, 21-22 June 2010, San Francisco, California, USA. CEUR Workshop Proceedings, 2010.
  18. Janna Hastings, Colin Batchelor, Christoph Steinbeck and Stefan Schulz. What are Chemical Structures and their Relations? Proceedings of FOIS2010, May 11-14 2010, Toronto, Canada.
  19. Colin Batchelor, Janna Hastings and Christoph Steinbeck. Ontological Dependence, Dispositions and Institutional Reality in Chemistry. Proceedings of FOIS2010, May 11-14 2010, Toronto, Canada.
  20. de Matos, P., Alcántara, R., Dekker, A., Ennis, M., Hastings, J., Haug, K., Spiteri, I., Turner, S., and Steinbeck, C. Chemical entities of biological interest: an update. Nucl. Acids Res. 2010 38: D249-D254.
  21. Degtyarenko, K., Hastings, J., de Matos, P. and Ennis, M. ChEBI: An Open Bioinformatics and Cheminformatics Resource. Curr. Protoc. Bioinform.26:14.9.1-14.9.20. (c) 2009 by John Wiley & Sons, Inc.
  22. Degtyarenko, K., de Matos, P., Ennis, M., Hastings, J., Zbinden, M., McNaught, A., Alcántara, R., Darsow, M., Guedj, M. and Ashburner, M. ChEBI: a database and ontology for chemical entities of biological interest. Nucleic Acids Res. 36, D344–D350.
  23. Hastings, J., de Matos, P., Ennis, M. and Steinbeck, C. Community Ontology Development with ChEBI Submissions, International Conference on Biomedical Ontology, Buffalo, USA, 24-26 July 2009.
  24. Hastings, J., de Matos, P., Ennis, M. and Steinbeck, C. Towards Automatic Classification of Entities within the ChEBI Ontology (Poster), International Conference on Biomedical Ontology, Buffalo, USA, 24-26 July 2009.
  25. Hastings, J., Degtyarenko, K., de Matos, P., Ennis, M. and Steinbeck, C. (2008) The ChEBI Ontology: an ontology for chemistry within a biological context (Poster), Semantic Web Applications and Tools for the Life Sciences workshop, Edinburgh, UK, 28 November 2008.

My publications

http://www.affective-sciences.org/user/346/publications
Pôle de Recherche National en Sciences Affectives    •    Nationaler Forschungsschwerpunkt in den Affektiven Wissenschaften