Joanne Luciano Publications & Selected Presentations (please scroll down or more recent publications)

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Joanne S. Luciano
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Publications

All2014201320122011201020092008
DiFranzo, D., Erickson, J.S., Gloria, K., McGuinness, D.L., and Luciano, J.S. 2014. Building Web Observatories for Health Web Science. In Proceedings of Web Science Conference 2014 (June 23-26 2014, Indiana University, Bloomington, IN, US).

DiFranzo, D., Erickson, J.S., Gloria, K., Luciano, J.S., McGuinness, D.L., and Hendler, J. 2014. The Web Observatory Extension: Facilitating Web Science Collaboration through Semantic Markup. In Proceedings of WWW 2014 (April 7-11 2014, Seoul, South Korea), pages 475–480.

Gloria, K., Erickson, J.S., Luciano, J.S., DiFranzo, D., and McGuinness, D.L. 2014. Legal and ethical considerations: step 1b in building a health web observatory. In Proceedings of WWW 2014 (April 7-11 2014, Seoul, South Korea), pages 1061–1066.

Samwald, M., Freimuth, R., Luciano, J.S., Lin, S., Powers, R.L., Marshall, M.S., Adlassnig, K., Dumontier, M., and Boyce, R. 2013. An RDF/OWL knowledge base for query answering and decision support in clinical pharmacogenetics. In Proceedings of Medical and Health Informatics 2013 (August 20-23 2013, Bella Center, Copenhagen, Denmark).

Gloria, K., McGuinness, D.L., Luciano, J.S., and Zhang, Q. 2013. Exploration in Web Science: Instruments for Web Observatories. In Proceedings of WWW 2013 (May 13-17 2013, Rio de Janeiro, Brazil).

Gloria, K., Luciano, J.S., and McGuinness, D.L. 2013. Building Semantically-Enriched Web Observatories. In Proceedings of Web Science Conference 2013 (May 2-4 2013, Paris, France).

Boyce, R., Horn, J., and Luciano, J.S. 2012. Dynamic Enhancement of Drug Product Labels to Support Drug Safety, Efficacy, and Effectiveness. In Proceedings of Conference on Semantics in Healthcare and Life Sciences (CSHALS) 2012 (February 22-24 2012, Boston, MA).

Michaelis, J., McGuinness, D.L., Chang, C., Luciano, J.S., McCusker, J., and Hendler, J. 2012. Applying Multidimensional Navigation and Explanation in Semantic Dataset Summarization. In Proceedings of ISWC 2012 (November 11-15 2012, Boston, MA).

Wang, P., Zheng, J., Fu, L., Patton, E.W., Lebo, T., Ding, L., Luciano, J.S., and McGuinness, D.L. 2011. Next Generation Environmental Informatics as exemplified by the Tetherless World Semantic Water Quality Portal. In Proceedings of AGU Fall Meeting 2011 (December 5-9 2011).

Patton, E.W., Wang, P., Zheng, J., Fu, L., Lebo, T., Ding, L., Liu, Q., Luciano, J.S., and McGuinness, D.L. 2011. Assessing Health Effects of Water Pollution Using a Semantic Water Quality Portal. In Proceedings of 10th International Semantic Web Conference (October 23-27 2011, Bonn, Germany).




2016

Luciano, Joanne S., Djoko S. Sayogo, Weijia Ran, Nicolau Depaula, Holly Jarman, Luis F. Luna-Reyes, Giri K. Tayi et al. "Using Ontologies to Develop and Test a Certification and Inspection Data Infrastructure Building Block." In Private Data and Public Value, pp. 89-107. Springer International Publishing, 2016.


Sayogo, Djoko S., Holly Jarman, David F. Andersen, and Joanne S. Luciano. "Labeling, Certification, and Consumer Trust." In Private Data and Public Value, pp. 67-88. Springer International Publishing, 2016.

Grant P Cumming, Edward Morris, Paul Simpson, Tara French, Eva Kahana, Joanne S Luciano and David Molik "The future of post-reproductive health - the role of the Internet, the Web, information provision and access." Post Reproductive Health (in Press)

Djoko S. Sayogo, Weijia Ran, Giri K. Tayi, Joanne S. Luciano, Luis Luna-Reyes, Nicolau Depaula, Holly Jarman, Jing Zhang, Graduate School of Management, Jana Hrdinova, Deborah Lines Andersen, David F. Andersen, Theresa Pardo. “Ontological Modeling of Certification and Inspection Process to Support Smart Disclosure of Product Information.” International Journal of Public Administration in the Digital Age Volume 3 • Issue 2 • April-June 2016.

2015

Cumming, Grant P, Joanne S Luciano, David Molik, and Tara French. “Health Web Science : Formulating Healthcare for the 21st Century A Health Web Metadata Curation Framework to Evolve a Behavioral Model for Preferable Health Outcomes.” Proceedings of the 3rd European Workshop on Practical Aspects of Health Informatics, 2015. http://ceur-ws.org/Vol-1574/abstract5.pdf.

2014

Luciano, JS, Cumming, GP, Kahana, E, Wilkinson, MD, Brooks, EH, Jarman, H, McGuinness, DL, Levine, M, Pope, C, and Wilbanks, J. Health Web Science. In Foundations and Trends in Web Science. Now Publishers Inc. Hanover, MA, USA (2014).



Cumming GP, Luciano JS, MacRury S, McKendrick D, Stephen K, Chitty A. “Health Web Science: Facilitating Health Care and Well-Being Using Examples in Urinary Incontinence, Medical Education, and Diabetes.” In mHealth Multidisciplinary Verticals (Chapter 34 628-645). Ed Adibi S. CRC Press, Taylor & Francis Group, Boca Raton. (2014)

2013

Boyce, RD., Horn, JR., Hassanzadeh , O., de Waard , A., Schneider , J., Luciano , JS., Rastegar-Mojarad , M., Liakata, M. Dynamic Enhancement of Drug Product Labels to Support Drug Safety, Efficacy, and Effectiveness. Journal for Biomedical Semantics. 2013. Accepted for publication 27 December 2012.

Luciano, Joanne S., Cumming, Grant P., Wilkinson, Mark D., and Kahana, Eva. The Emergent Discipline of Health Web Science: Scope and Objectives, J Medical Internet Research, (2013) (in review for special issue).

In preparation:

  • InfluenzO: An Influenza Metadata Ontology for Biomedical Research and Biosurveillance. Joanne Luciano1, Lynn Schriml, Meredith Keybl, Eric Bortz, Torsten Staab, David Spiro, Marc Colosimo, Lynette Hirschman, Richard H. Scheuermann, R. Burke Squires. Keywords: Biosecurity, Influenza, Flu, Ontology, Metadata, Biosurveillance, Bioforensics, Disease Monitoring.
  • Characterizing novel compounds with antidepressant action from traditional medicine using semantic technologies. Matthias Samwald, Jun Zhao, Michel Dumontier, Joanne Luciano, Kei Cheung
  • Predictive Medicine and Bioinformatics - Current Trends and Future Implications. Joanne Luciano PhD, Christopher A Domarew, MBChB PharmD RPh North Cheshire NHS Hospital Trust, Christopher Wood PhD , Yale University
  • Ontology Evaluation and Reuse: A Science and Engineering Approach. This is based on work I did at The MITRE Corporation. Slides on slideshare.net at: Luciano pr 08-849_ontology_evaluation_methods_metrics

2012

Matthias Samwald, PhD, Adrien Coulet, PhD, Robert R. Freimuth, PhD, Iker Huerga, MSc, Joanne S. Luciano, PhD, Elgar Pichler, PhD, Robert L. Powers, PhD, Eric Prud’hommeaux, PhD, Frederick Whipple, PhD, M. Scott Marshall, PhD, Michel Dumontier, PhD. "An informatics infrastructure for translating pharmacogenomic knowledge into clinical practice" 2012 AMIA Summit on Translational Bioinformatics, 2012 Joint Summits on Translational Science, San Francisco California, Parc 55 Hotel San Francisco, March 19, 2012 - March 23, 2012 Manuscript ID AMIA-077-T2012

Matthias Samwald, Adrien Coulet, Iker Huerga, Robert L Powers, Joanne S Luciano, Robert R Freimuth, Frederick Whipple, Elgar Pichler, Eric Prud’hommeaux, Michel Dumontier, and M Scott Marshall, "Semantically enabling pharmacogenomic data for the realization of personalized medicine"
Pharmacogenomics, January 2012, Vol. 13, No. 2 , Pages 201-212 (doi: 10.2217/pgs.11.179) Semantically enabling pharmacogenomic data for the realization of personalized medicine [Download]

2011

  • Luciano, Joanne S., Bosse Andersson, Colin Batchelor, Olivier Bodenreider, Tim Clark, Christine K. Denney, Christopher Domarew et al. "The Translational Medicine Ontology and Knowledge Base: driving personalized medicine by bridging the gap between bench and bedside." J Biomed Semantics 2, no. Suppl 2 (2011): S1.
  • Towards an Interoperable Information Infrastructure Providing Decision Support for Genomic Medicine 165 - 169 Matthias Samwald, Holger Stenzhorn, Michel Dumontier, M. Scott Marshall, Joanne Luciano, Klaus-Peter Adlassnig User Centred Networked Health Care - Proceedings of MIE 2011 DOI: 10.3233/978-1-60750-806-9-165 http://arxiv.org/abs/1109.6626v1

    ABSTRACT
    Genetic dispositions play a major role in individual disease risk and treatment response. Genomic medicine, in which medical decisions are refined by genetic information of particular patients, is becoming increasingly important. Here we describe our work and future visions around the creation of a distributed infrastructure for pharmacogenetic data and medical decision support, based on industry standards such as the Web Ontology Language (OWL) and the Arden Syntax.

  • Sriram, R. D.; Bock, C. E.; Neuhaus, F. M.; Wallace, E. K.; Brady, M. C.; Luciano, J.; Musen, M.;
    NIST Workshop on Ontology Evaluation (NISTIR 7774) Published: April 01, 2011
    Abstract: The National Institute for Standards and Technology sponsored a workshop in October, 2007, on the subject of ontology evaluation. An international group of invited experts met for two days to discuss problems in measuring ontology quality. The workshop highlighted several divisions among ontology developers regarding approaches to ontology evaluation. These divisions were generally reflective of the opinions of the participants. However, the workshop documented a paucity of empirical evidence in support of any particular position. Given the importance of ontologies to every knowledge-intensive human activity, there is an urgent need for research to develop an empirically derived knowledge base of best practices in ontology engineering and methods for assuring ontology quality over time. The workshop participants brainstormed about what such a research program might look like.
    Citation: NIST Interagency/Internal Report (NISTIR) - 7774
    Pages: 17 pp http://www.nist.gov/manuscript-publication-search.cfm?pub_id=907201
    PDF: http://www.nist.gov/customcf/get_pdf.cfm?pub_id=907201
  • Elizabeth H brooks, Grant P Cumming, Joanne S Luciano. Health Web Science: Application of Web Science to the Area of Health Education and Health Care. MedEx 2011 Workshop, The second International Workshop on Web Science and Information Exchange in the Medical Web – Glasgow, Scotland. http://dl.acm.org/citation.cfm?id=2064746 http://dl.acm.org/citation.cfm?id=2064746 - Presentation: http://meco-project.eu/sites/meco-project.eu/files/ACMThe%20Health%20Web...
    • 2010

      • "The BioPAX community standard for pathway data sharing" Dr. Emek Demir, Mr. Michael Cary , Ms. Suzanne Paley , Dr. Ken Fukuda , Dr. Christian Lemer , Dr. Imre Vastrik , Dr. Guanming Wu , Dr. Peter D'Eustachio , Carl Schaefer , Dr. Joanne Luciano, Dr. Frank Schacherer , Dr. Irma Martinez-Flores , Dr. Zhenjun Hu , Dr. Veronica Jimenez-Jacinto , Dr. Geeta Joshi-Tope , Kumaran Kandasamy , Dr. Alejandra Lopez-Fuentes , Dr. Huaiyu Mi , Dr. Elgar Pichler , Dr. Igor Rodchenkov , Dr. Andrea Splendiani , Dr. Sasha Tkachev , Dr. Jeremy Zucker , Dr. Gopal Gopinath , Dr. Harsha Rajasimha , Ms. Ranjani Ramakrishnan , Dr. Imran Shah , Dr. Mustafa Syed , Dr. Nadia Anwar , Dr. Özgün Babur , Prof. Michael Blinov , Dr. Erik Brauner , Dr. Dan Corwin , Dr. Sylva Donaldson , Dr. Frank Gibbons , Dr. Robert Goldberg , Dr. Peter Hornbeck , Augustin Luna , Dr. Peter Murray-Rust , Dr. Eric Neumann , Mr. Oliver Ruebenacker , Dr. Matthias Samwald , Mr. Martijn van Iersel , Mrs. Sarala Wimalaratne , Dr. Keith Allen , Mr. Burk Braun , Dr. Michelle Whirl-Carrillo , Dr. Kam Dahlquist , Andrew Finney , Dr. Marc Gillespie , Dr. Elizabeth Glass , Dr. Li Gong , Dr. Robin Haw , Dr. Michael Honig , Mr. Olivier Hubaut , Mr. David Kane , Dr. Shiva Krupa , Miss Martina Kutmon , Miss Julie Leonard , Dr. Debora Marks , Mr. David Merberg , Dr. Victoria Petri , Dr. Alexander Pico , Mr. Dean Ravenscroft , Miss Liya Ren , Nigam Shah , Miss Margot Sunshine , Miss Rebecca Tang , Mr. Ryan Whaley , Dr. Stanley Letovsky , Dr. Kenneth Buetow , Dr. Andrey Rzhetsky , Dr. Vincent Schachter , Dr. Bruno Sobral , Dr. Ugur Dogrusoz , Dr. Mirit Aladjem , Dr. Shannon mcweeney , Dr. Ewan Birney , Dr. Julio Collado-Vides , Susumu Goto , Dr. Michael Hucka , Dr. Nicolas Le Novere , Dr. Natalia Maltsev , Dr. Akhilesh Pandey , Dr. Paul Thomas , Dr. Edgar Wingender , Dr. Peter Karp , Dr. Chris Sander , Dr. Gary Bader. Nature Biotechnology, Volume 28, Number 9, September 2010. http://www.nature.com/nbt/journal/v28/n9/pdf/nbt.1666.pdf
      • Dumontier M, Andersson B, Batchelor C, Domarew C, Jentzsch A, Luciano J, Pichler E, Prud'hommeaux E, Whetzel PL, Bodenreider O, Clark T, Harland L, Kashyap V, Kos P, Kozlovsky J, McGurk J, Ogbuji C, Samwald M, Schriml L, Tonellato PJ, Zhao J, Stephens S. The Translational Medicine Ontology: Driving personalized medicine by bridging the gap from bedside to bench. Proceedings of the 13th ISMB'2010 SIG meeting "Bio-ontologies" 2010:120-123. http://www.lhncbc.nlm.nih.gov/lhc/docs/published/2010/pub2010004.pdf
      • Matthias Samwald, Michel Dumontier, Jun Zhao, Joanne Luciano, M. Scott Marshall, Kei Cheung. "Integrating findings from traditional medicine into modern pharmaceutical research: the potential role of linked open data. Chinese Medicine 5:43 (2010). http://www.cmjournal.org/content/pdf/1749-8546-5-43.pdf http://www.cmjournal.org/content/5/1/43
      • Luciano, et. al. 2010 Proceedings of AMIA Summit on Translational Bioinformatics. (2010) Translational Medicine: Using Systems of Differential Equations to Identify Patterns in Symptom Remission in Response to Treatment and the Underlying Dynamics of their Interactions [Download] Presentation here: http://summit2010.amia.org/files/symposium2008/S05_Luciano.pdf

      2009

      2008

      • 2008 Special Issue of the Journal of Biomedical Informatics: Semantic BioMed Mashup. Volume 41, Issue 5, October 2008. Special Issue Editors: Kei-Hoi Cheung, Huajun Chen, Yimin Wang, Susie Stephens, Joanne Luciano, Vipul Kashyap. Semantic mashup of biomedical data. Science Direct
      • 2008 Habitat-Lite: A GSC Case Study Based on Free Text Terms for Environmental Metadata. Lynette Hirschman, Cheryl Clark, K. Bretonnel Cohen, Scott Mardis, Joanne Luciano, Renzo Kottmann, James Cole, Victor Markowitz, Nikos Kyrpides, Norman Morrison, Lynn M. Schriml, Dawn Field, and the Novo Project OMICS: A Journal of Integrative Biology. June 2008, 12(2): 129-136. http://www.liebertonline.com/doi/pdfplus/10.1089/omi.2008.0016
      • 2008 Issues in learning an ontology from text. Christopher Brewster, Simon Jupp, Joanne Luciano, David Shotton Robert Stevens, and Ziqi Zhang. Bio-Ontologies 2008: Knowledge ion Biology, ISMB 2008, Toronto, Canada. Phillip Lord, Nigam Shah, Susanna-Assunta Sansone, Matthew Cockerill, Editors. pages 9-12. http://www.bio-ontologies.org.uk/download/Bio-Ontologies2008.pdf
      • 2008 Luciano, Joanne S. and Stevens, Robert D. OWL: PAX of mind or the AX? Experiences of Using OWL in the Development of BioPAX For the workshop OWL: Experiences and Directions, Gaithersburg, MD, USA, April 1-2, 2008. http://www.webont.org/owled/2008dc/papers/owled2008dc_paper_7.pdf

      2007

      • 2007 Luciano, Joanne S. and Stevens, Robert D. e-Science and biological pathway semantics. BMC Bioinformatics 2007, 8 (Suppl 3):S3 http://www.biomedcentral.com/1471-2105/8/S3/S3
      • 2007 Alan Ruttenberg, Tim Clark, William Bug, Matthias Samwald, Olivier Bodenreider, Helen Chen, Donald Doherty, Kerstin Forsberg, Yong Gao, Vipul Kashyap, June Kinoshita, Joanne Luciano, M Scott Marshall, Chimezie Ogbuji, Jonathan Rees, Susie Stephens, Gwendolyn T Wong, Elizabeth Wu, Davide Zaccagnini1, Tonya Hongsermeier, Eric Neumann, Ivan Herman and Kei-Hoi Cheung. Advancing translational research with the Semantic Web. BMC Bioinformatics 2007, 8(Suppl 3):S2 http://www.biomedcentral.com/1471-2105/8/S3/S2
      • 2007 Matthias Samwald, William Bug, Jonathan Rees, Chris Mungall, John Barkley, Ray Hookway, Huajun Chen, Susie Stephens, Olivier Bodenreider, Kei-Hoi Cheung, Paolo Ciccarese, Tim Clark, Donald W Doherty, Kerstin Forsberg, Vipul Kashyap, June Kinoshita, Joanne Luciano, M Scott Marshall, Eric Neumann, Eric Prud'hommeaux, Daniel Rubin, Michael Travers, Gwen Wong, Elizabeth Wu, Alan Ruttenberg, The Semantic Web Health Care and Life Sciences Interest Group work in progress: A large scale, OBO inspired, repository of biological knowledge based on Semantic Web technologies. Bio-Ontologies SIG Workshop 2007 Poster Abstract: http://bio-ontologies.man.ac.uk/abstracts.php
      • 2007 Vipul Kashyap, Kei-Hoi Cheung, Don Doherty, Matthias Samwald, M. Scott Marshall, Joanne Luciano, Susie Stephens, Ivan Herman and Ray Hookway, An Ontology-based approach for Data Integration - An Application in Biomedical Research, Book Chapter in Cardoso, J., Hepp, M., Lytras, M. (Eds.) Real-world Applications of Semantic Web Technology and Ontologies, Springer 2007. Hardcover ISBN-10: 0-387-48530-9, ISBN-13: 978-0-387-48530-0 http://empwr.org/2007-Chapter5.pdf
      • 2007 Ram D. Sriram, Mark A. Musen, and Joanne S. Luciano, Conrad Bock, Fabian Neuhaus, Evan Wallace, Mary Brady, (editors). Meeting Report: “NIST Workshop on Ontology Evaluation” NIST Ontology Evaluation Workshop, October 25-26, 2007

      2006

      2005

      1993-1998

      • 1998 Rubin, Mark A., Cohen, Michael A., Luciano, Joanne S., and Samson, Jacqueline A. "Can we predict the outcome of treatment for depression?" IEEE Control Systems Society Technical Committee on Intelligent Control Intelligent Control Newsletter 98-3 (March 27, 1998) http://pami.uwaterloo.ca/~karray/newsl5.html
      • 1997 Luciano, J., Cohen, M. Samson, J. "Predictive Medicine: Initial Symptoms May Determine Outcome in Clinically Treated Depressions," 1997 International Conference on Neural Networks (ICNN'97), IEEE, Piscataway, NJ, vol. I, pp71-80.
      • 1996 Luciano, J.S. Neural Network Modeling of Unipolar Depression: Patterns of Recovery and Prediction of Outcome, Ph.D. Thesis, Boston University. To order a copy http://tinyurl.com/cpxwk8.
      • 1996 Luciano, J., Cohen, M. Samson, J. ”Neural Network Modeling of Unipolar Depression,” Neural Modeling of Cognitive and Brain Disorders, World Scientific Publishing Company, eds. J. Reggia and E. Ruppin and R. Berndt. Book cover; chapter pp 469-483.
      • 1994 Luciano, J., Cohen, M., Samson, J. and Hagan, P., “A Prototype and Nonlinear Neural Network Approach to Subtyping Depressive Illness by Initial Input Data and Treatment Outcome,” Proceedings of the Irish Neural Network Conference 1994, Dublin, Ireland
      • 1994 Luciano, J., Cohen, M., Samson, J. “A Neural Network Model of Unipolar Depression,” Proceedings of the Irish Neural Network Conference 1994, Dublin, Ireland.
      • 1993 Schiller, Ilya, Luciano, Joanne S., Draper, James S. "Flock autonomy for unmanned vehicles." Proc. SPIE Vol. 1831, p. 45-51, Mobile Robots VII, William J. Wolfe, Wendell H. Chun, Eds. (SPIE Homepage) Abstract Copyright: (c) 1993 SPIE--The International Society for Optical Engineering. http://adsabs.harvard.edu/abs/1993SPIE.1831...45S

      2013 and In Press

      • Boyce, RD., Horn, JR., Hassanzadeh , O., de Waard , A., Schneider , J., Luciano , JS., Rastegar-Mojarad , M., Liakata, M. Dynamic Enhancement of Drug Product Labels to Support Drug Safety, Efficacy, and Effectiveness. Journal for Biomedical Semantics. 2013. (In Press).

      Selected Presentations and Posters