Collaborative Technologies for Biomedical Research
Collaborative Computational Technologies for Biomedical Research Edited by Sean Ekins, Maggie A.Z. Hupcey and Antony J. Williams With a Foreword by Alpheus Bingham Wiley Series on Technologies for the Pharmaceutical Industry Sean Ekins, Series Editor
Biomedical research has become increasingly driven by creating and consuming tremendous volumes of data. At the same time the pharmaceutical industry is utilizing an extended network of partner organizations of various sorts in order to discover and develop new drugs. There is currently little if any guidance for managing information and computational resources across collaborations. Methods, Processes and Tools for Collaborations
The book is divided into four sections: Part I. Getting People To Collaborate Part II: Methods And Processes For Collaborations Part III. Tools For Collaborations Part IV. The Future Of Collaborations
This book tackles a real set of problems thoroughly from both the human collaborative, the data and informatics side, and is very relevant to activities of running a laboratory or a collaborative R&D project.
This book provides the reader with state of the art practical advice. Collaboration will only increase in the future and scientists will be relying on computational applications to enable this.
PART I: GETTING PEOPLE TO COLLABORATE 1. The Need for Collaborative Technologies in Drug Discovery Chris L. Waller, Ramesh V. Durvasula and Nick Lynch 2. Collaborative Innovation: the Essential Foundation of Scientific Discovery Robert Porter Lynch 3. Models for Collaborations and Computational Biology Shawnmarie Mayrand-Chung, Gabriela Cohen-Freue, and Zsuzsanna Hollander 4. Precompetitive Collaborations in the Pharmaceutical Industry Jackie Hunter 5. Collaborations in Chemistry Sean Ekins, Antony J. Williams and Christina K. Pikas 6. Consistent Patterns in Large Scale Collaboration Robin W. Spencer 7. Collaborations Between Chemists and Biologists Victor J. Hruby 8. Ethics of Collaboration Richard J. McGowan, Matthew K. McGowan and Garrett J. McGowan 9 Intellectual Property Aspects of Collaboration John Wilbanks
PART II: METHODS AND PROCESSES FOR COLLABORATIONS 10. Scientific Networking and Collaborations Edward D. Zanders 11. Cancer Commons: Biomedicine in the Internet Age Jeff Shrager, Jay M. Tenenbaum, and Michael Travers 12. Collaborative Development of Large-Scale Biomedical Ontologies Tania Tudorache and Mark A. Musen 13. Standards for Collaborative Computational Technologies for Biomedical Research Sean Ekins, Antony J. Williams and Maggie A.Z. Hupcey 14. Collaborative Systems Biology: Open Source, Open Data, and Cloud Computing Brian Pratt 15. Eight Years Using GRIDS for Life Sciences Vincent Breton, Lydia Maigne, David Sarramia and David Hill 16. Enabling Precompetitive Translational Research – A Case Study Sándor Szalma 17. Collaboration in the Cancer Research Community: The cancer Biomedical Informatics Grid (caBIG) George A. Komatsoulis 18. Leveraging Information Technology for Collaboration in Clinical Trials O.K. Baek
PART III. TOOLS FOR COLLABORATIONS 19. The Evolution of Electronic Laboratory Notebooks Keith T. Taylor 20. Collaborative Tools to Accelerate Neglected Disease Research: the Open Source Drug Discovery Model Anshu Bhardwaj, Vinod Scaria, Zakir Thomas, Santosh Adayikkoth, Open Source Drug Discovery (OSDD) Consortium and Samir K. Brahmachari 21. Pioneering Use of the Cloud for Development of the Collaborative Drug Discovery (CDD) Database Sean Ekins, Moses M. Hohman and Barry A. Bunin 22. Chemspider: a Platform for Crowdsourced Collaboration to Curate Data Derived From Public Compound Databases Antony J. Williams 23. Collaborative Based Bioinformatics Applications Brian D. Halligan 24. Collaborative Cheminformatics Applications Rajarshi Guha, Ola Spjuth and Egon Willighagen
PART IV. THE FUTURE OF COLLABORATIONS 25. Collaboration Using Open Notebook Science in Academia Jean-Claude Bradley, Andrew S.I.D. Lang, Steve Koch and Cameron Neylon 26. Collaboration and the Semantic Web Christine Chichester and Barend Mons 27. A Collaborative Visual Analytics Environment for Imaging Genetics Zhiyu He, Kevin Ponto and Falko Kuester 28. Current and Future Challenges for Collaborative Computational Technologies for the Life Sciences Antony J. Williams, Renée J.G. Arnold, Cameron Neylon, Robin Spencer, Stephan Schürer and Sean Ekins
Target Audience We have aimed for a complete volume that can be read by all interested in biomedical research and development and with each chapter edited to ensure consistency across the common theme of collaboration and with appropriate explanatory figures and key references. We are confident this book will become a valuable reference work for those interested in collaborative approaches to biomedical research.
The time has come to fundamentally re-think how we handle the building of knowledge in biomedical sciences today. This book describes how the computational sciences have transformed into being a key knowledge broker, able to integrate and operate across divergent data types. – Bryn Williams-Jones, Associate Research Fellow, Pfizer Considering the present state the pharmaceutical industry finds itself in, the promise of innovative medicines for children and our children's children may well depend on finding new collaborative paradigms with attendant business models. The material for this genesis, though nascent, may well be found in these pages. - Alpheus Bingham, Cascade Consulting; InnoCentive, Inc.; Monitor Talent
Sean Ekins, MSc, PhD, DSc is the Principal at Collaborations in Chemistry; Collaborations Director at Collaborative Drug Discovery, Inc., SVP at ACT LLC; Adjunct Associate Professor in the Department of Pharmaceutical Sciences, University of Maryland School of Pharmacy. Dr. Ekins has published >150 papers and book chapters on computational and in vitro drug discovery approaches and previously edited or co-edited three books for Wiley. Maggie A.Z. Hupcey, PhD is a chemist working within the Life Sciences and Healthcare practice of PA Consulting in Princeton, NJ. She has worked on collaborative projects for the design and development of new products and processes in the medical device, drug delivery and drug discovery fields, including pre-submission and post-launch regulatory compliance activities. Antony J Williams, PhD, FRSC is currently VP, strategic development at the Royal Society of Chemistry and holds an adjunct position at UNC-Chapel Hill. He has written chapters for many books and published >100 peer reviewed papers and book chapters on NMR, predictive ADME methods, Internet-based tools, crowdsourcing and database curation. He is an active blogger and participant in the internet chemistry network. About the Authors
Related websites for these authors http://www.collaborations.com/CHEMISTRY.HTM http://myprofile.cos.com/ekinssean http://www.amazon.com/Sean-Ekins/e/B003BFP2E0 http://www.chemconnector.com/chemunicating/ http://www.chemspider.com/blog/
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