John H. Reif



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: 9781461421184, ISBN 10: 1461421187 [PDF] [PDF]

  • John H. Reif, Perspectives: Biochemistry: Scaling Up DNA Computation, Science, Vol. 332, pp. 1156-1157 (June 3, 2011). DOI: 10.1126/science.1208068 [PDF]

  • Harish Chandran, Nikhil Gopalkrishnan, Andrew Philips and John Reif, Localized Hybridization Circuits, International Conference on DNA Computing and Molecular Programming, (DNA17), California Institute of Technology, Pasadena, California, Sept 19-23, 2011, pp. 64-83. Lecture Notes for Computer Science (LNCS), NYC, NY, (edited by Luca Cardelli and William Shih), Springer-Verlag, LNCS, Berlin, Heidelberg, (2011). ISBN: 978-3-642-23637-2 [PDF] Revised as Neil Dalchau, Harish Chandran, Nikhil Gopalkrishnan, Andrew Philips and John Reif, Probabilistic Analysis of Localized DNA Hybridization Circuits, ACS Synthetic Biology, Vol. 4, Issue 8, pp 898–913, (July, 2015). DOI:10.1021/acssynbio.5b00044 [PDF] [PDF] Supporting Info: [PDF]

  • Harish Chandran, Nikhil Gopalkrishnan, Sudhanshu Garg, and John Reif, Biomolecular Computing Systems - From Logic Systems to Smart Sensors and Actuators, Invited Chapter 11, Molecular and Biomolecular Information Processing (Editor: Evgeny Katz), Published by Wiley-VCH, Verlag GmbH & Comp. KGaA, Weinheim, Germany, pp. 199-224, July 2012. ISBN 978-3-527-33228-1 Online ISBN: 9783527645480 DOI: 10.1002/9783527645480 [PDF] [PDF]

  • Harish Chandran, Nikhil Gopalkrishnan, Bernard Yurke, John Reif, Meta-DNA: Synthetic Biology via DNA Nanostructures and Hybridization Reactions, Journal of the Royal Society Interface, (published online Jan., 2012), pp. 1742-5662 doi: 10.1098/rsif.2011.0819 [PDF] [PDF] [Supplement]. An expanded version appears as Meta-DNA: A DNA-Based Approach to Synthetic Biology, Chapter 7 in Book: A Systems Theoretic Approach to Systems and Synthetic Biology II: Analysis and Design of Cellular Systems, edited by Vishwesh V. Kulkarni, Guy-Bart Stan, and Karthik Raman, published by Springer, New York (2014). ISBN: 978-94-017-9046-8 (Print) 978-94-017-9047-5 (Online) DOI 10.1007/978-94-017-9047-5 [PDF] [PDF] Talk: [PDF] [PPT]

  • Harish Chandran, Sudhanshu Garg, Nikhil Gopalkrishnan and John H Reif, Activatable Tiles: Demonstration of Linear and Directed Self Assembly, abstract, Digital Proceedings of the Ninth Conference on Foundations of Nanoscience: Self-Assembled Architectures and Devices (FNANO12), Snowbird, Utah, pp. 109 (April 2012). Also, Sudhanshu Garg, Harish Chandran, Nikhil Gopalkrishnan, and John Reif, One-Time, Directed and Catalytic Activation of 1-D DNA Tiles, Poster Abstract DNA19, Tempe, AZ, Sept, 22-27, 2013. Journal publication: Sudhanshu Garg, Harish Chandran, Nikhil Gopalkrishnan, Thomas H. LaBean, and John Reif, Directed Enzymatic Activation of 1-D DNA Tiles, ACS Nano, Volume 9, Issue 2, pages 1072-1079, January 27, 2015. [PDF] [PDF] Supplementary [PDF] DOI: 10.1021/nn504556v

  • Hieu Bui, Harish Chandran, Sudhanshu Garg, Nikhil Gopalkrishnan, Reem Mokhtar, Tianqi Song and John H Reif, DNA Computing, Chapter in Section 3: Architecture and Organization, Volume I: Computer Science and Software Engineering (Edited by Teofilo F. Gonzalez), The Computer Science Handbook, Third Edition (Editor-In-Chief Allen B. Tucker), Taylor & Francis Group, (2013). ISBN 9781439898444 [PDF]

    246. Sudhanshu Garg, Nikhil Gopalkrishnan, Harish Chandran, and John Reif, Self-Replicating DNA Nanostructures: Autocatalytic Nanodevices derived from Catalytic Nanodevices, Poster Abstract, FNANO 2013, Snowbird, Utah, April 15-18, 2013.

    247. Reem Mokhtar, Sudhanshu Garg, Harish Chandran, Hieu Bui, Tianqi Song, and John Reif, Kinetic Digraph Rewrite Systems: Coarse-Grained Models for Dynamic DNA Nanodevices, Poster Abstract, FNANO 2013, Snowbird, Utah, April 15-18, 2013. Also, A Python Implementation of a DNA Graph Rewriting System (DAGR), poster abstract, FNANO2015, p148, April 2015. Published as Reem Mokhtar, Sudhanshu Garg, Harish Chandran, Hieu Bui, Tianqi Song, and John Reif, Modeling DNA Nanodevices Using Graph Rewriting Systems, invited Chapter, Advances in Unconventional Computing, Volume 2: Prototypes, Models and Algorithms (Edited by Andrew Adamatzky), Springer, pp. 347-396 (2017). ISBN 978-3-319-33921-4 [PDF] [PDF]

    248. Hieu Bui, Tianqi Song, Sudhanshu Garg, Reem Mokhtar, Harish Chandran, and John Reif, Local Hybridization Chain-Reactions on the Surface of DNA Origami, Poster Abstract, FNANO 2013, Snowbird, Utah, April 15-18, 2013. Also Design DNA Hairpin Systems for Localized DNA Hybridization Reactions, poster abstract, FNANO2015, p169, April 2015. Expanded paper rewritten for journal publication as: Hieu Bui, Sudhanshu Garg, Reem Mokhtar, Harish Chandran, Vincent Miao and John Reif, Design and Analysis of Localized DNA Hybridization Chain Reactions, Small (2017), 1602983. DOI: 10.1002/smll.201602983 [PDF] [PDF]

    249. John H. Reif and Tianqi Song, Complexity and Computability of Temperature-1 Tilings, Poster Abstract, FNANO 2013, Snowbird, Utah, April 15-18, 2013. Poster Abstract DNA19, Tempe, AZ, Sept, 22-27, 2013. Submitted for journal publication, (2012). [PDF]

    250. John H. Reif and Wadee Alhalabi, Advancing Attention Control Using VR-Induced Artificial Synesthesia, submitted for journal publication, (2014). [PDF]

    251. John H. Reif and Wadee Alhalabi, Design and Analysis of a High-Efficiency, Cost-Effective Solar Concentrator, submitted for journal publication, (2014). [PDF]

    252. John H. Reif and Wadee Alhalabi, Solar-Powered Desalination: Its Significant Challenges and Potential, Renewable and Sustainable Energy Reviews, Volume 48, Pages 152-165, (August 2015). [PDF] [PDF]

    253. Hiba Shahid, Wadee Alhalabi, and John H. Reif, Real-time operating system (RTOS) with application to play models, International Journal of Computing Engineering Research, Vol.5(2), pp. 9-16, October 2014, DOI: 10.5897/IJCER2013.0202, ISSN: 2141-6494, (Oct, 2014). [PDF]

    254. Wadee Alhalabi, John Reif, Zeineb Elsheikh, Heba Felimban, Majda Fallata, Khalid Thabit, Abdullah Abusorrah, The Co-learning in the Design, Simulation and Optimization of a Solar Concentrating System, Computers in Human Behavior, (December 2014). [PDF] http://dx.doi.org/10.1016/j.chb.2014.10.043 

    255. Tianqi Song, Sudhanshu Garg, Hieu Bui, Reem Mokhtar, and John H. Reif, Analog Computation by DNA Strand Displacement Circuits, ACS Synthetic Biology, ACS Synth. Biol. 2016, 5, 898−912 (July, 2016). DOI: 10.1021/acssynbio.6b00144 [PDF] [PDF]



    256. Hieu Bui, Sudhanshu Garg, Vincent Miao, Tianqi Song, Reem Mokhtar, and John Reif, Design and Analysis of Linear Cascade DNA Hybridization Chain Reactions Using DNA Hairpins, Special Issue, Journal of New Physics, Vol 19, (2017) 015006. doi:10.1088/1367-2630/aa53d0 [PDF] [PDF]257. Sudhanshu Garg, Tianqi Song, Reem Mokhtar, Hieu Bui, and John Reif, Asynchronous Time-Responsive DNA Circuits for Universal Computation, Submitted for publication (2015).

    258. John H. Reif, Solar Power Technologies for Desalination, Invited Chapter of Book: Membrane Desalination Systems: The Next Generation (Editors: Efrem Curcio (Italy), Inamuddin (India), Angelo Basile), Elsevier Publishers, (2016). [PDF] [PDF]

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