Recent Publications


Book/Monograph


  1. David G Glynn, T. Aaron Gulliver, Johannes G. Maks and Manish K. Gupta, The Geometry of Additive Quantum Codes, submitted, 217 pages, Springer Lecture Notes, Feb. 2007. Citation on Google Scholar

Journal


  1. David G. Glynn, T. Aaron Gulliver and Manish K. Gupta, On Some Quaternary Self-Orthogonal Codes, Ars. Comb., vol 85, pp. 193-209, Oct 2007.
    Abstract pdf file ps file
  2. David G. Glynn, T. Aaron Gulliver and Manish K. Gupta, Linear Transformations on Codes, Discrete Mathematics, Vol 306, Issue 16, August 2006, pp 1871--1880
    Abstract pdf file ps file (Ranked 3rd hottest article [July-Sep 2006] at journal's web site)
  3. Manish K. Gupta, The Quest for Error-Correction in Biology, IEEE Engineering in Medicine and Biology Magazine Special Issue on Communication Theory, Coding Theory and Molecular Biology, vol 25, Issue 1, pp 46-53, January/February 2006 (Invited Paper).
    Abstract Pub Med Entry (PMID:16485391) pdf file
    Full Issue of IEEE EMB on Coding Theory, Molecular Biology and Communication Theory is here on IEEE Explore
  4. Manish K. Gupta, Arbind K. Lal and Mahesh C. Bhandari, On Linear Codes over Z_2^s , Designs Codes and Cryptography, vol 36, pp 227-244, September 2005.
    Abstract pdf file ps file (Ranked 4th hottest article at journal's web site)
  5. Manish K. Gupta, On Z_4 Codes Satisfying the Chain Condition, The Australasian Journal of Combinatorics, vol 31, pp 263-272, Feb 2005. pdf file ps file
  6. Steven T. Dougherty, Manish K. Gupta and K. Shiromoto, Generalized Weights for Codes Z_k, The Australasian Journal of Combinatorics, vol 31, pp 231-248, Feb 2005.
    pdf file ps file
  7. Manish K. Gupta, David G. Glynn and T. Aaron Gulliver, On Senary Simplex Codes, AAECC-14, Lecture Notes in Computer Science, vol 2227,   pp 112 - 121, November 2001.
    Abstract pdf file ps file
  8. Mahesh C. Bhandari, Manish K. Gupta and Arbind K. Lal, On Z_4 Simplex Codes and their Gray Images, AAECC-13, Lecture Notes in Computer Science, vol 1719,    pp 170 - 180, November 1999.
    Abstract
  9. Mahesh C. Bhandari, Manish K. Gupta and Arbind K. Lal, Some Results on NQR Codes, Designs Codes and Cryptography, vol 16, Issue 1, pp 5-9, January 1999.
    Abstract


Conference


  1. Manish K Gupta, Self-assembly of DNA: Overview, Opportunities and Challenges, Biodesign India 1.0 symposium on synthetic biology, Oct 7-9, 2010, Trivandrum, Kerala ( Invited Speaker )
    Abstract
  2. Muskan Kukreja and Manish K Gupta, Stochastic pi-simulations of few RNA-interference models and its dynamics and efficacy as anti-viral treatment against HIV-1, 2nd International Meeting on Membrane Computing and Biologically Inspired Process Calculii, 3 - 4 September 2008, Romania, pp. 131-144, Cuza University of Iasi.
    Abstract pdf Supplementary Material
  3. Rachit K Agrawal and Manish K Gupta, Stochastic pi-calculus modeling of cell population dynamics in colonic crypt , preprint, 2009, 4 pages
    Abstract pdf
  4. Archit Jain, Parul Sharma and Manish K Gupta, Error-control in the Gray counter of DNA self-assembly, preprint, 2009, 5 pages
    Abstract pdf Supplementary Material
  5. Manish K Gupta and Navin Kashyap, Error-correcting mechanisms in DNA self-assembly, preprint, 2009
    Abstract
  6. Manish K. Gupta, Biological Coding Theory I: Introduction
    Manish K. Gupta, Biological Coding Theory II: Coding Theory for DNA Computing and Microarray
    Manish K. Gupta, Biological Coding Theory III:Coding Theory for DNA Self Assembly
    COM2MAC Workshop on Biological Coding Theory COM2MAC Center, Postech University,
    Pohang, South Korea, 27-28 June 2005 (Invited Keynote Speaker for 3 hours lectures)
  7. Manish K. Gupta, On Modular Gray Map, Special Session on Algebraic Coding Theory, Central Section Meeting #995, American Mathematical Society, Athens,OH, 26-27 March 2004 (Invited Speaker) Abstract
  8. Manish K. Gupta, Biological Coding Theory: The Emerging Paradigm? DIMACS Workshop on Algebraic Coding Theory and Information Theory, DIMACS Center, Rutgers University, Piscataway, NJ, 15-18 December 2003 (Invited Speaker) Abstract
  9. Manish K. Gupta, Coding Theory, Biology and Quantum Computers Conference and workshop on Coding Theory and Quantum Computing, University of Virginia Charlottesville, Virginia 20-24 May 2003 Abstract
  10. Charles J. Colbourn and Manish K. Gupta, On Quaternary MacDonald Codes, Proc. of IEEE International Conf. on Information Technology: Coding and Computing ITCC 2003, April 28-30, 2003 Las Vegas, Nevada, pp. 212--215, pdf file
  11. Manish K. Gupta, David G. Glynn and T.A. Gulliver, On Senary Simplex Codes, Proc. AAECC 14, pp. 17--18, Nov. 2001.
  12. Mahesh C. Bhandari, Manish K. Gupta and Arbind K. Lal, On Z_4 Simplex Codes and Their Gray Images, Proc. AAECC 13, Nov.1999.
  13. Manish K. Gupta, On Some Modular Linear Codes, Workshop on Coding and Cryptography, September 10--13 2001, Second part of Inagural programe CODING THEORY AND DATA INTEGRITY of Institue for Mathematical Sciences, National University of Singapore, Singapore. pdf file
  14. Manish K. Gupta, On Z_4 Codes Satisfying the Chain Condition, 25^th Australasian Conference on Combinatorial Mathematics and Combinatorial Computing, December 4--8, 2000, University of Canterbury, Christchurch, NEW ZEALAND,
  15. Mahesh C. Bhandari, Manish K. Gupta and Arbind K. Lal, Some results on NQR codes, Proc. of AMS Joint Math. Meeting #930, Baltimore, MD Jan.1998.

Poster Papers


  1. Arnav Goyal, Dixita Limbachiya, Shikhar Kumar Gupta, Foram Joshi, Sushant Pritmani, Akshita Sahai and Manish K. Gupta, DNA Pen: A Tool for Drawing on a Molecular Canvas, DNA 19 Conference 2013, Arizona, USA, 2013. Paper (pdf) DNA Pen Page
  2. Krishna Gopal Benerjee, Manish K. Gupta and Nikhil Agrawal, Reconstruction and Repair Degree of Fractional Repetition Codes, IEEE NetCod 2013 Conference, Calgary, Canada, 2013. Paper (pdf) Youtube Video
  3. Anshul Chaurasia, Sudhanshu Dwivedi, Prateek Jain and Manish K. Gupta - "XTile: An Error Correction Package for DNA Self-Assembly" in proceedings of 6th Annual Conference on Foundations of Nanoscience (FNANO 09): Self-Assembled Architectures and Devices, Salt Lake City, Utah, U.S.A., 20th-24th April 2009, pp. 225 - 229.
    Abstract Poster pdf Paper pdf XTile Main Page
  4. (Supported by Microsoft Research India Travel Grant)
  5. Muskan Kukreja and Manish K Gupta, Stochastic pi-simulations of few HIV-1 models, poster at Computational and Systems Biology course at The Microsoft Research-University of Trento, Center of Computational and Systems Biology, Poster No 18, March 10-14, 2008
  6. (Partially supported by Microsoft Research Italy)

    Online Wiki


  7. "DNA origami of Taj Mahal", International Bio-molecular Design Competition (Biomod), Nov 5, 2011, Harvard University, (with Mayank Kandpal, Avinash Parida and Taslimarif Saiyed), Biomod Wiki Page See http://www.biomod.net (Supported by Microsoft Research India and Kuliza Technologies)

Technical Reports


  1. Nilay Chheda, RNA as a Permutation, B Tech Project, DA-IICT, 2013 (Supervisor: Manish K Gupta)
  2. Sonam Jain and Priyanka Shukla, DNAg: A DNA Self Assembly Generator, B Tech Project, DA-IICT, 2013 (Supervisor: Manish K Gupta)
  3. Arnav Goel and Akshita Sahai, DNA Pen: A tool for drawing on a molecular canvas, B Tech Project, DA-IICT, 2013 (Supervisor: Manish K Gupta)
  4. Ankit Kumar Dubey, Two different methods for the construction of LDPC Codes over Z2 and Z4, B Tech Project, DA-IICT, 2013 (Supervisor: Manish K Gupta)
  5. Ruchi Singh, Computational DNA Origami: A Review, B Tech Project, DA-IICT, 2013 (Supervisor: Manish K Gupta)
  6. Shivam Khare, Computation of Generalized Hamming Weight, B Tech Project, DA-IICT, 2013 (Supervisor: Manish K Gupta)
  7. Nikhil Agrawal, On Some Algorithms for the Constructions of Fractional Repetition Codes, B Tech Project, DA-IICT, 2013 (Supervisor: Manish K Gupta)
  8. Hrtik Bharadwaj and Jinay Kothari, DrugCalc, B Tech Project, DA-IICT, 2013 (Supervisor: Manish K Gupta)
  9. Ankit Sharma, Simulation based performance analysis of HDFS-RAID and Locally Repairable Codes, B Tech Project, DA-IICT, 2013 (Supervisor: Manish K Gupta)
  10. Mansukh Shrimali, HDFS, HDFS-RAID and LRC Simulator, B Tech Project, DA-IICT, 2013 (Supervisor: Manish K Gupta)
  11. Srijan Anil, Enumerating Fractional Repetition Codes, B Tech Project, DA-IICT, 2012 (Supervisor: Manish K Gupta)
  12. Mit Sheth, Quorum Sensing for Regenerating Codes, B Tech Project, DA-IICT, 2012 (Supervisor: Manish K Gupta)
  13. Kavin Parekh, Simulator for Product Matrix Constructions of MSR Codes, B Tech Project, DA-IICT, 2012 (Supervisor: Manish K Gupta)
  14. Ashish Jain, Simulating Product Matrix Minimum Bandwidth Regenerating (MBR) Codes, B Tech Project, DA-IICT, 2012 (Supervisor: Manish K Gupta)
  15. Jay Bhorania, On Some Constructions of Fractional Repetition Codes, B Tech Project, DA-IICT, 2012 (Supervisor: Manish K Gupta)
  16. Rajesh K Sharma, Chemical Computing, B Tech Project, DA-IICT, 2011 (Supervisor: Manish K Gupta)
  17. Pankaj K Jangid, Computational DNA self assembly, B Tech Project, DA-IICT, 2011 (Supervisor: Manish K Gupta)
  18. Devang Vasani, Cloud Cryptography, B Tech Project, DA-IICT, 2011 (Supervisor: Manish K Gupta)
  19. Anupam Agrawal and Deepak Yadav, Regenerating codes for Cloud Storage, B Tech Project, DA-IICT, 2011 (Supervisor: Manish K Gupta)
  20. B. Bhooma Reddy and K. Avinash, Basic Arithmetic using DNA self assembly, BTech Project, DA-IICT, May 2010 (Co-Supervisor: Manish K Gupta)
  21. P. Shanmukha Sampath, Metrics on Protein Structures, DA-IICT, 2009 (Supervisor: Manish K Gupta)
  22. Akanksha Modi, Stochastic Pi Calculus Modeling of Leukemia during Chemotheraphy. BTech Project, DA-IICT May 2008 (Supervisor: Manish K Gupta)
  23. Muskan Kukreja, Stochastic Pi Simulations of few RNA-i Models and its dynamics and efficacy as antiviral treatment against HIV-1 virus. BTech Project, DA-IICT May 2008 (Supervisor: Manish K Gupta)
  24. Archit Jain and Parul Sharma, Error-Correction in Gray counter of DNA Self-Assembly. BTech Project, DA-IICT 2008 (Supervisor: Manish K Gupta)
  25. Rahul Bhaskar, On Stochastic Local Searches for DNA Codes. B Tech Project, DA-IICT 2007 (Supervisor: Manish K Gupta)
  26. Ankit Sethi and Vikram Jaglan, Error-Correction in Fibonacci DNA Self-Assembly. B Tech Project, DA-IICT 2007 (Supervisor: Manish K Gupta)
  27. Parit Bansal and Sauhil Kansal: A Novel Representation For RNA Secondary Structures Including Pseudoknots. B Tech Project Technical Report DA-IICT 2007 (Supervisor: Manish K Gupta)
  28. Arun Agrawal and Richa Misra:Modelling of HIV-1 Infection of CD4+ T cells and Induced NF-kB Activation and Regulation using Stochastic Pi -Calculus. B Tech Project Technical Report DA-IICT 2007 (Supervisor: Manish K Gupta)
  29. Vikram Jaglan and Ankit Sethi:Error-Correction in Fibonacci DNA Self-Assembly. B Tech Project Technical Report DA-IICT 2007 (Supervisor: Manish K Gupta)
  30. Jyoti Arya, Algorithmic Drug Discovery. PGD Project, GU, May 2007 (Supervisor: Manish K Gupta)
  31. Krupali Patel, Codon Optimization. PGD Project, GU, May 2007 (Supervisor: Manish K Gupta)