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15. A. Aggarwal, S. Naskar, A. K. Sahoo, S. Mogurampelly, A. Garai and P. K. Maiti, "What do we know about DNA mechanics so far?", Current Opinion in Structural Biology (Elsevier), 64, 42    JULY  2020. 

14. A. Garai, D. Ghoshdastidar, S. Senapati, and P. K. Maiti, "Ionic Liquids make DNA rigid", J. Chem. Phys. (AIP, USA), 149, 045104 (2018). arXiv:1807.02821

13. A. Garai, S. Mogurampelly, S. Bag, and P. K. Maiti, "Overstretching of B-DNA with various pulling protocols: Appearance of structural polymorphism and S-DNA", Journal of Chemical Physics 147, 225102 (2017). arXiv:1711.08880.

12. A. Garai, and D. Chowdhury, “Single-enzyme kinetics with branched pathways: exact theory and series expansion” (submitted and under review, 2016) arXiv: 1412.3196. 

11. A. Garai, S. Saurabh, Y. Lansac, and P. K. Maiti, “DNA elasticity from short DNA to nucleosomal DNA”, J. Phys. Chem. B (ACS, USA), 119, 11146, 2015.

10. A. Garai, Y. Zhang, and O. K. Dudko, “Conformational dynamics through an intermediate”, J. Chem. Phys. (AIP, USA), 140, 135101, (2014).

9. A. Garai, J. Mani, and D. Chowdhury, "Footprint traversal by adenosine-triphosphate-dependent chromatin remodeler motor", Physical Review E (APS, USA), vol. 85, 041902 (2012).

8. A. Garai, B. Waclaw, H. Nagel, and H. Meyer- Ortmanns, "Stochastic description of a bistable frustrated unit", J. Stat. Mech.: Theory and Experiment, P01009 (2012).

7. A. Garai, and D. Chowdhury, “Stochastic kinetics of a single-headed motor protein: Dwell time distribution of KIF1A”, Europhysics Letters, 93, 58004 (2011).

6. A. Garai, D. Chowdhury, D. Chowdhury, T. V. Ramakrishnan, “Stochastic kinetics of ribosomes: single motor properties and collective behavior”, Physical Review E (APS, USA), vol. 80, 011908 (2009). 

5. A. Garai, D. Chowdhury, T. V. Ramakrishnan,  “Fluctuations in protein synthesis from a single RNA template: stochastic kinetics of ribosomes”, Physical Review E (APS, USA), vol. 79, 011916 (2009).

4. A. Garai, D. Chowdhury and M.D. Betterton, “A two-state model for helicase translocation and unwinding of nucleic acids", Physical Review E (APS, USA), vol. 77, 061910 (2008).

3. D. Chowdhury, A. Basu, A. Garai, P. Greulich, K. Nishinari, A. Schadschneider and T. Tripathi, “Intra-cellular traffic: bio-molecular motors on filamentary tracks", European Physical Journal B (Springer), vol. 64, 593 (2008).

2. D. Chowdhury, A. Garai, J-S Wang, “Traffic of single-headed motor proteins KIF1A: effects of lane changing”, Physical Review E: Rapid Communications, (APS, USA), vol. 77, 050902 (R), 2008.

1. P. Greulich, A. Garai, K. Nishinari, A. Schadschneider, and D. Chowdhury,  “Intra-cellular transport by single-headed kinesin KIF1A: effects of single-motor mechano-chemistry and steric interactions”, Physical Review E (APS, USA), vol.75, 041905 (2007). 

 

Journal Publications

- Claude Bernard -

“The joy of discovery is certainly the liveliest that the mind of man can ever feel”

PUBLICATIONS

Conference Proceedings

“From CA to Gene Expression: Machines and Mechanisms”, D. Chowdhury, A. Garai, P. Greulich, K. Nishinari, A. Schadschneider, T. Tripathi, J-S Wang, Proc. of the 8th international conference on Cellular Automata for Research and Industry (ACRI), Yokohama, Japan, eds. H. Umeo, S. Morishita, K. Nishinari, T. Komatsuzaki and S. Bandini, Lecture Notes in Computer Science (LNCS 5191), 1 Springer-Verlag Berlin Heidelberg (2008).

 

Book Chapter

Introduction to DNA Nanomechanics: Theory and Simulations, A. Garai (2023, in production, AAP)

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