A near-complete list of my publications is available here in my google scholar page.
Most of my recent papers are also listed here in Pubmed.
My selected papers are listed below:
- Predicting scale-dependent chromatin polymer properties from systematic coarse-graining
Sangram Kadam, K Kumari, S Dutta, MK Mitra, Ranjith Padinhateeri
Nature Communications, 14, 4108 (2023) - Nucleosome sliding can influence the spreading of histone modifications
Shantanu Kadam, T Bameta, R Padinhateeri
Physical Review E 106 (2), 024408 (2022) - Heterogeneous interactions and polymer entropy decide organization and dynamics of chromatin domains.
Kiran Kumari, J. Ravi Prakash, and Ranjith Padinhateeri
Biophysical Journal 121, 2794-2812, (2022) - Role of non-specific interactions in the phase-separation and maturation of macromolecules.
Rakesh Krishnan, Srivastav Ranganathan, Samir K Maji, and Ranjith Padinhateeri
PLoS Comput Biol. 18(5):e1010067 (2022) - High fidelity epigenetic inheritance: Information theoretic model predicts threshold filling of histone modifications post replication
Nithya Ramakrishnan, Sibi Raj B. Pillai and Ranjith Padinhateeri
PLoS Comput. Biol. 18(2) e1009861 (2022) - Continuous variable responses and signal gating form kinetic bases for pulsatile insulin signaling and emergence of resistance
Namrata Shukla, Shantanu Kadam, Ranjith Padinhateeri, and Ullas Kolthur-Seetharam
Proc. Natl. Acad. Sci. (USA) , 118, e2102560118 (2021) - Nucleosome positioning and chromatin organization
Jyotsana Parmar and Ranjith Padinhateeri
Current Opinion in Structural Biology, 64, 111-118 (2020) - Irregular Chromatin: Packing density, fiber width, and occurrence of heterogeneous clusters
Gaurav Bajpai and Ranjith Padinhateeri
Biophysical Journal 118, 207-218Â (2020)
- Computing 3D chromatin configurations from contact probability maps by Inverse Brownian Dynamics
Kiran Kumari, B Duenweg, R Padinhateeri, JR Prakash.
Biophysical Journal 118: 2193-2208 (2020) - Computational model for studying breakage-dependent amyloid growth
Jennifer Joseph, Samir K Maji and Ranjith Padinhateeri
ACS Chem. Neurosci. 11, 21, 3615 (2020) - Role of nucleosome positioning in 3D chromatin organization and loop formation.
Kharerin H, Bhat PJ, Padinhateeri R.
Journal of Biosciences 45 (14) (2020) - Coupling of replisome movement with nucleosome dynamics can contribute to parent-daughter information transfer
Tripti Bameta, Dibyendu Das & Ranjith Padinhateeri
Nucleic Acids Research, 46, 4991-5000 (2018) - Binding of DNA-bending non-histone proteins destabilizes regular 30-nm chromatin structure
Gaurav Bajpai, Ishutesh Jain, Mandar Inamdar, Dibyendu Das & Ranjith Padinhateeri
PLoS Computational Biology, 13, e1005365 (2017) - Defining a physical basis for diversity in protein self-assemblies using a minimal model
Srivastav Ranganathan, Samir Maji and Ranjith Padinhateeri
J. Am. Chem. Soc. 138, 13911-13922 (2016) - Role of transcription factor-mediated nucleosome disassembly in PHO5 gene expression
Hungyo Kharerin, Paike J Bhat, John F Marko and Ranjith Padinhateeri
Scientific Reports, 6, 20319 (2016) - Theoretical estimates of exposure timescales of protein binding sites on DNA regulated by nucleosome kinetics
Jyotsana Parmar, Dibyendu Das, and Ranjith Padinhateeri
Nucleic Acids Research, 44, (2016) - Statistical mechanics provides novel insights into microtubule stability and mechanism of shrinkage
Ishutesh Jain, Mandar Inamdar, and Ranjith Padinhateeri
PLOS Computational Biology 11(2): e1004099 (2015)
- Branching influences force-velocity curves and length fluctuations in actin networks
Deepak Hansda, Shamik Sen, and Ranjith Padinhateeri
Phys. Rev. E., 90, 062718, (2014) - Force-induced dynamical properties of multiple cytoskeletal filaments are distinct from that of single filaments
Dipjyoti Das, Dibyendu Das, and Ranjith Padinhateeri
PLoS One 9(12): e114014 (2014) - Collective force generated by multiple biolfilaments can exceed the sum of forces due to individual filaments
Dipjyoti Das, Dibyendu Das, and Ranjith Padinhateeri
New J. Phys., 16, 063032 (2014) - Nuecleosome positioning and kinetics near transcription-start-site barriers
are controlled by interplay between active remodeling and DNA sequence
Jyotsana Parmar, John F Marko, and Ranjith Padinhateeri
Nucleic Acids Research, 42, 128-146, (2014) - Forces due to curving protofilaments in microtubules
Shirish Vichare, Ishutesh Jain, Mandar Inamdar, and Ranjith Padinhateeri
Phys. Rev. E. 88, 062708 (2013) - Force generation and step-size fluctuations in a dynein motor
Tripti Bameta, Ranjith Padinhateeri and Mandar M Inamdar
J. Stat. Mech. P02030 (2013) - Stretching and bending fluctuations of short DNA molecules,
Ranjith Padinhateeri and Gautam I. Menon
Biophys. J., 104, 463-271 (2013) - History-dependent depolymerization of actin filaments
Ishutesh Jain, David Lacoste, Dulal Panda and Ranjith Padinhateeri
Biochemistry, 51, 7580-7587 (2012) - Random hydrolysis controls the dynamics instability of microtubules
Ranjith Padinhateeri, A. B. Kolomeisky, and David Lacoste
Biophys. J., 102, 1274-1283 (2012 - Molecular interpretation of ACTH–endorphin coaggregation: relevance to secretory granule biogenesis
S Ranganathan P. K. Singh, U. Singh, P. S. Singru, R. Padinhateeri and S. K. Maji
PLoS ONE, 7, e31924 (2012) - Nucleosome positioning in a model of active chromatin remodeling enzymes
Ranjith Padinhateeri and John F. Marko
Proc. Natl. Acad. Sci. USA, 108, 7799-7803 (2011)
Pre-IITB period
- Role of ATP-hydrolysis in the dynamics of a single actin filament
P. Ranjith, K. Mallick, J-F. Joanny, and D. Lacoste
Biophysical Journal 98, 1418-1427 (2010) - Equilibrium properties of a grafted polyelectrolyte with explicit counterions
K. Jayasree, P. Ranjith, Madan Rao and P. B. Sunil Kumar
J. Chem. Phy. 130, 094901 (2009) - Non-equilibrium self-assembly of a filament coupled to ATP/GTP hydrolysis
P. Ranjith, D. Lacoste, K. Mallick and J-F. Joanny
Biophysical Journal 96, 2146-2159, (2009) - Nucleosome hopping and sliding kinetics determined from dynamics of single chromatin fibers in Xenopus egg extracts
P. Ranjith, J. Yan and John F. Marko
Proc. Natl. Acad. Sci. USA, 104, 13649-13654 (2007) - Filling of a one-dimensional lattice by k-mers proceeds via fast power-law-like kinetics
P. Ranjith and John F. Marko
Phys. Rev. E. 74, 041602 (2006) - Distribution Functions, Loop Formation Probabilities and Force-Extension Relations in a Model for Short Double-Stranded DNA Molecules
P. Ranjith, P. B. Sunil Kumar and Gautam I. Menon
Phys. Rev. Lett. 94, 138102 (2005) - Dynamics of a Semiflexible filament under external force
P. Ranjith and P.B. Sunil Kumar
Physica A 318, 220-229 (2003) - Dynamics of folding in Semiflexible filaments
P. Ranjith and P. B. Sunil Kumar
Phys. Rev. Lett. 89, 018302 (2002)