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View article: Lattice study of correlators of chromoelectric fields for heavy quarkonium dynamics in the quark-gluon plasma
Lattice study of correlators of chromoelectric fields for heavy quarkonium dynamics in the quark-gluon plasma Open
We perform a lattice calculation of the correlators of two chromoelectric fields in the adjoint representation connected by adjoint Wilson lines at nonzero temperature. These correlators arise in the study of quarkonium dynamics and of adj…
View article: Dynamics of Hot QCD Matter 2024 -- Hard Probes
Dynamics of Hot QCD Matter 2024 -- Hard Probes Open
The hot and dense QCD matter, known as the Quark-Gluon Plasma (QGP), is explored through heavy-ion collision experiments at the LHC and RHIC. Jets and heavy flavors, produced from the initial hard scattering, are used as hard probes to stu…
View article: Identification of critical amino acids in the DNA binding domain of LuxO: Lessons from a constitutive active LuxO
Identification of critical amino acids in the DNA binding domain of LuxO: Lessons from a constitutive active LuxO Open
Quorum sensing plays a vital role in the environmental and host life cycles of Vibrio cholerae . The quorum-sensing circuit involves the consorted action of autoinducers, small RNAs, and regulatory proteins to control a plethora of physiol…
View article: QCD Phase Diagram and the Finite Volume Fireball: A Model Study
QCD Phase Diagram and the Finite Volume Fireball: A Model Study Open
Experimental investigations of the phase diagram of strongly interacting matter involve collisions of heavy ions at ultrarelativistic velocities. The medium created in such a collision is often of dimensions a few fermi, in particular in t…
View article: Implication of structural constrains facilitating the functional evolution of<i>Pseudomonas aeruginosa</i>KPR2 into a versatile α-keto acid reductase
Implication of structural constrains facilitating the functional evolution of<i>Pseudomonas aeruginosa</i>KPR2 into a versatile α-keto acid reductase Open
Protein structure and function dynamics in molecular evolution are intertwined. Theoretical concepts linking structure, function, and evolution of a protein, while often intuitive, necessitate validation through investigations in real-worl…
View article: Exploring structural features and potential lipid interactions of <i>Pseudomonas aeruginosa</i> type three secretion effector <scp>PemB</scp> by spectroscopic and calorimetric experiments
Exploring structural features and potential lipid interactions of <i>Pseudomonas aeruginosa</i> type three secretion effector <span>PemB</span> by spectroscopic and calorimetric experiments Open
Type Three Secretion System (T3SS) is a sophisticated nano‐scale weapon utilized by several gram negative bacteria under stringent spatio‐temporal regulation to manipulate and evade host immune systems in order to cause infection. To the b…
View article: Delineating specific regions of N- terminal domain of T3SS ATPase YsaN of Yersinia enterocolitica governing its different oligomerization states
Delineating specific regions of N- terminal domain of T3SS ATPase YsaN of Yersinia enterocolitica governing its different oligomerization states Open
Oligomerization of YsaN, a putative T3SS-ATPase is a necessary and crucial event for T3SS functioning in Y. enterocolitica . Different oligomeric states have been proposed for similar ATPases, yet, the true nature of its activation and for…
View article: Dynamics of Hot QCD Matter -- Current Status and Developments
Dynamics of Hot QCD Matter -- Current Status and Developments Open
The discovery and characterization of hot and dense QCD matter, known as Quark Gluon Plasma (QGP), remains the most international collaborative effort and synergy between theorists and experimentalists in modern nuclear physics to date. Th…
View article: Lattice study of a magnetic contribution to heavy quark momentum diffusion
Lattice study of a magnetic contribution to heavy quark momentum diffusion Open
A bstract Heavy quarks placed within a hot QCD medium undergo Brownian motion, characterized by specific transport coefficients. Their determination can be simplified by expanding them in T/M , where T is the temperature and M is a heavy q…
View article: Temperature dependence of the static quark diffusion coefficient
Temperature dependence of the static quark diffusion coefficient Open
The energy loss pattern of a low momentum heavy quark in a deconfined quark-gluon plasma can be understood in terms of a Langevin description. In thermal equilibrium, the motion can then be parametrized in terms of a single heavy quark mom…
View article: Interaction potential between heavy <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" display="inline"><mml:mrow><mml:mi>Q</mml:mi><mml:mover accent="true"><mml:mrow><mml:mi>Q</mml:mi></mml:mrow><mml:mrow><mml:mo accent="true" stretchy="false">¯</mml:mo></mml:mrow></mml:mover></mml:mrow></mml:math> in a color octet configuration in the QGP from a study of hybrid Wilson loops
Interaction potential between heavy in a color octet configuration in the QGP from a study of hybrid Wilson loops Open
We investigate the interaction between a heavy quark-antiquark pair in color\noctet configuration in gluon plasma. We calculate nonperturbatively an\neffective thermal potential for such a pair through the study of the\ncorrelation functio…
View article: Fun with colours: the standard model with two colour QCD has radically different long distance physics
Fun with colours: the standard model with two colour QCD has radically different long distance physics Open
In our world the standard model of particle physics contains within it the fairly intractable theory called QCD. A toy version with two colours is often studied as a model confining and chiral symmetry breaking field theory. Here we invest…
View article: Fun with colours: the standard model with two colour QCD has radically\n different long distance physics
Fun with colours: the standard model with two colour QCD has radically\n different long distance physics Open
In our world the standard model of particle physics contains within it the\nfairly intractable theory called QCD. A toy version with two colours is often\nstudied as a model confining and chiral symmetry breaking field theory. Here we\ninv…
View article: Arginine 37 of Glycine Linker Dictates Regulatory Function of HapR
Arginine 37 of Glycine Linker Dictates Regulatory Function of HapR Open
HapR is designated as a high cell density quorum sensing master regulatory protein of Vibrio cholerae. It is a member of the TetR family protein and functions both as an activator and a repressor by directly communicating with cogna…
View article: Nonperturbative potential for the study of quarkonia in QGP
Nonperturbative potential for the study of quarkonia in QGP Open
A thermal potential can be defined to facilitate understanding the behavior of quarkonia in quark-gluon plasma. A nonperturbative evaluation of this potential from lattice QCD is difficult, as it involves real-time corelation function, and…
View article: Author response for "Comparative studies on ion‐pair energetic, distribution among three domains of life: Archaea, eubacteria, and eukarya"
Author response for "Comparative studies on ion‐pair energetic, distribution among three domains of life: Archaea, eubacteria, and eukarya" Open
View article: Effective thermal potential between static $ Q $ and $\bar Q$ in SU(3) gauge theory
Effective thermal potential between static $ Q $ and $\bar Q$ in SU(3) gauge theory Open
A non-perturbative calculation of the effective thermal potential between heavy $Q$ and $\bar Q$ from lattice QCD is difficult, and usually involves a Bayesian analysis. Here we present a simple method to obtain the potential from smeared …
View article: Effective thermal potential between static $Q$ and $\\bar Q$ in SU(3)\n gauge theory
Effective thermal potential between static $Q$ and $\\bar Q$ in SU(3)\n gauge theory Open
A non-perturbative calculation of the effective thermal potential between\nheavy $Q$ and $\\bar Q$ from lattice QCD is difficult, and usually involves a\nBayesian analysis. Here we present a simple method to obtain the potential from\nsmea…
View article: Quark Number Susceptibilities and Equation of State in QCD at Finite μB
Quark Number Susceptibilities and Equation of State in QCD at Finite μB Open
One of the main goals of the cold baryonic matter (CBM) experiment at FAIR is to explore the phases of strongly interacting matter at finite temperature and baryon chemical potential μ B . The equation of state of quantum chromodynamics (Q…
View article: Deciphering the structural intricacy in virulence effectors for proton-motive force mediated unfolding and type-III protein secretion
Deciphering the structural intricacy in virulence effectors for proton-motive force mediated unfolding and type-III protein secretion Open
Many gram-negative pathogenic bacteria use type III secretion system (T3SS) to inject virulence effectors directly into the cytosol of targeted host cells. Given that the protein unfolding requisite for secretion via nano-size pore of T3SS…
View article: ASBAAC: Automated Salt-Bridge and Aromatic- Aromatic Calculator
ASBAAC: Automated Salt-Bridge and Aromatic- Aromatic Calculator Open
ASBAAC is available for free at http://sourceforge.net/projects/asbaac.
View article: On decay width of heavy quarkonia in QGP
On decay width of heavy quarkonia in QGP Open
Quarkonia are some of the most important probes of the medium created in relativistic heavy ion collision experiments, but it is still difficult to get quantitative results for its behavior in the plasma. Here I discuss the decay width of …
View article: Equation of State and Freezeout in QCD with Staggered Quarks
Equation of State and Freezeout in QCD with Staggered Quarks Open
We report the equation of state at finite chemical potential, namely the baryon number density and the baryonic contribution to the pressure, using a resummation of the Taylor expansion. We also report the freezeout conditions for a measur…
View article: T3SS ATPase YsaN. Function and regulation in <i>Yersinia enterocolitica</i>
T3SS ATPase YsaN. Function and regulation in <i>Yersinia enterocolitica</i> Open
Many Gram negative pathogenic bacteria harbor highly conserved protein export Nano machine known as Type Three secretion system (T3SS).T3SS is essential for interaction with their eukaryotic hosts for establishment of infection.T3SS is com…
View article: Quark number susceptibilities and equation of state at finite chemical potential in staggered QCD with <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML" display="inline"><mml:msub><mml:mi>N</mml:mi><mml:mi>t</mml:mi></mml:msub><mml:mo>=</mml:mo><mml:mn>8</mml:mn></mml:math>
Quark number susceptibilities and equation of state at finite chemical potential in staggered QCD with Open
We report the measurement of quark number susceptibilities (QNS) and their\ntemperature dependence from simulations of QCD with two flavours of light\ndynamical staggered quarks at finite temperature on 8 * 32^3 lattices. From the\nradius …
View article: Looking at the deconfinement transition using Wilson flow
Looking at the deconfinement transition using Wilson flow Open
Wilson flow is an effective tool for constructing renormalized composite operators. We explore use of the Wilson flow to construct renormalized order parameters for the deconfinement transition in SU(3) gauge theory. We discuss renormaliza…
View article: Looking at the deconfinement transition using Wilson flow
Looking at the deconfinement transition using Wilson flow Open
Wilson flow is an effective tool for constructing renormalized composite operators. We explore use of the Wilson flow to construct renormalized order parameters for the deconfinement transition in SU(3) gauge theory. We discuss renormaliza…
View article: Using Wilson flow to study the SU(3) deconfinement transition
Using Wilson flow to study the SU(3) deconfinement transition Open
We explore the use of Wilson flow to study the deconfinement transition in SU(3) gauge theory. We use the flowed Polyakov loop as a renormalized order parameter for the transition, and use it to renormalize the Polyakov loop. We also study…
View article: Statistical tweaks and meson masses
Statistical tweaks and meson masses Open
We compare lattice scales determined from the vector meson mass and the\nWilson flow scale w_0 in QCD with two-flavours of rooted naive staggered\nfermions over a wide range of lattice spacing and quark mass. We find that the\ndistribution…
View article: Wilson flow with naive staggered quarks
Wilson flow with naive staggered quarks Open
Scale setting for QCD with two flavors of staggered quarks is examined using Wilson flow over a factor of four change in both the lattice spacing and the pion mass. The statistics needed to keep the errors in the flow scale fixed is found …