Molecular Dynamics

Physics / Computational Biology

Computational simulation of molecular motion and protein folding. Research spans force field development, enhanced sampling methods, GPU-accelerated MD, and coarse-grained models.

16 Indexed Papers
2 Sources
30 May Last Updated
INSPIREOpenAlex

High-Energy Physics Literature

from INSPIRE-HEP
#1

Biotech breakthroughs

Sikarwar, Shailendra Singh, Singh, Vivek Kumar 2025-12-30

The rapid advancement of science and technology has enabled changes in many areas, the most exciting of which is the integration of biology and technology. This combination, commonly known as biotechnology, promises to revolutionize healthcare, agriculture, environmental sustainability, and much mor

#3

Intrinsic non-Markovian magnetisation dynamics

Hartmann, Felix, Unikandanunni, Vivek, Bargheer, Matias et al. 2025-12-08 4 citations

Memory effects arise in many complex systems, from protein folding, to the spreading of epidemics and financial decisions. While so-called non-Markovian dynamics is common in larger systems with interacting components, observations in fundamental physical systems have been confined to specifically e

#4

Capturing Protein Free Energy Landscape using Efficient Quantum Encoding

Kannan, Ashwini, Pamidimukkala, Jaya Vasavi, Dakshinamoorthy, Avinash et al. 2025-10-17

Protein folding is one of the age-old biological problems that refers to the mechanism of understanding and predicting how a protein's linear sequence of amino acids folds into its specific three dimensional structure.This structure is critical, as a protein's functionality is inherently linked to i

#5

Cultivation of Halophilic Archaea Halobacterium salinarum

Kuklina, D.D., Shishkin, A.Yu., Bezruchko, I.O. et al. 2024-08-14 Phys.Part.Nucl.Lett.

A light-sensitive protein from extremophile archaea Halobacterium salinarum, bacteriorhodopsin (HsBR), has found numerous applications in pharmacology, biotechnology, bioelectronics and other fields [1, 2] due to its ability to convert light energy into a gradient of hydrogen ions across the cell me

#6

A comparative insight into peptide folding with quantum CVaR-VQE algorithm, MD simulations and structural alphabet analysis

Uttarkar, Akshay, Niranjan, Vidya 2024-02-06 Quant.Inf.Proc. 3 citations

Quantum computing in biology is one of the most rapidly evolving fields of technology. Protein folding is one of the key challenges which requires accurate and efficient algorithms with a quick computational time. Structural conformations of proteins with disordered regions need colossal amount of c

#7

A Perspective on Protein Structure Prediction Using Quantum Computers

Doga, Hakan, Raubenolt, Bryan, Cumbo, Fabio et al. 2023-12-01 J.Chem.Theor.Comput. 15 citations

Despite the recent advancements by deep learning methods such as AlphaFold2, in silico protein structure prediction remains a challenging problem in biomedical research. With the rapid evolution of quantum computing, it is natural to ask whether quantum computers can offer some meaningful benefits f

#8

Artificial Intelligence for Science in Quantum, Atomistic, and Continuum Systems

Zhang, Xuan, Wang, Limei, Helwig, Jacob et al. 2023-07-17 Found.Trends Mach.Learn. 7 citations

Advances in artificial intelligence (AI) are fueling a new paradigm of discoveries in natural sciences. Today, AI has started to advance natural sciences by improving, accelerating, and enabling our understanding of natural phenomena at a wide range of spatial and temporal scales, giving rise to a n

Open Access Research

from OpenAlex
#1

IBS BAG

Isabel Garcia Saez, Rahila Rahimova, Margot Weber 2029-01-01 Open MIND

The IBS BAG includes teams from IBS (Grenoble) and external groups from CEA-Cadarache (St Paul lez Durance) and IRBA (Brétigny-sur-Orge). We study the structure-function relationships of proteins with a focus on human health, biotechnology and methodology. Most of the projects are a continuation of

DOI
#2

IBS BAG

Isabel Garcia Saez, Eric Girard, Elisabeth Orgel 2029-01-01 Open MIND

The IBS BAG includes teams from IBS (Grenoble) and external groups from CEA-Cadarache (St Paul lez Durance) and IRBA (Brétigny-sur-Orge). We study the structure-function relationships of proteins with a focus on human health, biotechnology and methodology. Most of the projects are a continuation of

DOI
#3

IBS BAG

Jacques Philippe Colletier, E. De la Mora, Isabel Garcia Saez et al. 2029-01-01 Open MIND

The IBS BAG includes teams from IBS (Grenoble) and external groups from CEA-Cadarache (St Paul lez Durance) and IRBA (Brétigny-sur-Orge). We study the structure-function relationships of proteins with a focus on human health, biotechnology and methodology. Most of the projects are a continuation of

DOI
#4

IBS BAG

E. De la Mora, Isabel Garcia Saez, Maria Cristina Stefanoiu 2029-01-01 Open MIND

The IBS BAG includes teams from IBS (Grenoble) and external groups from CEA-Cadarache (St Paul lez Durance) and IRBA (Brétigny-sur-Orge). We study the structure-function relationships of proteins with a focus on human health, biotechnology and methodology. Most of the projects are a continuation of

DOI
#5

The Israeli BAG

Oded Livnah, A Rouvinski 2029-01-01 Open MIND

This Summary will only portray a very limited scope of the BAG proposal due to its size and more information will be available in the Global Summary. We plan establish a comprehensive structural narrative for the assembly and entry of viruses from the Bunyavirales family using X-ray crystallography,

DOI
#6

The Israeli BAG

Oded Livnah, Hadar Manor, Yarden Opatowsky et al. 2029-01-01 Open MIND

This Summary will only portray a very limited scope of the BAG proposal due to its size and more information will be available in the Global Summary. We plan establish a comprehensive structural narrative for the assembly and entry of viruses from the Bunyavirales family using X-ray crystallography,

DOI
#7

IBS BAG

Frank Gabel, Isabel Garcia Saez, Loic Grandvuillemin et al. 2029-01-01 Open MIND

The IBS BAG includes teams from IBS (Grenoble) and external groups from CEA-Cadarache (St Paul lez Durance) and IRBA (Brétigny-sur-Orge). We study the structure-function relationships of proteins with a focus on human health, biotechnology and methodology. Most of the projects are a continuation of

DOI
#8

The Israeli BAG

Oded Livnah, A Rouvinski, N. Tzarum 2029-01-01 Open MIND

This Summary will only portray a very limited scope of the BAG proposal due to its size and more information will be available in the Global Summary. We plan establish a comprehensive structural narrative for the assembly and entry of viruses from the Bunyavirales family using X-ray crystallography,

DOI