Publications by authors named "Ramanathan Arvind"

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Dental implant failure and retrieval techniques; a scoping review.
Vidya K Shenoy, Shobha J Rodrigues, Sandipan Mukherjee, Arvind Ramanathan

Front Oral Health· December 2025

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BV-BRC: a unified bacterial and viral bioinformatics resource with expanded functionality and AI integration.
Maulik Shukla, Alice R Wattam, Antonio Aleman, Roshni Bhattacharya, Nicole Bowers, Arvind Ramanathan

Nucleic Acids Res· November 2025

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Molecular mediators of cold adaptation in mammalian cells.
Paulami Dey, Heera Lal, Pushpita Saha, Arvind Ramanathan

Commun Biol· October 2025

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Unsupervised Learning of Progress Coordinates during Weighted Ensemble Simulations: Application to NTL9 Protein Folding.
Jeremy M G Leung, Nicolas C Frazee, Alexander Brace, Anthony T Bogetti, Arvind Ramanathan

J Chem Theory Comput· April 2025

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A Comparative Analytical Study of Functional and Esthetic Outcomes of Infraorbital and Subciliary Incisions to Assess the Redundancy of the Infraorbital Approach.
Jefferson Prince, Premalatha Shetty, Arvind Ramanathan, Srikant N

ScientificWorldJournal· February 2025

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Author Correction: BigNeuron: a resource to benchmark and predict performance of algorithms for automated tracing of neurons in light microscopy datasets.
Linus Manubens-Gil, Zhi Zhou, Hanbo Chen, Arvind Ramanathan, Xiaoxiao Liu

Nat Methods· October 2024

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Concordant inter-laboratory derived concentrations of ceramides in human plasma reference materials via authentic standards.
Federico Torta, Nils Hoffmann, Bo Burla, Irina Alecu, Makoto Arita, Arvind Ramanathan

Nat Commun· October 2024

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A Deep Learning-Driven Sampling Technique to Explore the Phase Space of an RNA Stem-Loop.
Ayush Gupta, Heng Ma, Arvind Ramanathan, Gül H Zerze

J Chem Theory Comput· October 2024

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Senescent cells inhibit mouse myoblast differentiation via the SASP-lipid 15d-PGJ mediated modification and control of HRas.
Swarang Sachin Pundlik, Alok Barik, Ashwin Venkateshvaran, Snehasudha Subhadarshini Sahoo, Mahapatra Anshuman Jaysingh, Arvind Ramanathan

Elife· August 2024

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Unsupervised learning of progress coordinates during weighted ensemble simulations: Application to millisecond protein folding.
Jeremy Leung, Nicolas Frazee, Alex Brace, Arvind Ramanathan, Lillian Chong

bioRxiv· August 2024

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Cold-shock proteome of myoblasts reveals role of RBM3 in promotion of mitochondrial metabolism and myoblast differentiation.
Paulami Dey, Srujanika Rajalaxmi, Pushpita Saha, Purvi Singh Thakur, Maroof Athar Hashmi, Arvind Ramanathan

Commun Biol· April 2024

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Epitopes recognition of SARS-CoV-2 nucleocapsid RNA binding domain by human monoclonal antibodies.
Youngchang Kim, Natalia Maltseva, Christine Tesar, Robert Jedrzejczak, Michael Endres, Arvind Ramanathan

iScience· February 2024

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Robotic pendant drop: containerless liquid for μs-resolved, AI-executable XPCS.
Doga Yamac Ozgulbas, Don Jensen, Rory Butler, Rafael Vescovi, Ian T Foster, Arvind Ramanathan

Light Sci Appl· August 2023

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BigNeuron: a resource to benchmark and predict performance of algorithms for automated tracing of neurons in light microscopy datasets.
Linus Manubens-Gil, Zhi Zhou, Hanbo Chen, Arvind Ramanathan, Xiaoxiao Liu

Nat Methods· June 2023

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Machine Learning-Driven Multiscale Modeling: Bridging the Scales with a Next-Generation Simulation Infrastructure.
Helgi I Ingólfsson, Harsh Bhatia, Fikret Aydin, Tomas Oppelstrup, Cesar A López, Arvind Ramanathan

J Chem Theory Comput· May 2023

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Causal Discovery and Optimal Experimental Design for Genome-Scale Biological Network Recovery.
Ashka Shah, Arvind Ramanathan, Valerie Hayot-Sasson, Rick Stevens

ArXiv· April 2023

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Model certainty in cellular network-driven processes with missing data.
Michael W Irvin, Arvind Ramanathan, Carlos F Lopez

PLoS Comput Biol· April 2023

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AI-Accelerated Design of Targeted Covalent Inhibitors for SARS-CoV-2.
Rajendra P Joshi, Katherine J Schultz, Jesse William Wilson, Agustin Kruel, Rohith Anand Varikoti, Arvind Ramanathan

J Chem Inf Model· March 2023

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AI-accelerated protein-ligand docking for SARS-CoV-2 is 100-fold faster with no significant change in detection.
Austin Clyde, Xuefeng Liu, Thomas Brettin, Hyunseung Yoo, Alexander Partin, Arvind Ramanathan

Sci Rep· February 2023

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#COVIDisAirborne: AI-enabled multiscale computational microscopy of delta SARS-CoV-2 in a respiratory aerosol.
Abigail Dommer, Lorenzo Casalino, Fiona Kearns, Mia Rosenfeld, Nicholas Wauer, Arvind Ramanathan

Int J High Perform Comput Appl· January 2023

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Intelligent resolution: Integrating Cryo-EM with AI-driven multi-resolution simulations to observe the severe acute respiratory syndrome coronavirus-2 replication-transcription machinery in action.
Anda Trifan, Defne Gorgun, Michael Salim, Zongyi Li, Alexander Brace, Arvind Ramanathan

Int J High Perform Comput Appl· November 2022

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GenSLMs: Genome-scale language models reveal SARS-CoV-2 evolutionary dynamics.
Maxim Zvyagin, Alexander Brace, Kyle Hippe, Yuntian Deng, Bin Zhang, Arvind Ramanathan

bioRxiv· November 2022

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Editorial: Interaction of Biomolecules and Bioactive Compounds With the SARS-CoV-2 Proteins: Molecular Simulations for the Fight Against Covid-19.
Mattia Falconi, James Leland Olds, Arvind Ramanathan

Front Mol Biosci· June 2022

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Aryl hydrocarbon receptor blocks aging-induced senescence in the liver and fibroblast cells.
Ana Nacarino-Palma, Eva M Rico-Leo, Judith Campisi, Arvind Ramanathan, Francisco J González-Rico

Aging (Albany NY)· May 2022

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Efficacy and Outcomes of CYP3A5 Genotype-Based Tacrolimus Dosing Compared to Conventional Body Weight-based Dosing in Living Donor Kidney Transplant Recipients.
T Yashwanth Raj, M Edwin Fernando, N D Srinivasa Prasad, S Sujit, K Thirumal Valavan, Arvind Ramanathan

Indian J Nephrol· May 2022

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