Josh Vincent Vermaas (J V Vermaas, Josh Vermaas, Josh V Vermaas)

ResearcherID Scopus Author ID ORCID

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 54

Top Venues

The journal of physical chemistry. B

Science advances

Nature communications

Biomacromolecules

Oak Ridge National Laboratory

University of Illinois (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Oak Ridge National Laboratory Jan 06 2020

United States

Computational Scientist :: Center for Computational Sciences

Education History

University of Illinois Aug 15 2010 - May 15 2016

United States

PHD :: Biophysics

Arizona State University Aug 15 2006 - May 15 2010

United States

BSC :: Physics, Biochemistry, Computational Math

Publications

Saad Raza, Daipayan Sarkar, Leanne Jade G Chan, Joshua Mae, Markus Sutter, Christopher J Petzold, Cheryl A Kerfeld, Corie Y Ralston, Sayan Gupta, Josh Vincent Vermaas
Comparative Pore Structure and Dynamics for Bacterial Microcompartment Shell Protein Assemblies in Sheets or Shells. bioRxiv : the preprint server for biology (2024)
Saad Raza, Daipayan Sarkar, Leanne Jade G Chan, Joshua Mae, Markus Sutter, Christopher J Petzold, Cheryl A Kerfeld, Corie Y Ralston, Sayan Gupta, Josh Vincent Vermaas
Comparative Pore Structure and Dynamics for Bacterial Microcompartment Shell Protein Assemblies in Sheets or Shells. ACS omega 9 (33) (2024)
Saad Raza, Daipayan Sarkar, Leanne Jade G Chan, Joshua Mae, Markus Sutter, Christopher J Petzold, Cheryl A Kerfeld, Corie Y Ralston, Sayan Gupta, Josh Vincent Vermaas
Comparative Pore Structure and Dynamics for Bacterial Microcompartment Shell Protein Assemblies in Sheets or Shells. bioRxiv : the preprint server for biology (2024)
Saad Raza, Daipayan Sarkar, Leanne Jade G Chan, Joshua Mae, Markus Sutter, Christopher J Petzold, Cheryl A Kerfeld, Corie Y Ralston, Sayan Gupta, Josh Vincent Vermaas
Comparative Pore Structure and Dynamics for Bacterial Microcompartment Shell Protein Assemblies in Sheets or Shells. ACS omega 9 (33) (2024)
William W Parson, Jingcheng Huang, Martin Kulke, Josh Vincent Vermaas, David M Kramer
Electron transfer in a crystalline cytochrome with four hemes. The Journal of chemical physics 160 (6) (2024)
Malitha C Dickwella Widanage, Isha Gautam, Daipayan Sarkar, Frédéric Mentink-Vigier, Josh Vincent Vermaas, Shi-You Ding, Andrew S Lipton, Thierry Fontaine, Jean-Paul Latgé, Ping Wang, Tuo Wang
Adaptative survival of Aspergillus fumigatus to echinocandins arises from cell wall remodeling beyond β-1,3-glucan synthesis inhibition. Nature communications 15 (1) (2024)
Saad Raza, Daipayan Sarkar, Leanne Jade G Chan, Joshua Mae, Markus Sutter, Christopher J Petzold, Cheryl A Kerfeld, Corie Y Ralston, Sayan Gupta, Josh Vincent Vermaas
Comparative Pore Structure and Dynamics for Bacterial Microcompartment Shell Protein Assemblies in Sheets or Shells. ACS omega 9 (33) (2024)
Malitha C Dickwella Widanage, Isha Gautam, Daipayan Sarkar, Frédéric Mentink-Vigier, Josh Vincent Vermaas, Shi-You Ding, Andrew S Lipton, Thierry Fontaine, Jean-Paul Latgé, Ping Wang, Tuo Wang
Adaptative survival of Aspergillus fumigatus to echinocandins arises from cell wall remodeling beyond β-1,3-glucan synthesis inhibition. Nature communications 15 (1) (2024)
Saad Raza, Daipayan Sarkar, Leanne Jade G Chan, Joshua Mae, Markus Sutter, Christopher J Petzold, Cheryl A Kerfeld, Corie Y Ralston, Sayan Gupta, Josh Vincent Vermaas
Comparative Pore Structure and Dynamics for Bacterial Microcompartment Shell Protein Assemblies in Sheets or Shells. bioRxiv : the preprint server for biology (2024)
Malitha C Dickwella Widanage, Isha Gautam, Daipayan Sarkar, Frédéric Mentink-Vigier, Josh Vincent Vermaas, Shi-You Ding, Andrew S Lipton, Thierry Fontaine, Jean-Paul Latgé, Ping Wang, Tuo Wang
Adaptative survival of Aspergillus fumigatus to echinocandins arises from cell wall remodeling beyond β-1,3-glucan synthesis inhibition. Nature communications 15 (1) (2024)
Saad Raza, Mykayla Miller, Björn R Hamberger, Josh Vincent Vermaas
Plant Terpenoid Permeability through Biological Membranes Explored via Molecular Simulations. The journal of physical chemistry. B 127 (5) (2023)
Vaidyanathan Sethuraman, Josh Vincent Vermaas, Luna Liang, Arthur J Ragauskas, Micholas D Smith, Loukas Petridis
Atomistic Simulations of Polydisperse Lignin Melts Using Simple Polydisperse Residue Input Generator. Biomacromolecules 25 (2) (2023)
Daipayan Sarkar, Martin Kulke, Josh Vincent Vermaas
LongBondEliminator: A Molecular Simulation Tool to Remove Ring Penetrations in Biomolecular Simulation Systems. Biomolecules 13 (1) (2023)
Vaidyanathan Sethuraman, Josh Vincent Vermaas, Luna Liang, Arthur J Ragauskas, Micholas D Smith, Loukas Petridis
Atomistic Simulations of Polydisperse Lignin Melts Using Simple Polydisperse Residue Input Generator. Biomacromolecules 25 (2) (2023)
Vaidyanathan Sethuraman, Josh Vincent Vermaas, Luna Liang, Arthur J Ragauskas, Micholas D Smith, Loukas Petridis
Atomistic Simulations of Polydisperse Lignin Melts Using Simple Polydisperse Residue Input Generator. Biomacromolecules 25 (2) (2023)
David M Rogers, Rupesh Agarwal, Josh Vincent Vermaas, Micholas Dean Smith, Rajitha T Rajeshwar, Connor Cooper, Ada Sedova, Swen Boehm, Matthew Baker, Jens Glaser, Jeremy C Smith
SARS-CoV2 billion-compound docking. Scientific data 10 (1) (2023)
Saad Raza, Mykayla Miller, Björn R Hamberger, Josh Vincent Vermaas
Plant Terpenoid Permeability through Biological Membranes Explored via Molecular Simulations. The journal of physical chemistry. B 127 (5) (2023)
Vaidyanathan Sethuraman, Josh Vincent Vermaas, Luna Liang, Arthur J Ragauskas, Micholas D Smith, Loukas Petridis
Atomistic Simulations of Polydisperse Lignin Melts Using Simple Polydisperse Residue Input Generator. Biomacromolecules (2023)
Daipayan Sarkar, Martin Kulke, Josh Vincent Vermaas
LongBondEliminator: A Molecular Simulation Tool to Remove Ring Penetrations in Biomolecular Simulation Systems. Biomolecules 13 (1) (2023)
Gehan A Ranepura, Junjun Mao, Josh Vincent Vermaas, Jimin Wang, Christopher J Gisriel, Rongmei Judy Wei, Jose Ortiz-Soto, Md Raihan Uddin, Muhamed Amin, Gary W Brudvig, M R Gunner
Computing the Relative Affinity of Chlorophylls a and b to Light-Harvesting Complex II. The journal of physical chemistry. B 127 (51) (2023)
Gehan A Ranepura, Junjun Mao, Josh Vincent Vermaas, Jimin Wang, Christopher J Gisriel, Rongmei Judy Wei, Jose Ortiz-Soto, Md Raihan Uddin, Muhamed Amin, Gary W Brudvig, M R Gunner
Computing the Relative Affinity of Chlorophylls a and b to Light-Harvesting Complex II. The journal of physical chemistry. B 127 (51) (2023)
Daipayan Sarkar, Martin Kulke, Josh Vincent Vermaas
LongBondEliminator: A Molecular Simulation Tool to Remove Ring Penetrations in Biomolecular Simulation Systems. Biomolecules 13 (1) (2023)
Martin Kulke, Sarathi M Weraduwage, Thomas David Sharkey, Josh Vincent Vermaas
Nanoscale simulation of the thylakoid membrane response to extreme temperatures. Plant, cell & environment (2023)
Gehan A Ranepura, Junjun Mao, Josh Vincent Vermaas, Jimin Wang, Christopher J Gisriel, Rongmei Judy Wei, Jose Ortiz-Soto, Md Raihan Uddin, Muhamed Amin, Gary W Brudvig, M R Gunner
Computing the Relative Affinity of Chlorophylls a and b to Light-Harvesting Complex II. The journal of physical chemistry. B 127 (51) (2023)
Martin Kulke, Dayna M Olson, Jingcheng Huang, David M Kramer, Josh Vincent Vermaas
Long-Range Electron Transport Rates Depend on Wire Dimensions in Cytochrome Nanowires. Small (Weinheim an der Bergstrasse, Germany) (2023)
Gehan A Ranepura, Junjun Mao, Josh Vincent Vermaas, Jimin Wang, Christopher J Gisriel, Rongmei Judy Wei, Jose Ortiz-Soto, Md Raihan Uddin, Muhamed Amin, Gary W Brudvig, M R Gunner
Computing the Relative Affinity of Chlorophylls a and b to Light-Harvesting Complex II. The journal of physical chemistry. B (2023)
Sarathi M Weraduwage, Abira Sahu, Martin Kulke, Josh Vincent Vermaas, Thomas David Sharkey
Characterization of promoter elements of isoprene-responsive genes and the ability of isoprene to bind START domain transcription factors. Plant direct 7 (2) (2023)
Saad Raza, Mykayla Miller, Björn R Hamberger, Josh Vincent Vermaas
Plant Terpenoid Permeability through Biological Membranes Explored via Molecular Simulations. The journal of physical chemistry. B 127 (5) (2023)
Daipayan Sarkar, Hyungro Lee, John W Vant, Matteo Turilli, Josh Vincent Vermaas, Shantenu Jha, Abhishek Singharoy
Adaptive Ensemble Refinement of Protein Structures in High Resolution Electron Microscopy Density Maps with Radical Augmented Molecular Dynamics Flexible Fitting. Journal of chemical information and modeling (2023)
Sarathi M Weraduwage, Douglas Whitten, Martin Kulke, Abira Sahu, Josh Vincent Vermaas, Thomas David Sharkey
The isoprene-responsive phosphoproteome provides new insights into the putative signalling pathways and novel roles of isoprene. Plant, cell & environment (2023)
David M Rogers, Rupesh Agarwal, Josh Vincent Vermaas, Micholas Dean Smith, Rajitha T Rajeshwar, Connor Cooper, Ada Sedova, Swen Boehm, Matthew Baker, Jens Glaser, Jeremy C Smith
SARS-CoV2 billion-compound docking. Scientific data 10 (1) (2023)
Saad Raza, Mykayla Miller, Björn R Hamberger, Josh Vincent Vermaas
Plant Terpenoid Permeability through Biological Membranes Explored via Molecular Simulations. The journal of physical chemistry. B 127 (5) (2023)
Daipayan Sarkar, Martin Kulke, Josh Vincent Vermaas
LongBondEliminator: A Molecular Simulation Tool to Remove Ring Penetrations in Biomolecular Simulation Systems. Biomolecules 13 (1) (2023)
Sarathi M Weraduwage, Abira Sahu, Martin Kulke, Josh Vincent Vermaas, Thomas David Sharkey
Characterization of promoter elements of isoprene-responsive genes and the ability of isoprene to bind START domain transcription factors. Plant direct 7 (2) (2023)
Saad Raza, Mykayla Miller, Björn R Hamberger, Josh Vincent Vermaas
Plant Terpenoid Permeability through Biological Membranes Explored via Molecular Simulations. The journal of physical chemistry. B (2023)
Saad Raza, Mykayla Miller, Björn R Hamberger, Josh Vincent Vermaas
Plant Terpenoid Permeability through Biological Membranes Explored via Molecular Simulations. The journal of physical chemistry. B 127 (5) (2023)
John W Vant, Daipayan Sarkar, Jonathan Nguyen, Alexander T Baker, Josh Vincent Vermaas, Abhishek Singharoy
Exploring cryo-electron microscopy with molecular dynamics. Biochemical Society transactions 50 (1) (2022)
S M Ayala Mariscal, M L Pigazzini, Y Richter, M Özel, Isabell Louise Grothaus, Jonas Protze, K Ziege, Martin Kulke, M ElBediwi, Josh Vincent Vermaas, L Colombi Ciacchi, Susan Köppen, Fan Liu, Janine Kirstein
Identification of a HTT-specific binding motif in DNAJB1 essential for suppression and disaggregation of HTT. Nature communications 13 (1) (2022)
Martin Kulke, Josh Vincent Vermaas
Reversible Unwrapping Algorithm for Constant-Pressure Molecular Dynamics Simulations. Journal of chemical theory and computation 18 (10) (2022)
Taku Uchiyama, Takayuki Uchihashi, Takuya Ishida, Akihiko Nakamura, Josh Vincent Vermaas, Michael F Crowley, Masahiro Samejima, Gregg T Beckham, Kiyohiko Igarashi
Lytic polysaccharide monooxygenase increases cellobiohydrolases activity by promoting decrystallization of cellulose surface. Science advances 8 (51) (2022)
Taku Uchiyama, Takayuki Uchihashi, Takuya Ishida, Akihiko Nakamura, Josh Vincent Vermaas, Michael F Crowley, Masahiro Samejima, Gregg T Beckham, Kiyohiko Igarashi
Lytic polysaccharide monooxygenase increases cellobiohydrolases activity by promoting decrystallization of cellulose surface. Science advances 8 (51) (2022)
Taku Uchiyama, Takayuki Uchihashi, Takuya Ishida, Akihiko Nakamura, Josh Vincent Vermaas, Michael F Crowley, Masahiro Samejima, Gregg T Beckham, Kiyohiko Igarashi
Lytic polysaccharide monooxygenase increases cellobiohydrolases activity by promoting decrystallization of cellulose surface. Science advances 8 (51) (2022)
Alexander T Baker, Ryan J Boyd, Daipayan Sarkar, Alicia Teijeira-Crespo, Chun Kit Chan, Emily Bates, Kasim Waraich, John W Vant, Eric A Wilson, Chloe D Truong, Magdalena Lipka-Lloyd, Petra Fromme, Josh Vincent Vermaas, Dewight R Williams, LeeAnn Machiesky, Meike Heurich, Bolni M Nagalo, Lynda Coughlan, Scott Umlauf, Po-Lin Chiu, Pierre J Rizkallah, Taylor S Cohen, Alan L Parker, Abhishek Singharoy, Mitesh J Borad
ChAdOx1 interacts with CAR and PF4 with implications for thrombosis with thrombocytopenia syndrome. Science advances 7 (49) (2021)
Josh Vincent Vermaas, Christopher G Mayne, Eric Shinn, Emad Tajkhorshid
Assembly and Analysis of Cell-Scale Membrane Envelopes. Journal of chemical information and modeling 62 (3) (2021)
John W Vant, Daipayan Sarkar, Ellen Streitwieser, Giacomo Fiorin, Robert D Skeel, Josh Vincent Vermaas, Abhishek Singharoy
Data-guided Multi-Map variables for ensemble refinement of molecular movies. The Journal of chemical physics 153 (21) (2021)
Anna Pavlova, Diane L Lynch, Isabella Daidone, Laura Zanetti-Polzi, Micholas Dean Smith, Chris Chipot, Daniel W Kneller, Andrey Y Kovalevsky, Leighton Coates, Andrei A Golosov, Callum J Dickson, Camilo Velez-Vega, José S Duca, Josh Vincent Vermaas, Yui Tik Pang, Atanu Acharya, Jerry M Parks, Jeremy C Smith, James C Gumbart
Inhibitor binding influences the protonation states of histidines in SARS-CoV-2 main protease. Chemical science 12 (4) (2020)
Josh Vincent Vermaas, Ada Sedova, Matthew B Baker, Swen Boehm, David M Rogers, Jeff Larkin, Jens Glaser, Micholas D Smith, Oscar Hernandez, Jeremy C Smith
Supercomputing Pipelines Search for Therapeutics Against COVID-19. Computing in science & engineering 23 (1) (2020)
Nicholas E Thornburg, M Brennan Pecha, David G Brandner, Michelle L Reed, Josh Vincent Vermaas, William E Michener, Rui Katahira, Todd B Vinzant, Thomas D Foust, Bryon S Donohoe, Yuriy Roman-Leshkov, Peter N Ciesielski, Gregg T Beckham
Mesoscale Reaction-Diffusion Phenomena Governing Lignin-First Biomass Fractionation. ChemSusChem 13 (17) (2020)
Atanu Acharya, Rupesh Agarwal, M B Baker, Jerome Y Baudry, Debsindhu Bhowmik, S Boehm, K G Byler, S Y Chen, Leighton Coates, Connor J Cooper, O Demerdash, Isabella Daidone, J D Eblen, S Ellingson, Stefano Forli, J Glaser, James C Gumbart, J Gunnels, O Hernandez, Stephan Irle, D W Kneller, Andrey Y Kovalevsky, J Larkin, T J Lawrence, S LeGrand, Shih-Hsien Liu, J C Mitchell, G Park, Jerry M Parks, A Pavlova, Loukas Petridis, D Poole, L Pouchard, A Ramanathan, David M Rogers, D Santos-Martins, A Scheinberg, Ada Sedova, Y Shen, Micholas D Smith, Micholas Dean Smith, C Soto, A Tsaris, M Thavappiragasam, A F Tillack, Josh Vincent Vermaas, V Q Vuong, J Yin, S Yoo, M Zahran, Laura Zanetti-Polzi
Supercomputer-Based Ensemble Docking Drug Discovery Pipeline with Application to Covid-19. Journal of chemical information and modeling 60 (12) (2020)
Josh Vincent Vermaas, Richard A Dixon, Fang Chen, Shawn D Mansfield, Wout Boerjan, John Ralph, Michael F Crowley, Gregg T Beckham
Passive membrane transport of lignin-related compounds. Proceedings of the National Academy of Sciences of the United States of America 116 (46) (2019)
Josh Vincent Vermaas, Riin Kont, Gregg T Beckham, Michael F Crowley, Mikael Gudmundsson, Mats Sandgren, Jerry Ståhlberg, Priit Väljamäe, Brandon C Knott
The dissociation mechanism of processive cellulases. Proceedings of the National Academy of Sciences of the United States of America 116 (46) (2019)
Josh Vincent Vermaas, Gayle J Bentley, Gregg T Beckham, Michael F Crowley
Membrane Permeability of Terpenoids Explored with Molecular Simulation. The journal of physical chemistry. B 122 (45) (2018)
Josh Vincent Vermaas, Susan B Rempe, Emad Tajkhorshid
Electrostatic lock in the transport cycle of the multidrug resistance transporter EmrE. Proceedings of the National Academy of Sciences of the United States of America 115 (32) (2018)
Josh Vincent Vermaas, Gregg T Beckham, Michael F Crowley
Membrane Permeability of Fatty Acyl Compounds Studied via Molecular Simulation. The journal of physical chemistry. B 121 (50) (2017)

Josh Vincent Vermaas.css-eqlu8i{font-size:small;padding-left:4px;} (J V Vermaas, Josh Vermaas, Josh V Vermaas)

Publication Activity (10 Years)

Top Topics

Top Venues

Josh Vincent Vermaas (J V Vermaas, Josh Vermaas, Josh V Vermaas)