Publications by authors named "Timothy D Scheibe"

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Advection-dominated transport dynamics of pili and flagella-mediated motile bacteria in porous media.
Marc Berghouse, Lazaro J Perez, Andrew Plymale, Timothy D Scheibe, Rishi Parashar

Soft Matter· May 2025

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Coupling flux balance analysis with reactive transport modeling through machine learning for rapid and stable simulation of microbial metabolic switching.
Hyun-Seob Song, Firnaaz Ahamed, Joon-Yong Lee, Christopher S Henry, Janaka N Edirisinghe, Timothy D Scheibe

Sci Rep· February 2025

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Molecular shifts in dissolved organic matter along a burn severity continuum for common land cover types in the Pacific Northwest, USA.
J Alan Roebuck, Samantha Grieger, Morgan E Barnes, Xia Gillespie, Kevin D Bladon, Timothy D Scheibe

Sci Total Environ· January 2025

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Contributions of biofilm-induced flow heterogeneities to solute retention and anomalous transport features in porous media.
Lazaro J Perez, Rishi Parashar, Andrew Plymale, Timothy D Scheibe

Water Res· February 2022

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Machine Learning Analysis of Hydrologic Exchange Flows and Transit Time Distributions in a Large Regulated River.
Huiying Ren, Xuehang Song, Yilin Fang, Z Jason Hou, Timothy D Scheibe

Front Artif Intell· April 2021

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Representing Organic Matter Thermodynamics in Biogeochemical Reactions via Substrate-Explicit Modeling.
Hyun-Seob Song, James C Stegen, Emily B Graham, Joon-Yong Lee, Vanessa A Garayburu-Caruso, Timothy D Scheibe

Front Microbiol· October 2020

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WHONDRS-GUI: a web application for global survey of surface water metabolites.
Xinming Lin, Huiying Ren, Amy E Goldman, James C Stegen, Timothy D Scheibe

PeerJ· July 2020

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On Modeling Ensemble Transport of Metal Reducing Motile Bacteria.
Xueke Yang, Rishi Parashar, Nicole L Sund, Andrew E Plymale, Timothy D Scheibe

Sci Rep· October 2019

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Subsurface biogeochemistry is a missing link between ecology and hydrology in dam-impacted river corridors.
Emily B Graham, James C Stegen, Maoyi Huang, Xingyuan Chen, Timothy D Scheibe

Sci Total Environ· March 2019

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Regulation-Structured Dynamic Metabolic Model Provides a Potential Mechanism for Delayed Enzyme Response in Denitrification Process.
Hyun-Seob Song, Dennis G Thomas, James C Stegen, Minjing Li, Chongxuan Liu, Timothy D Scheibe

Front Microbiol· September 2017

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An analysis platform for multiscale hydrogeologic modeling with emphasis on hybrid multiscale methods.
Timothy D Scheibe, Ellyn M Murphy, Xingyuan Chen, Amy K Rice, Kenneth C Carroll

Ground Water· October 2015

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Lessons learned from bacterial transport research at the South Oyster Site.
Timothy D Scheibe, Susan S Hubbard, Tullis C Onstott, Mary F Deflaun

Ground Water· December 2011

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Model-based analysis of the role of biological, hydrological and geochemical factors affecting uranium bioremediation.
Jiao Zhao, Timothy D Scheibe, R Mahadevan

Biotechnol Bioeng· July 2011

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Dissipative-particle-dynamics model of biofilm growth.
Zhijie Xu, Paul Meakin, Alexandre Tartakovsky, Timothy D Scheibe

Phys Rev E Stat Nonlin Soft Matter Phys· June 2011

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Direct coupling of a genome-scale microbial in silico model and a groundwater reactive transport model.
Yilin Fang, Timothy D Scheibe, Radhakrishnan Mahadevan, Srinath Garg, Philip E Long

J Contam Hydrol· March 2011

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Modeling and sensitivity analysis of electron capacitance for Geobacter in sedimentary environments.
Jiao Zhao, Yilin Fang, Timothy D Scheibe, Derek R Lovley, R Mahadevan

J Contam Hydrol· March 2010

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Coupling a genome-scale metabolic model with a reactive transport model to describe in situ uranium bioremediation.
Timothy D Scheibe, Radhakrishnan Mahadevan, Yilin Fang, Srinath Garg, Philip E Long

Microb Biotechnol· March 2009

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Change of collision efficiency with distance in bacterial transport experiments.
Hailiang Dong, Timothy D Scheibe, William P Johnson, Crystal M Monkman, Mark E Fuller

Ground Water· September 2006

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Conceptual and numerical model of uranium(VI) reductive immobilization in fractured subsurface sediments.
Eric E Roden, Timothy D Scheibe

Chemosphere· April 2005

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Apparent decreases in colloid deposition rate coefficients with distance of transport under unfavorable deposition conditions: a general phenomenon.
Xiqing Li, Timothy D Scheibe, William P Johnson

Environ Sci Technol· November 2004

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An evaluation of conditioning data for solute transport prediction.
Timothy D Scheibe, Yi-Ju Chien

Ground Water· June 2003

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Relative dominance of physical versus chemical effects on the transport of adhesion-deficient bacteria in intact cores from South Oyster, Virginia.
Hailiang Dong, T C Onstott, Mary F Deflaun, Mark E Fuller, Timothy D Scheibe

Environ Sci Technol· March 2002

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