Earth Scientist
Earth Scientist


Yilin Fang has extensive research experience in subsurface multiphase flow and reactive transport, high-performance parallel computing, carbon sequestration, plant hydrodynamic modeling, and land surface modeling.


  • PhD in Civil Engineering, The Pennsylvania State University, 2003
  • PhD in Civil Engineering, Hohai University, 1998
  • BE in Hydraulic Engineering, Gezhouba Institute of Hydro-Electric Engineering, 1993



  • Yang C, HY Li, YL Fang, CX Cui, TY Wang, CM Zheng, LR Leung, RM Maxwell, YK Zhang, XF Yang. 2020. “Effects of Groundwater Pumping on Ground Surface Temperature: A Regional Modeling Study in the North China Plain.” J Geophys Res-Atmos 125. DOI: 10.1029/2019JD031764


  • Fang Y, SB Yabusaki, A Ahkami, X Chen, and TD Scheibe. 2019. "An efficient three-dimensional rhizosphere modeling capability to study the effect of root system architecture on soil water and reactive transport." Plant and Soil 441, no. 1-2:33-48. DOI: 10.1007/s11104-019-04068-z. 


  • Fang Y, L Leung, Z Duan, MS Wigmosta, RM Maxwell, JQ Chambers, and J Tomasella. 2017. "Influence of landscape heterogeneity on water availability to tropical forests in an Amazonian catchment and implications for modeling drought response." Journal of Geophysical Research: Atmospheres 122, no. 16:8410-8426. doi:10.1002/2017JD027066


  • Danczak RE, SB Yabusaki, KH Williams, Y Fang, C Hobson, and MJ Wilkins. 2016. "Snowmelt Induced Hydrologic Perturbations Drive Dynamic Microbiological and Geochemical Behaviors across a Shallow Riparian Aquifer." Frontiers in Earth Science 4. doi:10.3389/feart.2016.00057


  • Bao J, Z Hou, Y Fang, H Ren, and G Lin. 2015. "Uncertainty quantification for evaluating the impacts of fracture zone on pressure build-up and ground surface uplift during geological CO2 sequestration." Greenhouse Gases: Science and Technology 5, no. 3:254-267. doi:10.1002/ghg.1456
  • Bao J, Z Xu, and Y Fang. 2015. "A coupled discrete element and finite element model for multiscale simulation of geological carbon sequestration." Greenhouse Gases: Science and Technology 5, no. 4:474-486. doi:10.1002/ghg.1491
  • Bao J, Z Xu, and Y Fang. 2015. "Uncertainty Quantification for the Reliability of the Analytical Analysis for the Simplified Model of CO2 Geological Sequestration." Greenhouse Gases: Science and Technology 5, no. 1002:141-151. doi:10.1002/ghg.1436
  • Bonneville A, E Heggy, CE Strickland, J Normand, JA Dermond, Y Fang, and EC Sullivan. 2015. "Geophysical Monitoring of Ground Surface Deformation Associated with a Confined Aquifer Storage and Recovery Operation." Water Resources Management 29, no. 13:4667-4682. doi:10.1007/s11269-015-1083-y
  • Fang Y, C Liu, and LR Leung. 2015. "Accelerating the spin-up of the coupled carbon and nitrogen cycle model in CLM4." Geoscientific Model Development 8, no. 3:781-789. doi:10.5194/gmd-8-781-2015
  • Yabusaki SB, S Sengor, and Y Fang. 2015. "A Uranium Bioremediation Reactive Transport Benchmark." Computational Geosciences 19, no. 3:551-567. doi:10.1007/s10596-015-9474-y
  • Long PE, KH Williams, JA Davis, PM Fox, MJ Wilkins, SB Yabusaki, and Y Fang, et al. 2015. "Bicarbonate Impact on U(VI) Bioreduction in a Shallow Alluvial Aquifer." Geochimica et Cosmochimica Acta 150. doi:10.1016/j.gca.2014.11.013
  • Yang X, C Liu, Y Fang, R Hinkle, H Li, VL Bailey, and B Bond-Lamberty. 2015. "Simulations of Ecosystem Hydrological Processes Using a Unified Multi-Scale Model." Ecological Modelling 296. doi:10.1016/j.ecolmodel.2014.10.032


  • Fang Y, C Liu, M Huang, H Li, and LR Leung. 2014. "Steady state estimation of soil organic carbon using satellite-derived canopy leaf area index." Journal of Advances in Modeling Earth Systems 6, no. 4:1049-1064. doi:10.1002/2014MS000331
  • Bao J, Y Chu, Z Xu, AM Tartakovsky, and Y Fang. 2014. "Uncertainty quantification for the impact of injection rate fluctuation on the geomechanical response of geological carbon sequestration." International Journal of Greenhouse Gas Control 20. doi:10.1016/j.ijggc.2013.10.023
  • Bao J, Z Xu, and Y Fang. 2014. "A Finite-Element Model for Simulation of Carbon Dioxide Sequestration." Environmental Geotechnics 1, no. 3:152-160. doi:10.1680/envgeo.13.00024
  • Fang Z, Z Hou, G Lin, DW Engel, Y Fang, and P.W. Eslinger. 2014. "Exploring the effects of data quality, data worth, and redundancy of CO2 gas pressure and saturation data on reservoir characterization through PEST Inversion." Environmental Earth Sciences 71, no. 7:3025-3037. doi:10.1007/s12665-013-2680-9
  • Hou Z, DH Bacon, DW Engel, G Lin, Y Fang, H Ren, and Z Fang. 2014. "Uncertainty analyses of CO2 plume expansion subsequent to wellbore CO2 leakage into aquifers." International Journal of Greenhouse Gas Control 27. doi:10.1016/j.ijggc.2014.05.004
  • Yang X, C Liu, J Shang, Y Fang, and VL Bailey. 2014. "A Unified Multi-Scale Model for Pore-Scale Flow Simulations in Soils." Soil Science Society of America Journal 78, no. 1:108-118. doi:10.2136/sssaj2013.05.0190


  • Fang Y, M Huang, C Liu, HY Li, and LR Leung. 2013. “A generic biogeochemical module for Earth system models: Next Generation BioGeoChemical Module (NGBGC), version 1.0.” Geoscientific Model Development 6:1977-1988.
  • Fang Y, BN Nguyen, K Carroll, Z Xu, SB Yabusaki, TD Scheibe, and A Bonneville. 2013. “Development of a coupled thermo-hydro-mechanical model in discontinuous media for carbon sequestration.” International Journal of Rock Mechanics and Mining Sciences 62:138-147.
  • Bao J, Z Hou, Y Fang, H Ren, and G Lin. 2013. "Uncertainty quantification for evaluating impacts of caprock and reservoir properties on pressure buildup and ground surface displacement during geological CO2 sequestration." Greenhouse Gases: Science and Technology 3, no. 5:338-358.
  • Bao J., Z. Hou, Y. Fang, H. Ren, and G. Lin. 2013. "Uncertainty quantification for evaluating impacts of caprock and reservoir properties on pressure buildup and ground surface displacement during geological CO2 sequestration." Greenhouse Gases: Science and Technology 3, no. 5:338-358. doi:10.1002/ghg.1362
  • Bao J., Z. Xu, and Y. Fang. 2013. "A Finite Element Model for Simulation of Carbon Dioxide Sequestration." Environmental Geotechnics 1, no. 3:152-160. doi:10.1680/envgeo.13.00024
  • Bao J., Z. Xu, G. Lin, and Y. Fang. 2013. "Evaluating the impact of aquifer layer properties on geomechanical response during CO2 geological sequestration." Computers & Geosciences 54. doi:10.1016/j.cageo.2013.01.015
  • Hou Z., D.W. Engel, G. Lin, Y. Fang, and Z. Fang. 2013. "An Uncertainty Quantification Framework for Studying the Effect of Spatial Heterogeneity in Reservoir Permeability on CO2 Sequestration." Mathematical Geosciences 45, no. 7:799-817. doi:10.1007/s11004-013-9459-0
  • Tartakovsky G.D., A.M. Tartakovsky, T.D. Scheibe, Y. Fang, R. Mahadevan, and D.R. Lovley. 2013. "Pore-scale simulation of microbial growth using a genome-scale metabolic model: Implications for Darcy-scale reactive transport." Advances in Water Resources 59. doi:10.1016/j.advwatres.2013.05.007
  • Yeh G.T., J. Gwo, M. Siegel, M. Li, Y. Fang, F. Zhang, and W. Luo, et al. 2013. "Innovative mathematical modeling in environmental remediation." Journal of Environmental Radioactivity 119. doi:10.1016/j.jenvrad.2011.06.010


  • Fang Y, MJ Wilkins, SB Yabusaki, MS Lipton, and PE Long. 2012. “Evaluation of a Genome-Scale In Silico Metabolic Model for Geobacter metallireducens Using Proteomic Data from a Field Biostimulation Experiment.” Applied and Environmental Microbiology 78(24):8735-8742.
  • White MD and Y Fang. 2012. “STOMP-ECKEChem: An Engineering Perspective on Reactive Transport in Geologic Media.” In Groundwater Reactive Transport Models by F Zhang, GT Yeh, JC Parker, pp. 112-140.
  • Xu Z., Y. Fang, T.D. Scheibe, and A. Bonneville. 2012. "A fluid pressure and deformation analysis for geological sequestration of carbon dioxide." Computers & Geosciences 46.
  • Xu Z., Y. Fang, T.D. Scheibe, and A. Bonneville. 2012. "A Hydro-mechanical Model and Analytical Solutions for Geomechanical Modeling of Carbon Dioxide Geological Sequestration." In Energy Technology 2012: Carbon Dioxide Management and Other Technologies, edited by MD Salazar-Villalpando, et al. Hoboken, New Jersey:John Wiley & Sons, Inc.


  • Fang Y, TD Scheibe, R Mahadevan, S Garg, PE Long, and DR Lovley. 2011. “Direct coupling of a genome-scale microbial in silico model and a groundwater reactive transport model.” Journal of Contaminant Hydrology 122(1-4):96-103.
  • Yabusaki SB, Y Fang, KH Williams, CJ Murray, AL Ward, R Dayvault, SR Waichler, DR Newcomer, FA Spane, and PE Long. 2011. “Variably Saturated Flow and Multicomponent Biogeochemical Reactive Transport Modeling of a Uranium Bioremediation Field Experiment.” Journal of Contaminant Hydrology 126(3-4).


  • Yeh GT, Y Fang, F Zhang, J Sun, Y Li, MH Li, and MD Siegel. 2010. “Numerical modeling of coupled fluid flow and thermal and reactive biogeochemical transport in porous and fractured media.” Computational Geosciences 14(1):149-170.
  • Zhao J, Y Fang, TD Scheibe, DR Lovley, and R Mahadevan. 2010. “Modeling and sensitivity analysis of electron capacitance for Geobacter in sedimentary environments.” Journal of Contaminant Hydrology 112(1-4):30-44.


  • Fang Y, SB Yabusaki, SJ Morrison, JE Amonette, and PE Long. 2009. “Multicomponent reactive transport modeling of uranium bioremediation field experiments.” Geochimica Cosmochimica Acta 73(20):6029-6051.
  • Scheibe TD, R Mahadevan, Y Fang, S Garg, PE Long, and DR Lovley. 2009. “Coupling a Genome-Scale Metabolic Model with a Reactive Transport Model to Describe In Situ Uranium Bioremediation.” Microbial Biotechnology 2(2):274-286.


  • Yabusaki SB, Y Fang, and SR Waichler. 2008. “Building Conceptual Models of Field-Scale Uranium Reactive Transport in a Dynamic Vadose Zone-Aquifer-River System.” Water Resources Research 44(12).


  • Yabusaki SB, Y Fang, PE Long, CT Resch, AD Peacock, J Komlos, PR Jaffe, SJ Morrison, RD Dayvault, DC White, and RT Anderson. 2007. “Uranium removal from groundwater via in situ biostimulation: Field-scale modeling of transport and biological processes.” Journal of Contaminant Hydrology 93(1):216-235.


  • Scheibe TD, Y Fang, CJ Murray, EE Roden, J Chen, Y Chien, SC Brooks, and SS Hubbard. 2006. “Transport and biogeochemical reaction of metals in a physically and chemically heterogeneous aquifer.” Geosphere 2(4).


  • Fang, Y, GT Yeh and WD Burgos, 2003. A new paradigm to model reaction-based biogeochemical processes. Water Resources Research, 39(4): 1083-1108.
  • Burgos, WD, Y Fang, RA Royer, GT Yeh, JJ Stone, BH Jeon and BA Dempsey. 2003. Reaction-based modeling of quinone-mediated bacterial iron(III) reduction. Geochimica Cosmochimica Acta, 67:  2735-2748.


  • Burgos, WD, RA Royer, Y Fang, GT Yeh, AS Fisher, BH Jeon and BADempsey, 2002. Theoretical and experimental considerations related to reaction-based modeling: a case study using iron(III) oxide bioreduction. Geomicrobiology Journal. 19:253-287.