Earth Scientist
Earth Scientist

Biography

Xingyuan Chen is an Earth scientist with extensive research experience in modeling groundwater surface water interactions, stochastic inverse modeling, data assimilation, uncertainty quantification, and sensitivity analyses. Since joining PNNL in 2010, she has developed and applied various sensitivity analyses and inverse modeling techniques to understand the sources of uncertainty in predictive models and reduce such uncertainty through data-model integration. In her research, Chen has leveraged open-source parallel simulation codes and high-performance computing resources to enable ensemble simulations of coupled hydrologic and biogeochemical processes in complex systems.

Education

  • PhD in Civil and Environmental Engineering, University of California, Berkeley, 2009
  • MA in Statistics, University of California, Berkeley, 2007
  • M Phil in Civil Engineering, Hong Kong University of Science and Technology, 2002
  • BE in Hydraulic Engineering, Tsinghua University, 2000

Affiliations and Professional Service

  • American Geophysical Union
  • AGU Uncertainty Quantification Technical Committee Deputy Chair 
  • Environmental System Sciences Cyberinfrastructure Working Groups Executive Committee Member  

Publications

2025

  • Goldberger L.A., P. Jiang, T. Chakraborty, A.V. Geiss, and X. Chen. 2025. "A Two-Step Approach to Training Earth Scientists in AI." Eos 106. PNNL-SA-203739. doi:10.1029/2025EO250160
  • Jiang P., P. Kidger, T. Bandai, D. Baldocchi, H. Liu, Y. Xiao, and Q. Zhang, et al. 2025. "JAX-CanVeg: A Differentiable Land Surface Model." Water Resources Research 61, no. 3:Art. No. e2024WR038116. PNNL-SA-199036. doi:10.1029/2024WR038116
  • Kassianov E.I., C.J. Flynn, J. Barnard, L.K. Berg, S.J. Beus, X. Chen, and S. China, et al. 2025. "Radiative impact of record-breaking wildfires from integrated ground-based data." Scientific Reports 15:Art. No. 8262. PNNL-SA-190279. doi:10.1038/s41598-025-85103-1
  • Regier P.J., K. Son, X. Chen, Y. Fang, P. Jiang, M.S. Taylor, and W. Wollheim, et al. 2025. "Allometric scaling of hyporheic respiration across basins in the Pacific Northwest United States." Journal of Geophysical Research: Biogeosciences 130, no. 3:Art. No. e2024JG008344. PNNL-SA-195984. doi:10.1029/2024JG008344
  • Song H., F. Ahamed, J. Lee, C. Henry, J.N. Edirisinghe, W.C. Nelson, and X. Chen, et al. 2025. "Coupling flux balance analysis with reactive transport modeling through machine learning for rapid and stable simulation of microbial metabolic switching." Scientific Reports 15:Art. No. 6042. PNNL-SA-184181. doi:10.1038/s41598-025-89997-9
  • Stegen J.C., A. Burgin, M.H. Busch, J.B. Fisher, J. Ladau, J. Abrahamson, and L. Kinsman-Costello, et al. 2025. "Reviews and Syntheses: Variable Inundation Across Earth’s Terrestrial Ecosystems." Biogeosciences 22, no. 4:995-1034. PNNL-SA-194427. doi:10.5194/bg-22-995-2025

2024

  • Bandai T., T.A. Ghezzehei, P. Jiang, P. Kidger, X. Chen, and C.I. Steefel. 2024. "Learning constitutive relations from soil moisture data via physically constrained neural networks." Water Resources Research 60, no. 7:Art. No. e2024WR037318. PNNL-SA-194980. doi:10.1029/2024WR037318
  • Chen Y., J. Bao, R. Chen, B. Li, Y. Yang, L. Renteria, and D.J. Delgado Paredes, et al. 2024. "Quantifying streambed grain size, uncertainty, and hydrobiogeochemical parameters using machine learning model YOLO." Water Resources Research 60, no. 11:Art. No. e2023WR036456. PNNL-SA-191201. doi:10.1029/2023WR036456
  • Gonzalez-Duque D., J.D. Gomez-Velez, J.P. Zarnetske, X. Chen, and T.D. Scheibe. 2024. "Sinuosity-driven Hyporheic Exchange: Hydrodynamics and Biogeochemical Potentials." Water Resources Research 60, no. 4:Art. No. e2023WR036023. PNNL-SA-187573. doi:10.1029/2023WR036023
  • Hu H., L. Leung, F. Dominguez, D. Gochis, X. Chen, S.P. Good, and A. Dugger, et al. 2024. "Integrating a water tracer model to WRF-Hydro for Characterizing the Effect of Lateral Flow in Hydrologic Simulations." Water Resources Research 60, no. 7:Art. No. e2023WR034938. PNNL-SA-176715. doi:10.1029/2023WR034938
  • Jiang P., P. Shuai, A. Sun, and X. Chen. 2024. "Optimizing Parameter Learning and Calibration in an Integrated Hydrological Model: Impact of Observation Length and Information." Journal of Hydrology 643. PNNL-SA-194809. doi:10.1016/j.jhydrol.2024.131889
  • Li B., M.B. Cardenas, X. Chen, and X. Liu. 2024. "Mechanistic definition and prediction of the mass exchange coefficient between rivers and hyporheic zones: the alpha of two Omegas." Journal of Hydrology 644, no. _:Art. No. 132054. PNNL-SA-190283. doi:10.1016/j.jhydrol.2024.132054
  • Li B., Z. Li, J. Zheng, P. Jiang, J. Holmquist, P.J. Regier, and G.E. Hammond, et al. 2024. "Integrated Effects of Site Hydrology and Vegetation on Exchange Fluxes and Nutrient Cycling at a Coastal Terrestrial-Aquatic Interface." Water Resources Research 60, no. 6:Art. No. e2023WR035580. PNNL-SA-187583. doi:10.1029/2023WR035580
  • Muller K.A., P. Jiang, G.E. Hammond, T. Ahmadullah, H. Song, R.K. Kukkadapu, and N.D. Ward, et al. 2024. "Lambda-PFLOTRAN: A Workflow for Incorporating Organic Matter Chemistry Informed by Ultra High Resolution Mass Spectrometry into Biogeochemical Modeling." Geoscientific Model Development 17, no. 24:8955-8968. PNNL-SA-194808. doi:10.5194/gmd-17-8955-2024
  • Patel K.F., K.A. Rod, J. Zheng, P.J. Regier, F. Machado-Silva, B. Bond-Lamberty, and X. Chen, et al. 2024. "Time to anoxia: Observations and predictions of oxygen drawdown following coastal flood events." Geoderma 444. PNNL-SA-190684. doi:10.1016/j.geoderma.2024.116854
  • Sun A., P. Jiang, P. Shuai, and X. Chen. 2024. "Bridging hydrological ensemble simulation and learning using deep neural operators." Water Resources Research 60, no. 10:Art. No. e2024WR037555. PNNL-SA-203681. doi:10.1029/2024WR037555
  • Ward N.D., M.K. Bowe, K.A. Muller, X. Chen, Q. Zhao, R.K. Chu, and Z. Cheng, et al. 2024. "Interactive effects of salinity, redox, and colloids on greenhouse gas production and carbon mobility in coastal wetland soils." PLoS One 19, no. 12:Art. No. : e0316341. PNNL-SA-192847. doi:10.1371/journal.pone.0316341
  • Zahura F., G. Bisht, Z. Li, S. McKnight, and X. Chen. 2024. "Impact of Topography and Climate on Post-fire Vegetation Recovery Across Different Burn Severity and Land Cover Types through Random Forest." Ecological Informatics 82, no. _:Art. No. 102757. PNNL-SA-191894. doi:10.1016/j.ecoinf.2024.102757
  • Zhou Y., P. Jiang, P. Chen, E. Jia, C.S. Welch, Q. Zhao, and J.A. Dhas, et al. 2024. "Novel Principal Component Analysis Tool based on Python for Analysis of Complex Spectra of Time-of-Flight Secondary Ion Mass Spectrometry." Journal of Vacuum Science & Technology A: International Journal Devoted to Vacuum, Surfaces, and Films A42, no. 2:Art. No. 023204. PNNL-SA-189615. doi:10.1116/6.0003355
  • Zhu B., M. Huang, X. Chen, G. Bisht, P. Shuai, and X. Xie. 2024. "River-Aquifer Interactions enhancing evapotranspiration in a semiarid riparian zone: A modelling study." Hydrological Processes 38, no. 7:Art. No. e15230. PNNL-SA-193696. doi:10.1002/hyp.15230

2023

  • Adebayo M.B., V.L. Bailey, X. Chen, A.M. Hopple, P. Jiang, B. Li, and Z. Li, et al. 2023. "A hydrogeophysical framework to assess infiltration during a simulated ecosystem-scale flooding experiment." Journal of Hydrology 626, no. Part A:Art. No. 130243. PNNL-SA-185996. doi:10.1016/j.jhydrol.2023.130243
  • Chen K., S. Yang, E.E. Roden, X. Chen, K. Chang, Z. Guo, and X. Liang, et al. 2023. "Influence of Vertical Hydrologic Exchange Flow, Channel Flow, and Biogeochemical Kinetics on CH4 Emissions From Rivers." Water Resources Research 59, no. 12:Art. No. e2023WR035341. PNNL-SA-193786. doi:10.1029/2023WR035341
  • Chen K., X. Chen, J.C. Stegen, J.A. Villa, G. Bohrer, X. Song, and K. Chang, et al. 2023. "Vertical hydrologic exchange flows control methane emissions from riverbed sediments." Environmental Science & Technology 57, no. 9:4014-4026. PNNL-SA-178729. doi:10.1021/acs.est.2c07676
  • Chen X., D. Dwivedi, and H.A. Michael. 2023. "Editorial: Hydrology, Ecology, and Nutrient Biogeochemistry at the Terrestrial-Aquatic Interface." Frontiers in Environmental Science 11. PNNL-SA-191450. doi:10.3389/fenvs.2023.1322708
  • Jiang P., P. Shuai, A. Sun, M. Mudunuru, and X. Chen. 2023. "Knowledge-Informed Deep Learning for Hydrological Model Calibration: An Application to Coal Creek Watershed in Colorado." Hydrology and Earth System Sciences 27, no. 14:2621-2644. PNNL-SA-175917. doi:10.5194/hess-27-2621-2023
  • Jiang P., Z. Yang, J. Wang, C. Huang, P. Xue, T. Chakraborty, and X. Chen, et al. 2023. "Efficient Super-Resolution of Near-Surface Climate Modeling Using the Fourier Neural Operator." Journal of Advances in Modeling Earth Systems 15, no. 7:Art. No. e2023MS003800. PNNL-SA-186550. doi:10.1029/2023MS003800
  • McDowell N.G., K.J. Anderson-Teixeira, J.A. Biederman, D.D. Breshears, Y. Fang, L. Fernandez De Una, and E.B. Graham, et al. 2023. "Ecohydrological Decoupling under Changing Disturbances and Climate." One Earth 6, no. 3:251-266. PNNL-SA-189590. doi:10.1016/j.oneear.2023.02.007
  • Perez Mesa G., J.D. Gomez Velez, X. Chen, and T.D. Scheibe. 2023. "The Directional Unit Hydrograph Method: Connecting Streamflow Response to Storm Dynamics." Journal of Hydrology 627, no. Part A:130422. PNNL-SA-178480. doi:10.1016/j.jhydrol.2023.130422
  • Shuai P., P. Jiang, E. Coon, and X. Chen. 2023. "The importance of explicitly representing the streambed in watershed models." Hydrological Processes 37, no. 12:Art. No. e15043. PNNL-SA-184264. doi:10.1002/hyp.15043
  • Xiao Y., J.M. Sloan, C. Hepworth, M. Fradera-Soler, A. Mathers, R. Thorley, and A. Baillie, et al. 2023. "Defining the scope for altering rice leaf anatomy to improve photosynthesis: A modelling approach." New Phytologist 237, no. 2:441-453. PNNL-SA-177158. doi:10.1111/nph.18564

2022

  • Chen K., X. Chen, X. Song, M. Briggs, P. Jiang, P. Shuai, and G.E. Hammond, et al. 2022. "Using Ensemble Data Assimilation to Estimate Transient Hydrologic Exchange Flow under Highly Dynamic Flow Conditions." Water Resources Research 58, no. 5:Art. No. e2021WR030735. PNNL-SA-165451. doi:10.1029/2021WR030735
  • Dwivedi D., C.I. Steefel, B. Arora, J.F. Banfield, J.R. Bargar, J.R. Bargar, and M.I. Boyanov, et al. 2022. "From Legacy Contamination to Watershed Systems Science: A Review of Scientific Insights and Technologies Developed through DOE-Supported Research in Water and Energy Security." Environmental Research Letters 17, no. 4:Art. No. 043004. PNNL-SA-161347. doi:10.1088/1748-9326/ac59a9
  • Jiang P., X. Chen, J.E. Missik, Z. Gao, H. Liu, and B.A. Verbeke. 2022. "Encoding Diel Hysteresis and the Birch Effect in Dryland Soil Respiration Models through Knowledge-Guided Deep Learning." Frontiers in Environmental Science 10. PNNL-SA-179483. doi:10.3389/fenvs.2022.1035540
  • Mudunuru M., E. Cromwell, H. Wang, and X. Chen. 2022. "Deep Learning to Estimate Permeability using Geophysical Data." Advances in Water Resources 167. PNNL-SA-175440. doi:10.1016/j.advwatres.2022.104272
  • Mudunuru M., K. Son, P. Jiang, G.E. Hammond, and X. Chen. 2022. "Scalable Deep Learning for Watershed Model Calibration." Frontiers in Earth Science 10. PNNL-SA-176859. doi:10.3389/feart.2022.1026479
  • Ren H., E. Cromwell, B.S. Kravitz, and X. Chen. 2022. "Technical note: Using Long Short-term Memory Models to Fill Data Gaps in Hydrological Monitoring Networks." Hydrology and Earth System Sciences 26, no. 7:1727-1743. PNNL-SA-161724. doi:10.5194/hess-26-1727-2022
  • Shuai P., X. Chen, U. Mital, E. Coon, and D. Dwivedi. 2022. "The Effects of Spatial and Temporal Resolution of Gridded Meteorological Forcing on Watershed Hydrological Responses." Hydrology and Earth System Sciences 26, no. 8:2245-2276. PNNL-SA-167101. doi:10.5194/hess-26-2245-2022
  • Son K., Y. Fang, J.D. Gomez Velez, and X. Chen. 2022. "Spatial microbial respiration variations in the hyporheic zones within the Columbia River Basin." Journal of Geophysical Research: Biogeosciences 127, no. 11:Art. No. e2021JG006654. PNNL-SA-178479. doi:10.1029/2021JG006654
  • Son K., Y. Fang, J.D. Gomez Velez, K. Byun, and X. Chen. 2022. "Combined effects of stream hydrology and land use on basin-scale hyporheic zone denitrification in the Columbia River Basin." Water Resources Research 58, no. 12:Art. No. e2021WR031131. PNNL-SA-165887. doi:10.1029/2021WR031131
  • Sun A., P. Jiang, Z. Yang, Y. Xie, and X. Chen. 2022. "A graph neural network (GNN) approach to basin-scale river network learning: The role of physics-based connectivity and data fusion." Hydrology and Earth System Sciences 26, no. 19:5163-5184. PNNL-SA-177141. doi:10.5194/hess-26-5163-2022
  • Yao J., W. Yuan, Z. Gao, H. Liu, X. Chen, Y. Ma, and E.V. Arntzen, et al. 2022. "Impact of shifts in vegetation phenology on the carbon balance of a semiarid sagebrush ecosystem." Remote Sensing 14, no. 23:Art. No. 5924. PNNL-SA-179255. doi:10.3390/rs14235924

2021

  • Chen X., R.M. Lee, D. Dwivedi, K. Son, Y. Fang, X. Zhang, and E.B. Graham, et al. "Integrating Field Observations and Reactive Transport Modeling to Predict Watershed Water Quality under Environmental Perturbations."
  • Chen X., R.M. Lee, D. Dwivedi, K. Son, Y. Fang, X. Zhang, and E.B. Graham, et al. 2021. "Integrating Field Observations and Process-based Modeling to Predict Watershed Water Quality under Environmental Perturbations." Journal of Hydrology 602. PNNL-SA-148272. doi:10.1016/j.jhydrol.2020.125762
  • Chu H., X.R. Luo, Z. Ouyang, W.S. Chan, S. Dengel, S. Biraud, and M.S. Torn, et al. 2021. "Representativeness of Eddy-Covariance flux footprints for areas surrounding AmeriFlux sites." Agricultural and Forest Meteorology 301. PNNL-SA-157254. doi:10.1016/j.agrformet.2021.108350
  • Conner A., M. Gooseff, X. Chen, E.V. Arntzen, and V.A. Garayburu-Caruso. 2021. "Groundwater Inflows to the Columbia River Along the Hanford Reach and Associated Nitrate Concentrations." Frontiers in Water 3. PNNL-SA-161403. doi:10.3389/frwa.2021.574684
  • Cromwell E., P. Shuai, P. Jiang, E. Coon, S.L. Painter, D. Moulton, and Y. Lin, et al. 2021. "Estimating Watershed Subsurface Permeability From Stream Discharge Data using Deep Neural Networks." Frontiers in Earth Science 9. PNNL-SA-156876. doi:10.3389/feart.2021.613011
  • Hou Z., H. Ren, C.J. Murray, X. Song, Y. Fang, E.V. Arntzen, and X. Chen, et al. 2021. "A Novel Construct for Scaling Groundwater-River Interactions Based on Machine-Guided Hydromorphic Classification." Environmental Research Letters 16, no. 10:104016. PNNL-SA-151112. doi:10.1088/1748-9326/ac24ce
  • Jiang P., X. Chen, K. Chen, J. Anderson, N. Collins, and M. Gharamti. 2021. "DART-PFLOTRAN: An Ensemble-based Data Assimilation System for Estimating Subsurface Flow and Transport Model Parameters." Environmental Modelling & Software 142. PNNL-SA-160802. doi:10.1016/j.envsoft.2021.105074
  • Ju J., H. Dai, C. Wu, B.X. Hu, M. Ye, X. Chen, and D. Gui, et al. 2021. "Quantifying the Uncertainty of the Future Hydrological Impacts of Climate Change: Comparative Analysis of an Advanced Hierarchical Sensitivity in Humid and Semiarid Basins." Journal of Hydrometeorology 22, no. 3:601-621. PNNL-SA-167105. doi:10.1175/JHM-D-20-0016.1
  • Missik J.E., H. Liu, Z. Gao, M. Huang, X. Chen, E.V. Arntzen, and D.P. McFarland, et al. 2021. "Groundwater regulates interannual variations in evapotranspiration in a riparian semiarid ecosystem." Journal of Geophysical Research: Atmospheres 126, no. 7:Article No. e2020JD033078. PNNL-SA-153611. doi:10.1029/2020jd033078
  • Moghaddam M., T.P. Ferre, X. Chen, K. Chen, X. Song, and G. Hammond. 2021. "Can Simple Machine Learning Tools Extend and Improve Temperature-Based Methods to Infer Streambed Flux?." Water 13, no. 20:Art. No. 2837. PNNL-SA-151168. doi:10.3390/w13202837
  • Wu R., X. Chen, G.E. Hammond, G. Bisht, X. Song, M. Huang, and G. Niu, et al. 2021. "Coupling Surface Flow with High-performance Subsurface Reactive Flow and Transport Code PFLOTRAN." Environmental Modelling & Software 137. PNNL-SA-156109. doi:10.1016/j.envsoft.2021.104959
  • Xiao Y., J.M. Sloan, C. Hepworth, C.P. Osborne, A.J. Flemming, X. Chen, and X. Zhu. 2021. "Estimating uncertainty: A Bayesian approach to modelling photosynthesis in C3 leaves." Plant, Cell & Environment 44, no. 5:1436-1450. PNNL-SA-161702. doi:10.1111/pce.13995
  • Zhang Y., D. Zhou, W. Wei, J.M. Frame, H. Sun, A. Sun, and X. Chen. 2021. "Hierarchical Fractional Advection-Dispersion Equation (FADE) to Quantify Anomalous Transport in River Corridor over a Broad Spectrum of Scales: Theory and Applications." Mathematics 9, no. 7:790. PNNL-SA-160334. doi:10.3390/math9070790
  • Zhu B., M. Huang, Y. Cheng, X. Xie, Y. Liu, G. Bisht, and X. Chen. 2021. "Impact of vegetation physiology and phenology on watershed hydrology in a semiarid watershed in the Pacific Northwest in a changing climate." Water Resources Research 57, no. 3:e2020WR028394. PNNL-SA-154491. doi:10.1029/2020WR028394

2020

  • Yao J, H Liu, J Huang, Z Gao, G Wang, D Li, H Yu X Chen. (2020). “Accelerated dryland expansion regulates future variability in dryland gross primary production.” Nature Communications, 11(1):1665. DOI:10.1038/s41467-020-15515-2.
  • Zachara J, X Chen, X Song, P Shuai, C Murray, CT Resch. (2020). “Kilometer-scale Hydrologic Exchange Flows in a Gravel-bed River Corridor and Their Implications to Solute Migration.” Water Resources Research, 56. DOI: 10.1029/2019WR025258.
  • Li B, X Liu, M Kaufman, A Turetcaia, X Chen, and MB Cardenas. (2020). “Flexible and modular simultaneous modeling of flow and reactive transport in rivers and hyporheic zones.” Water Resources Research, 56, e2019WR026528. https://doi.org/10.1029/2019WR026528.
  • Villa JA, GJ Smith, Y Ju, L Renteria, JC Angle, E Arntzen, SF Harding, H Ren, X Chen, AH Sawyer, EB Graham, JC Stegen, KC Wrighton, and G & Bohrer. (2020). “Methane and nitrous oxide porewater concentrations and surface fluxes of a regulated river.” Science of the Total Environment, 715, 136920. doi:https://doi.org/10.1016/j.scitotenv.2020.136920.

2019

  • Song X, X Chen, M Ye, Z Dai, GE Hammond, and JM Zachara. (2019). “Delineating facies spatial distribution by integrating ensemble data assimilation and indicator geostatistics with level‐set transformation.” Water Resources Research, 55. doi: 10.1029/2018WR023262.
  • Dai H, X Chen, M Ye, X Song, GE Hammond, B Hu, and JM Zachara (2019). “Using Bayesian networks for sensitivity analysis of complex biogeochemical models.” Water Resources Research, 55. doi: 10.1029/2018WR023589.
  • Shuai P, X Chen, X Song, GE Hammond, J Zachara, P Royer, et al. (2019). “Dam operations and subsurface hydrogeology control dynamics of hydrologic exchange flows in a regulated river reach.” Water Resources Research, 55. doi: 10.1029/2018WR024193.
  • Yang Q, X Zhang, JE Almendinger, M Huang, X Chen, G Leng, Y Zhou, K Zhao, GR Asrar, X Li. (2019). “Climate change will pose challenges to water quality management in the St. Croix River basin.” Environmental Pollution. doi:10.1016/j.envpol.2019.04.129.
  • Gao Z, H Liu, J Missik, J Yao, M Huang, X Chen, E Arntzen, and D Mcfarland. (2019). “Mechanistic links between underestimated CO2 fluxes and non-closure of the surface energy balance in a semi-arid sagebrush ecosystem.” Environmental Research Letters, 14, 044016; doi:10.1088/1748-9326/ab082d. 
  • Fang Y, SB Yabusaki, AH 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: 33-48. doi: 10.1007/s11104-019-04068-z.
  • Missik J, H Liu, Z Gao, M Huang, X Chen, E Arntzen, D Mcfarland, H Ren, PS Titzler, JN Thomle, and A Goldman. (2019). “Groundwater-river water exchange enhances growing season evapotranspiration and carbon uptake in a semiarid riparian ecosystem.” Journal of Geophysical Research-Biogeosciences, 124, 99-114. doi: 10.1029/2018jg004666. 
  • Graham EB, JC Stegen, M Huang, X Chen, and TD Scheibe. (2019). “Subsurface biogeochemistry is a missing link between ecology and hydrology in dam-impacted river corridors.” Science of the Total Environment, 657, 435–445. doi: 10.1016/J.SCITOTENV.2018.11.414.

2018

  •  Gao M, H Li, D Liu, J Tang, X Chen, Xi Chen, G Blöschl, and R Leung. (2018). “Identifying the dominant controls on macropore flow velocity in soils: A meta-analysis.” Journal of Hydrology, 567, 590-604, doi: 10.1016/j.jhydrol.2018.10.044.  
  • Dai H, M Ye, B Hu, AW Niedoroda, X Zhang, X Chen, X Song, J Niu. (2018). “Hierarchical sensitivity analysis for simulating barrier island geomorphologic responses to future storms and sea-level rise.” Theoretical and Applied Climatology, doi: 10.1007/s00704-018-2700-5.
  • Song X, X Chen, JC Stegen, GE Hammond, H Dai, EB Graham, JM Zachara, and HS Song. (2018). “Drought conditions maximize the impact of high-frequency flow variations on thermal regimes and biogeochemical function in the hyporheic zone.” Water Resources Research, 54, 7361–7382. doi:10.1029/2018WR022586.
  • Yang Q, JE Almendinger, X Zhang, M Huang, X Chen, G Leng, Y Zhou, K Zhao, GR Asrar, R Srinivasan, and X Li.  (2018). “Enhancing SWAT simulation of forest ecosystems for water resource assessment: A case study in the St. Croix River basin.” Ecological Engineering, 120, 422-431. doi: 10.1016/j.ecoleng.2018.06.020.
  • Zhou T, J Bao, M Huang, Z Hou, EV Arntzen, SF Harding, PS Titzler, CJ Murray, WA Perkins, X Chen, JC Stegen, G Hammond, PD Thorne, and JM Zachara. (2018). “Riverbed hyporheic exchange dynamics in a large regulated river reach.” Water Resources Research, 54(4), 2715-2730.

2017

  • Bisht G, M Huang, T Zhou, X Chen, H Dai, G Hammond, W Riley, JL Downs, Y Liu, and JM Zachara.  (2017). “Coupling a Three-Dimensional Subsurface Flow Model with a Land Surface Model to Simulate Stream-Aquifer-Land interactions.” Geoscientific Model Development, 12(10). 4539-4562. doi:10.5194/gmd-10-4539-2017.
  • Song H-S, DG Thomas, JC Stegen, M Li, C Liu, X Song, X Chen, JK Fredrickson, JM Zachara and TD Scheibe (2017). “Regulation-structured dynamic metabolic model provides a potential mechanism for delayed enzyme response in denitrification process.” Front. Microbiol., 8:1866. doi: 10.3389/fmicb.2017.01866.
  • Stegen JC, CG Anderson, B Bond-Lamberty, AR Crump, X Chen, and N Hess (2017). “Soil respiration across a permafrost transition zone: spatial structure and environmental correlates.” Biogeosciences, 14, 4341-4354. doi:10.5194/bg-14-4341-2017.
  • Gao Z, ES Russell, JEC Missik, M Huang, X Chen, CE Strickland, R Clayton, E Arntzen, Y Ma, and H Liu (2017). “A novel approach to evaluate soil heat flux calculation: An analytical review of nine methods.” Journal of Geophysical Research. D. (Atmospheres), 122(13):6934-3649. doi: 10.1002/2017JD027160.
  • Song H-S, TG Dennis, JC Stegen, M Li, C Liu, X Song, X Chen, JK Fredrickson, JM Zachara, and TD Scheibe. (2017). “Regulation-Structured Dynamic Metabolic Model Provides a Potential Mechanism for Delayed Enzyme Response in Denitrification Process.” Frontiers in Microbiology, 8:1866. doi: 10.3389/fmicb.2017.01866.
  • Dai H, M Ye, AP Walker, and X Chen (2017). “A new process sensitivity index to identify important system processes under process model and parametric uncertainty.” Water Resources Research, 53, 3476–3490. doi:10.1002/2016WR019715.
  • Dai H, X Chen, M Ye, X Song, and JM Zachara. (2017). “A geostatistics-informed hierarchical sensitivity analysis method for complex groundwater flow and transport modelling.” Water Resources Research, 53(5):4327–4343. doi: 10.1002/2016WR019756.
  • Johnson TC, GE Hammond, X and Chen. (2017) “PFLOTRAN-E4D: A parallel open source PFLOTRAN module for simulating time-lapse electrical resistivity data.” Computers & Geosciences, 99, 72–80; DOI: 10.1016/j.cageo.2016.09.006. 
  • Wan H, K Zhang, PJ Rasch, B Singh, X Chen, and J Edwards (2017). “A new and inexpensive non-bit-for-bit solution reproducibility test based on time step convergence (TSC1.0).” Geosci. Model Dev., 10, 537-552. doi:10.5194/gmd-10-537-2017.

2016

  • Zachara JM, X Chen, CJ Murray, and GE Hammond (2016). “River stage influences on uranium transport in a hydrologically dynamic groundwater-surface water transition zone.” Water Resources Research, 52(3):1568–1590. doi:10.1002/2015WR018009.
  • Johnson TC, GE Hammond, and X Chen (2016). “PFLOTRAN-E4D: A parallel open source PFLOTRAN module for simulating time-lapse electrical resistivity data.” Computers & Geosciences. doi:10.1016/j.cageo.2016.09.006.
  • Stegen JC, AH Hurlbert, B Bond-Lamberty, X Chen, CG Anderson, RK Chu, F Dini-Andreote, SJ Fansler, NJ Hess, and M Tfaily (2016). “Aligning the measurement of microbial diversity with macroecological theory.” Front. Microbiol, 7:1487. doi:10.3389/fmicb.2016.01487.

2015

  • Scheibe TD, EM Murphy, X Chen, AK Rice, KC Carroll, BJ Palmer, AM Tartakovsky, I Battiato, and BD Wood (2015). “An analysis platform for multiscale hydrogeologic modeling with emphasis on hybrid multiscale methods.” Groundwater, 53(1), 38-56. doi: 10.1111/gwat.12179.
  • Johnson TC, RJ Versteeg, J Thomle, GE Hammond, X Chen, and JM Zachara (2015). “Four-dimensional electrical conductivity monitoring of stage-driven river water intrusion: Accounting for water table effects using a transient mesh boundary and conditional inversion constraints.” Water Resources Research, 51(8), 6177-6196. doi: 10.1002/2014WR016129.
  • Scheibe TD, X Yang, X Chen, and G Hammond. (2015). “A Hybrid Multiscale Framework for Subsurface Flow and Transport Simulations.” Procedia Computer Science, 51:1098-1107. doi:10.1016/j.procs.2015.05.276.

2014

  • Freedman VL, X Chen, SA Finsterle, MD Freshley, I Gorton, LJ Gosink, E Keating, C Lansing, WAM Moeglein, CJ Murray, GSH Pau, EA Porter, S Purohit, ML Rockhold, KL Schuchardt, C Sivaramakrishnan, VV Vesselinov, and SR Waichler (2014). “A high-performance workflow system for subsurface simulation.” Environmental Modeling & Software, 55:176-189. doi:10.1016/j.envsoft.2014.01.030.

2013

  • Chen X, GE Hammond, CJ Murray, ML Rockhold, VR Vermeul, JM and Zachara. (2013). “Application of ensemble-based data assimilation techniques for aquifer characterization using tracer data at Hanford 300 area.” Water Resources Research, 49, 7064–7076; DOI: 10.1002/2012WR013285.
  • Over M, Y Yang, X Chen, and Y Rubin (2013). “A strategy for improved computational efficiency of the method of anchored distributions.” Water Resources Research, 49, 3257–3275, doi:10.1002/wrcr.20182.
  • Stegen J, X Lin, J Fredrickson, X Chen, D Kennedy, C Murray, M Rockhold, and A Konopka (2013). “Quantifying community assembly processes and identifying features that impose them.” ISME Journal, doi:10.1038/ismej.2013.93.

2012

  • Chen X, GR Miller, Y Rubin, and DD Baldocchi. (2012). “A statistical method for estimating wood thermal diffusivity and probe geometry using in situ heat response curves from sap flow measurements.” Tree Physiology, 32, 1458–1470; DOI: 10.1093/treephys/tps100.
  • Chen X, H Murakami, MS Hahn, GE Hammond, ML Rockhold, JM Zachara, and Y Rubin. (2012). “Three-dimensional Bayesian geostatistical aquifer characterization at the Hanford 300 Area using tracer test data.” Water Resources Research, 48, W06501; DOI: 10.1029/2011WR010675.

2010

  • Miller G, X Chen, Y Rubin, S Ma, and D Baldocchi. (2010). “Groundwater uptake by woody vegetation in a semiarid oak savanna.” Water Resources Research, 46, W10503, doi:10.1029/2009WR008902.
  • Murakami H, X Chen, M Hahn, Y Liu, M Rockhold, V Vermeul, J Zachara, and Y Rubin. (2010). “Bayesian Approach for Three-dimensional Aquifer Characterization at the Hanford 300 Area.” Hydrology and Earth System Sciences, 14, 1989-2001, doi:10.5194/hess-14-1989-2010.
  • Rubin Y, X Chen, H Murakami, and M Hahn. (2010). „A Bayesian approach for data assimilation and conditional simulation of spatial random fields.” Water Resources Research, 46, W10523, doi:10.1029/2009WR008799.

2008

  • Chen X, Y Rubin, S Ma, and D Baldocchi. (2008). “Observations and stochastic modeling of soil moisture control on evapotranspiration in a Californian oak savanna.” Water Resources Research, 44, W08409; DOI: 10.1029/2007WR006646.

2003

  • Chen X, and Y-K Tung (2003). “Investigation of polynomial normal transformation.” Journal of Structural Safety, 25(4), 423-445.​​​​​​​