Dr. John C. Stormont
Professor
Civil Engineering
Education
PhD, Geological Engineering, University of Arizona, 1990
MS, Mining Engineering, University of Arizona, 1983
BS, Mining Engineering, University of Wisconsin, 1980
Biography
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He is actively working in the areas of saturated and unsaturated flow through soil and rock. His experience includes field and laboratory measurements of hydraulic properties and behavior, as well as numerical simulations of near-surface processes including evapotranspiration, infiltration, drainage, and erosion.
Teaching Interests
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Geotechnical engineering
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Unsaturated hydrology
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Geoenvironmental engineering
Research Interests
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Near surface water and energy balance
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Rock mechanics
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Waste isolation
Center/Laboratory/Program Affiliations
Current Research and Scholarly Interests
Hydrodynamics of lakes, estuaries, coral reefs, kelp forests and the coastal ocean
2015-16 Courses
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Independent Studies (29)
- Advanced Engineering Informatics
CEE 381 (Spr) - Advanced Engineering Problems
CEE 399 (Aut, Win, Spr, Sum) - Advanced Topics in Environmental Fluid Mechanics and Hydrology
CEE 365B (Win) - Advanced Topics in Environmental Fluid Mechanics and Hydrology
CEE 365C (Spr) - Advanced Topics in Environmental Fluid Mechanics and Hydrology
CEE 365D (Sum) - Directed Individual Study in Earth Systems
EARTHSYS 297 (Aut, Win, Spr, Sum) - Directed Reading in Environment and Resources
ENVRES 398 (Aut, Win, Spr, Sum) - Directed Reading or Special Studies in Civil Engineering
CEE 198 (Win, Spr, Sum) - Directed Research
EARTHSYS 250 (Aut, Win, Spr, Sum) - Directed Research in Environment and Resources
ENVRES 399 (Aut, Win, Spr, Sum) - Directed Studies in Architecture
CEE 199B (Spr) - Environmental Research
CEE 370B (Win) - Environmental Research
CEE 370C (Spr) - Environmental Research
CEE 370D (Sum) - Honors Program in Earth Systems
EARTHSYS 199 (Aut, Win, Spr, Sum) - Independent Study in Civil Engineering for CEE-MS Students
CEE 299 (Aut, Win, Spr, Sum) - Internship
EARTHSYS 260 (Sum) - Ph.D. Qualifying Tutorial
ENVRES 410 (Aut, Win, Sum) - Practical Training
ME 299A (Sum) - Report on Civil Engineering Training
CEE 398 (Win, Spr, Sum) - Research Proposal Writing in Environmental Engineering and Science
CEE 377 (Aut, Spr, Sum) - Special Projects in Architecture
CEE 199A (Spr) - Sustainable Development Studio
CEE 124 (Spr) - Sustainable Development Studio
CEE 224A (Spr) - Teaching of Civil and Environmental Engineering
CEE 200A (Aut) - Teaching of Civil and Environmental Engineering
CEE 200B (Win) - Teaching of Civil and Environmental Engineering
CEE 200C (Spr) - Undergraduate Honors Thesis
CEE 199H (Aut, Spr, Sum) - Undergraduate Research in Civil and Environmental Engineering
CEE 199 (Aut, Spr, Sum)
- Advanced Engineering Informatics
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Prior Year Courses
2014-15 Courses
- Corals of Palau: Ecology, the Physical Environment, and Reefs at Risk
OSPGEN 53 (Sum) - Transport and Mixing in Surface Water Flows
CEE 262B (Win)
2013-14 Courses
- Mechanics of Fluids
CEE 101B (Spr) - Mechanics of Fluids Laboratory
CEE 160 (Spr) - Multi-Disciplinary Perspectives on a Large Urban Estuary: San Francisco Bay
CEE 50N, EARTHSYS 49N, EESS 49N (Spr)
2012-13 Courses
- Corals of Palau: Ecology, the Physical Environment, and Reefs at Risk
OSPGEN 53 (Sum) - Ocean Waves
CEE 262F (Spr) - Transport and Mixing in Surface Water Flows
CEE 262B (Win)
- Corals of Palau: Ecology, the Physical Environment, and Reefs at Risk
Stanford Advisees
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Doctoral (Program)
Justin Rogers -
Doctoral Dissertation Reader (AC)
David Koweek, Francisco Zarama -
Doctoral Dissertation Advisor (AC)
Justin Rogers -
Master's Program Advisor
Justin Rogers
All Publications
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Field observations of wave-driven circulation over spur and groove formations on a coral reef
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2015; 120 (1): 145-160
View details for DOI 10.1002/2014JC010464
View details for Web of Science ID 000349890000010
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Stratified turbulence in the nearshore coastal ocean: Dynamics and evolution in the presence of internal bores
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2014; 119 (12): 8709-8730
View details for DOI 10.1002/2014JC010396
View details for Web of Science ID 000348452800028
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On the use of refractive-index-matched hydrogel for fluid velocity measurement within and around geometrically complex solid obstructions
EXPERIMENTS IN FLUIDS
2014; 55 (12)
View details for DOI 10.1007/s00348-014-1862-x
View details for Web of Science ID 000345331300010
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Diurnal cross-shore thermal exchange on a tropical forereef
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2014; 119 (9): 6101-6120
View details for DOI 10.1002/2013JC009621
View details for Web of Science ID 000343879200029
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Connecting wind-driven upwelling and offshore stratification to nearshore internal bores and oxygen variability
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2014; 119 (6): 3517-3534
View details for DOI 10.1002/2014JC009998
View details for Web of Science ID 000340414800017
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Local shear and mass transfer on individual coral colonies: Computations in unidirectional and wave-driven flows
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2014; 119 (4): 2599-2619
View details for DOI 10.1002/2013JC009751
View details for Web of Science ID 000336213200027
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Scale-Dependent Dispersion within the Stratified Interior on the Shelf of Northern Monterey Bay
JOURNAL OF PHYSICAL OCEANOGRAPHY
2014; 44 (4): 1049-1064
View details for DOI 10.1175/JPO-D-12-0229.1
View details for Web of Science ID 000334128200001
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Flow through a rough, shallow reef
CORAL REEFS
2014; 33 (1): 99-104
View details for DOI 10.1007/s00338-013-1107-0
View details for Web of Science ID 000330965000013
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Fortnightly Tidal Modulations Affect Net Community Production in a Mesotidal Estuary
ESTUARIES AND COASTS
2014; 37 (1): S91-S110
View details for DOI 10.1007/s12237-013-9765-2
View details for Web of Science ID 000339171800008
- Thermal structure and variability of a shallow tropical reservoir Limnol. Oceanog. 2014; 1 (59): 115-128
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Using Depth-Normalized Coordinates to Examine Mass Transport Residual Circulation in Estuaries with Large Tidal Amplitude Relative to the Mean Depth
JOURNAL OF PHYSICAL OCEANOGRAPHY
2014; 44 (1): 128-148
View details for DOI 10.1175/JPO-D-12-0201.1
View details for Web of Science ID 000335802100015
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Scale-Dependent Dispersion within the Stratified Interior on the Shelf of Northern Monterey Bay
Journal of Physical Oceanography
2014; 44: 1049-1065=4
View details for DOI 10.1175/JPO-D-12-0229.1
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Thermal structure and variability of a shallow tropical reservoir
LIMNOLOGY AND OCEANOGRAPHY
2014; 59 (1): 115-128
View details for DOI 10.4319/lo.2014.59.01.0115
View details for Web of Science ID 000339901800010
- Using depth-normalized coordinates to examine mass transport residual circulation in estuaries with large tidal amplitude relative to the mean depth J. Phys. Ocean. 2014; 44: 128–148
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Simple estimate of entrainment rate of pollutants from a coastal discharge into the surf zone.
Environmental science & technology
2013; 47 (20): 11554-11561
Abstract
Microbial pollutants from coastal discharges can increase illness risks for swimmers and cause beach advisories. There is presently no predictive model for estimating the entrainment of pollution from coastal discharges into the surf zone. We present a novel, quantitative framework for estimating surf zone entrainment of pollution at a wave-dominant open beach. Using physical arguments, we identify a dimensionless parameter equal to the quotient of the surf zone width l(sz) and the cross-flow length scale of the discharge la = M(j) (1/2)/U(sz), where M(j) is the discharge's momentum flux and U(sz) is a representative alongshore velocity in the surf zone. We conducted numerical modeling of a nonbuoyant discharge at an alongshore uniform beach with constant slope using a wave-resolving hydrodynamic model. Using results from 144 numerical experiments we develop an empirical relationship between the surf zone entrainment rate α and l(sz)/(la). The empirical relationship can reasonably explain seven measurements of surf zone entrainment at three diverse coastal discharges. This predictive relationship can be a useful tool in coastal water quality management and can be used to develop predictive beach water quality models.
View details for DOI 10.1021/es402492f
View details for PubMedID 24006887
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Temporal and spatial variability of the internal wave field in a lake with complex morphometry
LIMNOLOGY AND OCEANOGRAPHY
2013; 58 (5): 1557-1580
View details for DOI 10.4319/lo.2013.58.5.1557
View details for Web of Science ID 000327393800003
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Local mass transfer measurements for corals and other complex geometries using gypsum dissolution
EXPERIMENTS IN FLUIDS
2013; 54 (7)
View details for DOI 10.1007/s00348-013-1563-x
View details for Web of Science ID 000322186200016
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Wave Transformation and Wave-Driven Flow across a Steep Coral Reef
JOURNAL OF PHYSICAL OCEANOGRAPHY
2013; 43 (7): 1356-1379
View details for DOI 10.1175/JPO-D-12-0164.1
View details for Web of Science ID 000329778000008
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Hydrodynamics of spur and groove formations on a coral reef
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2013; 118 (6): 3059-3073
View details for DOI 10.1002/jgrc.20225
View details for Web of Science ID 000324885500021
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Interaction of waves and currents with kelp forests (Macrocystis pyrifera): Insights from a dynamically scaled laboratory model
LIMNOLOGY AND OCEANOGRAPHY
2013; 58 (3): 790-802
View details for DOI 10.4319/lo.2013.58.3.0790
View details for Web of Science ID 000322491100003
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Contrasting Seasonal and Fortnightly Variations in the Circulation of a Seasonally Inverse Estuary, Elkhorn Slough, California
ESTUARIES AND COASTS
2013; 36 (1): 1-17
View details for DOI 10.1007/s12237-012-9548-1
View details for Web of Science ID 000312717400001
- Interactions between a kelp forest (Macrocystis pyrifera) and waves: Insights from a dynamically scaled laboratory model Limnol. Ocean. 2013; 3 (58): 790–802
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Wave transformation and wave-driven flow across a steep coral reef.
Journal of Physical Oceanography
2013; 43: 1356–1379
View details for DOI 10.1175/JPO-D-12-0164.1
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Drag coefficients for single coral colonies and related spherical objects
Limnology and Oceanography Fluids and Environments
2013; 3: 173-181
View details for DOI 10.1215/21573689-2378401
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Flow through a rough, shallow reef
Coral Reefs
2013
View details for DOI 10.1007/s00338-013-1107-0
- A simple estimate of entrainment rate of pollutants from a coastal discharge into the surf zone Env. Sci. Tech. 2013; 47: 11554-11561
- Temporal and spatial variability of the internal wave field in a lake with complex morphometry Limnol. Ocean. 2013; 5 (58): 1557–1580
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Characteristics of Monochromatic Waves Breaking over Fringing Reefs
JOURNAL OF COASTAL RESEARCH
2013; 29 (1): 94-104
View details for DOI 10.2112/JCOASTRES-D-12-00021.1
View details for Web of Science ID 000313930200010
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Comparison of mixing efficiency and vertical diffusivity models from temperature microstructure
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2012; 117
View details for DOI 10.1029/2012JC007967
View details for Web of Science ID 000309614300001
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Observations of tidal currents in the northern Gulf of Eilat/Aqaba (Red Sea)
JOURNAL OF MARINE SYSTEMS
2012; 102: 14-28
View details for DOI 10.1016/j.jmarsys.2012.04.008
View details for Web of Science ID 000305866200002
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Nearshore internal bores and turbulent mixing in southern Monterey Bay
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2012; 117
View details for DOI 10.1029/2012JC008115
View details for Web of Science ID 000306909800002
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Water and heat budgets of a shallow tropical reservoir
WATER RESOURCES RESEARCH
2012; 48
View details for DOI 10.1029/2011WR011314
View details for Web of Science ID 000306000600003
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1DH Boussinesq modeling of wave transformation over fringing reefs
OCEAN ENGINEERING
2012; 47: 30-42
View details for DOI 10.1016/j.oceaneng.2012.03.010
View details for Web of Science ID 000304746800004
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A short-term in situ CO2 enrichment experiment on Heron Island (GBR)
SCIENTIFIC REPORTS
2012; 2
Abstract
Ocean acidification poses multiple challenges for coral reefs on molecular to ecological scales, yet previous experimental studies of the impact of projected CO? concentrations have mostly been done in aquarium systems with corals removed from their natural ecosystem and placed under artificial light and seawater conditions. The Coral-Proto Free Ocean Carbon Enrichment System (CP-FOCE) uses a network of sensors to monitor conditions within each flume and maintain experimental pH as an offset from environmental pH using feedback control on the injection of low pH seawater. Carbonate chemistry conditions maintained in the -0.06 and -0.22 pH offset treatments were significantly different than environmental conditions. The results from this short-term experiment suggest that the CP-FOCE is an important new experimental system to study in situ impacts of ocean acidification on coral reef ecosystems.
View details for DOI 10.1038/srep00413
View details for Web of Science ID 000304394000002
View details for PubMedID 22639723
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Frontogenesis and Frontal Progression of a Trapping-Generated Estuarine Convergence Front and Its Influence on Mixing and Stratification
ESTUARIES AND COASTS
2012; 35 (2): 665-681
View details for DOI 10.1007/s12237-011-9453-z
View details for Web of Science ID 000300771900023
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WAVE SETUP OVER FRINGING REEF WITH A SHALLOW REEF CREST: A HYDRAULIC THEORY FOR FLOWS UNDER CRITICAL CONDITIONS
PROCEEDINGS OF THE 6TH INTERNATIONAL CONFERENCE ON APAC 2011
2012
View details for Web of Science ID 000311609100214
- Internal bore-like features and turbulent mixing on the inner shelf of southern Monterey Bay J. Geophys. Res. (Oceans) 2012; C07017 (117): 13
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Horizontal dispersion of ocean tracers in internal wave shear
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2011; 116
View details for DOI 10.1029/2011JC007213
View details for Web of Science ID 000297271900003
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The Modification of Bottom Boundary Layer Turbulence and Mixing by Internal Waves Shoaling on a Barrier Reef
JOURNAL OF PHYSICAL OCEANOGRAPHY
2011; 41 (11): 2223-2241
View details for DOI 10.1175/2011JPO4344.1
View details for Web of Science ID 000298020600012
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Similarity scaling of turbulence spectra and cospectra in a shallow tidal flow
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2011; 116
View details for DOI 10.1029/2011JC007144
View details for Web of Science ID 000295987800007
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Role of straining and advection in the intratidal evolution of stratification, vertical mixing, and longitudinal dispersion of a shallow, macrotidal, salt wedge estuary
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2011; 116
View details for DOI 10.1029/2010JC006482
View details for Web of Science ID 000288089400001
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Short-term coherency between gross primary production and community respiration in an algal-dominated reef flat
CORAL REEFS
2011; 30 (1): 53-58
View details for DOI 10.1007/s00338-010-0671-9
View details for Web of Science ID 000286940800006
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Modeling and understanding turbulent mixing in a macrotidal salt wedge estuary
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2011; 116
View details for DOI 10.1029/2010JC006135
View details for Web of Science ID 000287810400001
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The Tidally Averaged Momentum Balance in a Partially and Periodically Stratified Estuary
JOURNAL OF PHYSICAL OCEANOGRAPHY
2010; 40 (11): 2418-2434
View details for DOI 10.1175/2010JPO4389.1
View details for Web of Science ID 000284972900004
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Flow effects on benthic grazing on phytoplankton by a Caribbean reef
LIMNOLOGY AND OCEANOGRAPHY
2010; 55 (5): 1881-1892
View details for DOI 10.4319/lo.2010.55.5.1881
View details for Web of Science ID 000283667100007
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An Autonomous Open-Ocean Stereoscopic PIV Profiler
JOURNAL OF ATMOSPHERIC AND OCEANIC TECHNOLOGY
2010; 27 (8): 1362-1380
View details for DOI 10.1175/2010JTECHO694.1
View details for Web of Science ID 000281160600008
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Modelling Stratification and Baroclinic Flow in the Estuarine Transition Zone of the St. Lawrence Estuary
ATMOSPHERE-OCEAN
2010; 48 (2): 132-146
View details for DOI 10.3137/OC316.2010
View details for Web of Science ID 000279579600005
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Currents and turbulence within a kelp forest (Macrocystis pyrifera): Insights from a dynamically scaled laboratory model
LIMNOLOGY AND OCEANOGRAPHY
2010; 55 (3): 1145-1158
View details for DOI 10.4319/lo.2010.55.3.1145
View details for Web of Science ID 000277650900016
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Turbulent mixing in fine-scale phytoplankton layers: Observations and inferences of layer dynamics
CONTINENTAL SHELF RESEARCH
2010; 30 (5): 442-455
View details for DOI 10.1016/j.csr.2009.12.014
View details for Web of Science ID 000276547000005
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WAVE-INDUCED SET-UP OVER FRINGING CORAL REEFS: A COMPARISON BETWEEN SMOOTH AND POROUS REEF FLATS
PROCEEDINGS OF THE 5TH INTERNATIONAL CONFERENCE ON ASIAN AND PACIFIC COASTS, VOL 4
2010: 236-244
View details for Web of Science ID 000275693800034
- Modeling stratification and baroclinic flow in the estuarine transition zone of the St. Lawrence Estuary Atmosphere-Ocean 2010; 2 (48): 132-146
- An Autonomous Open-Ocean Particle Imaging Profiler. Part I: In-situ Stereoscopic PIV from a Free-falling Oceanic Profiler J. Atmos Ocean Tech. 2010; 8 (27): 1362–1380
- Dynamics of phytoplankton layers: Persistence and breakdown at the base of the mixed layer Cont. Shelf Res. 2010; 5 (30): 442-455
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Remotely sensed river surface features compared with modeling and in situ measurements
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2009; 114
View details for DOI 10.1029/2009JC005440
View details for Web of Science ID 000271581400004
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Tidally regulated chemical fluxes across the sediment-water interface in Elkhorn Slough, California: Evidence from a coupled geochemical and hydrodynamic approach
LIMNOLOGY AND OCEANOGRAPHY
2009; 54 (6): 1964-1980
View details for Web of Science ID 000270390200013
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An Evaluation of chi(T) Estimation Techniques: Implications for Batchelor Fitting and epsilon
JOURNAL OF ATMOSPHERIC AND OCEANIC TECHNOLOGY
2009; 26 (8): 1652-1662
View details for DOI 10.1175/2009JTECHO611.1
View details for Web of Science ID 000268801300015
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Evidence for Submesoscale Barriers to Horizontal Mixing in the Ocean from Current Measurements and Aerial Photographs
JOURNAL OF PHYSICAL OCEANOGRAPHY
2009; 39 (8): 1975-1983
View details for DOI 10.1175/2009JPO4116.1
View details for Web of Science ID 000269263100014
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A numerical study of circulation in a coastal reef-lagoon system
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2009; 114
View details for DOI 10.1029/2008JC005081
View details for Web of Science ID 000267490700002
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Hydrodynamic control of phytoplankton loss to the benthos in an estuarine environment
LIMNOLOGY AND OCEANOGRAPHY
2009; 54 (3): 952-969
View details for Web of Science ID 000268325000027
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Intense benthic grazing of phytoplankton in a coral reef
LIMNOLOGY AND OCEANOGRAPHY
2009; 54 (3): 938-951
View details for Web of Science ID 000268325000026
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Lateral Circulation in Well-Mixed and Stratified Estuarine Flows with Curvature
JOURNAL OF PHYSICAL OCEANOGRAPHY
2009; 39 (4): 831-851
View details for DOI 10.1175/2008JPO4017.1
View details for Web of Science ID 000265639700002
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Wave-Driven Circulation of a Coastal Reef-Lagoon System
JOURNAL OF PHYSICAL OCEANOGRAPHY
2009; 39 (4): 873-893
View details for DOI 10.1175/2008JPO3958.1
View details for Web of Science ID 000265639700004
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Turbulent Stresses and Secondary Currents in a Tidal-Forced Channel with Significant Curvature and Asymmetric Bed Forms
JOURNAL OF HYDRAULIC ENGINEERING-ASCE
2009; 135 (3): 198-208
View details for DOI 10.1061/(ASCE)0733-9429(2009)135:3(198)
View details for Web of Science ID 000263403000005
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An Experimental Study of Wave-Induced Set-up over a Horizontal Reef with an Idealized Ridge
OMAE 2009, VOL 6
2009: 383-389
View details for Web of Science ID 000283008400041
- The surface mixed layer in lakes Encyclopedia of Inland Waters. Oxford: Elsevier. 2009: 636-650
- Flow inside a coral colony measured using Magnetic Resonance Velocimetry Limnol. Oceanog. 2009; 5 (54): 1819–1827
- Tidally driven chemical fluxes across the sediment-water interface at Elkhorn Slough, California: evidence from a coupled geochemical and hydrodynamic approach Limnol. Oceanog. 2009; 6 (54): 1964 -1980
- Techniques for the accurate estimation of χT and ε from temperature microstructure J. Atmos Ocean Tech. 2009; 8 (26): 1652-1662
- Observations of secondary circulation and bottom stress in a channel with significant curvatures J. ASCE Hyd. Div. 2009; 3 (135): 198-208
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Shallow water processes govern system-wide phytoplankton bloom dynamics: A modeling study
JOURNAL OF MARINE SYSTEMS
2009; 75 (1-2): 70-86
View details for DOI 10.1016/j.jmarsys.2008.07.011
View details for Web of Science ID 000262750800006
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Thermal Variability in a Tidal River
ESTUARIES AND COASTS
2009; 32 (1): 100-110
View details for DOI 10.1007/s12237-008-9109-9
View details for Web of Science ID 000262504600008
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Episodic circulation and exchange in a wave-driven coral reef and lagoon system
LIMNOLOGY AND OCEANOGRAPHY
2008; 53 (6): 2681-2694
View details for Web of Science ID 000261355500029
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Evidence for the inherent unsteadiness of a river plume: Satellite observations of the Niagara River discharge
LIMNOLOGY AND OCEANOGRAPHY
2008; 53 (6): 2731-2737
View details for Web of Science ID 000261355500034
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Shallow water processes govern system-wide phytoplankton bloom dynamics: A field study
JOURNAL OF MARINE SYSTEMS
2008; 74 (1-2): 153-166
View details for DOI 10.1016/j.jmarsys.2007.12.006
View details for Web of Science ID 000261256100009
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Modeling flow in coral communities with and without waves: A synthesis of porous media and canopy flow approaches
LIMNOLOGY AND OCEANOGRAPHY
2008; 53 (6): 2668-2680
View details for Web of Science ID 000261355500028
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Effects of western boundary current dynamics on the internal wave field of the Southeast Florida shelf
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2008; 113 (C9)
View details for DOI 10.1029/2007JC004699
View details for Web of Science ID 000259001900006
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Plume dispersion on a fringing coral reef system
LIMNOLOGY AND OCEANOGRAPHY
2008; 53 (5): 2273-2286
View details for Web of Science ID 000261355400017
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Continuous measurements of net production over a shallow reef community using a modified Eulerian approach
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2008; 113 (C7)
View details for DOI 10.1029/2007JC004663
View details for Web of Science ID 000257999900005
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The influence of whitecapping waves on the vertical structure of turbulence in a shallow estuarine embayment
JOURNAL OF PHYSICAL OCEANOGRAPHY
2008; 38 (7): 1563-1580
View details for DOI 10.1175/2007JPO3766.1
View details for Web of Science ID 000257853500012
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Modeling the influence of wave-enhanced turbulence in a shallow tide- and wind-driven water column
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2008; 113 (C3)
View details for DOI 10.1029/2007JC004246
View details for Web of Science ID 000254167300005
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Extracting Reynolds stresses from acoustic Doppler current profiler measurements in wave-dominated environments
JOURNAL OF ATMOSPHERIC AND OCEANIC TECHNOLOGY
2008; 25 (2): 286-306
View details for DOI 10.1175/2007JTECH0525.1
View details for Web of Science ID 000253582700010
- Episodic circulation and exchange in a wave driven coral reef lagoon system Limnol. Oceang. 2008; 6 (53): 2681-2694
- The potential influence of whitecapping waves on vertical mixing in Franks Tract”, San Francisco Bay, California, USA San Francisco Estuary and Watershed Science 2008; 2 (6)
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Measuring short-period wind waves in a tidally forced environment with a subsurface pressure gauge
LIMNOLOGY AND OCEANOGRAPHY-METHODS
2007; 5: 317-327
View details for Web of Science ID 000251564500003
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Observing Larval Transport Processes Affecting Population Connectivity Progress and Challenges
OCEANOGRAPHY
2007; 20 (3): 40-53
View details for Web of Science ID 000261638200009
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Spatial patterns of flow and their modification within and around a giant kelp forest
LIMNOLOGY AND OCEANOGRAPHY
2007; 52 (5): 1838-1852
View details for Web of Science ID 000249416200009
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Spectral wave-turbulence decomposition
JOURNAL OF ATMOSPHERIC AND OCEANIC TECHNOLOGY
2007; 24 (8): 1479-1487
View details for DOI 10.1175/JTECH2066.1
View details for Web of Science ID 000249099900012
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Laboratory experiments of fine-scale mixing and mass transport within a coral canopy
PHYSICS OF FLUIDS
2007; 19 (7)
View details for DOI 10.1063/1.2752189
View details for Web of Science ID 000248486100037
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Spectral wave flow attenuation within submerged canopies: Implications for wave energy dissipation
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2007; 112 (C5)
View details for DOI 10.1029/2006JC003605
View details for Web of Science ID 000246497200002
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Laboratory observations of mean flows under surface gravity waves
JOURNAL OF FLUID MECHANICS
2007; 573: 131-147
View details for DOI 10.1017/S0022112006003594
View details for Web of Science ID 000244635500006
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A field investigation into the effects of a kelp forest (Macrocystis pyrifera) on coastal hydrodynamics and transport
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2007; 112 (C2)
View details for DOI 10.1029/2005JC003430
View details for Web of Science ID 000244369900001
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Hydrodynamics of coral reefs
ANNUAL REVIEW OF FLUID MECHANICS
2007; 39: 37-55
View details for DOI 10.1146/annurev.fluid.38.050304.092125
View details for Web of Science ID 000243900500004
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Effects of nonlocal turbulence on the mass transfer of dissolved species to reef corals
LIMNOLOGY AND OCEANOGRAPHY
2007; 52 (1): 274-285
View details for Web of Science ID 000243795400025
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Structure of mass and momentum fields over a model aggregation of benthic filter feeders
BIOGEOSCIENCES
2007; 4 (3): 269-282
View details for Web of Science ID 000247572200002
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The effects of coral morphology and ambient flow on mass transfer in coral communities
OXFORD UNIV PRESS INC. 2006: E115-E115
View details for Web of Science ID 000202970100459
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Zooplankton retention in the estuarine transition zone of the St. Lawrence Estuary
LIMNOLOGY AND OCEANOGRAPHY
2006; 51 (6): 2621-2631
View details for Web of Science ID 000242265700011
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A mixing-length formulation for the turbulent Prandtl number in wall-bounded flows with bed roughness and elevated scalar sources
PHYSICS OF FLUIDS
2006; 18 (9)
View details for DOI 10.1063/1.2227005
View details for Web of Science ID 000240877600019
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Boundary layer turbulence and flow structure over a fringing coral reef
LIMNOLOGY AND OCEANOGRAPHY
2006; 51 (5): 1956-1968
View details for Web of Science ID 000240673800002
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The importance of submarine groundwater discharge to the nearshore nutrient supply in the Gulf of Aqaba (Israel)
LIMNOLOGY AND OCEANOGRAPHY
2006; 51 (4): 1876-1886
View details for Web of Science ID 000239262200030
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Thermally driven exchanges between a coral reef and the adjoining ocean
JOURNAL OF PHYSICAL OCEANOGRAPHY
2006; 36 (7): 1332-1347
View details for Web of Science ID 000239979600006
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Laboratory experiments simulating a coastal river inflow
JOURNAL OF FLUID MECHANICS
2006; 555: 203-232
View details for DOI 10.1017/S0022112006008937
View details for Web of Science ID 000238236200010
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Effects of the depth to coral height ratio on drag coefficients for unidirectional flow over coral
LIMNOLOGY AND OCEANOGRAPHY
2006; 51 (3): 1294-1301
View details for Web of Science ID 000237748300008
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A novel flume for simulating the effects of wave- and tide-driven water motion on the biogeochemistry of benthic reef communities
LIMNOLOGY AND OCEANOGRAPHY-METHODS
2006; 4: 68-79
View details for Web of Science ID 000238436700001
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The effects of waves and morphology on mass transfer within branched reef corals
LIMNOLOGY AND OCEANOGRAPHY
2006; 51 (2): 1134-1141
View details for Web of Science ID 000236343600033
- A new mesocosm for simulating the effects of wave-driven water motion on the biogeochemistry of benthic reef communities. Limnol. Oceanogr. Methods 2006; 4: 68-79
- Effects of waves, unidirectional currents, and morphology on mass transfer in branched reef corals Limnol. Oceanog 2006; 2 (51): 1134-1141
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Oscillatory flow through submerged canopies: 1. Velocity structure
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2005; 110 (C10)
View details for DOI 10.1029/2004JC002788
View details for Web of Science ID 000232688400002
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Oscillatory flow through submerged canopies: 2. Canopy mass transfer
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2005; 110 (C10)
View details for DOI 10.1029/2004JC002789
View details for Web of Science ID 000232688400003
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Bed drag coefficient variability under wind waves in a tidal estuary
JOURNAL OF HYDRAULIC ENGINEERING-ASCE
2005; 131 (6): 497-508
View details for DOI 10.1061/(ASCE)0733-9429(2005)131:6(497)
View details for Web of Science ID 000229223200007
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Spectral wave dissipation over a barrier reef
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2005; 110 (C4)
View details for DOI 10.1029/2004JC002711
View details for Web of Science ID 000228379100001
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Near-bottom depletion of zooplankton over a coral reef - II: relationships with zooplankton swimming ability
CORAL REEFS
2005; 24 (1): 87-94
View details for DOI 10.1007/s00338-004-0450-6
View details for Web of Science ID 000227742400014
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On the effects of topography on wind and the generation of currents in a large multi-basin lake
HYDROBIOLOGIA
2005; 532: 139-151
View details for Web of Science ID 000226928800013
- Near-bottom depletion of zooplankton over a coral reef: bottom avoidance or actual predation? Coral Reefs 2005; 24: 87-94
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A note on the potential transport of scalars and organisms by surface waves
LIMNOLOGY AND OCEANOGRAPHY
2004; 49 (4): 1214-1217
View details for Web of Science ID 000224979700033
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Evaluation of the accuracy of a ship-mounted, bottom-tracking ADCP in a near-shore coastal flow
JOURNAL OF ATMOSPHERIC AND OCEANIC TECHNOLOGY
2004; 21 (7): 1121-1128
View details for Web of Science ID 000222458300014
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Double diffusive effect on desalination discharges
JOURNAL OF HYDRAULIC ENGINEERING-ASCE
2004; 130 (5): 450-457
View details for DOI 10.1061/(ASCE)0733-9429(2004)130:5(450)
View details for Web of Science ID 000220980100008
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Tides and sea level in the Gulf of Aqaba (Eilat)
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2004; 109 (C4)
View details for DOI 10.1029/2003JC002069
View details for Web of Science ID 000221086600001
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Covariation of coastal water temperature and microbial pollution at interannual to tidal periods
GEOPHYSICAL RESEARCH LETTERS
2004; 31 (6)
View details for DOI 10.1029/2003GL019122
View details for Web of Science ID 000220743300005
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Modelling the effects of bed drag coefficient variability under wind waves in South San Francisco Bay
ESTUARINE AND COASTAL MODELING, PROCEEDINGS
2004: 89-107
View details for Web of Science ID 000228129600007
- Bed Drag Coefficient Variability in a Tidal Estuary: Field measurements and Numerical Modeling Annual Journal of Hydraulic Engineering, JSCE 2004; 48: 1237-1242
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Interaction of lateral baroclinic forcing and turbulence in an estuary
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2003; 108 (C3)
View details for DOI 10.1029/2002JC001392
View details for Web of Science ID 000182224300005
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Dynamics of large polymictic lake. I: Field observations
JOURNAL OF HYDRAULIC ENGINEERING-ASCE
2003; 129 (2): 82-91
View details for DOI 10.1061/(ASCE)0733-9429(2003)129:2(82)
View details for Web of Science ID 000180481000001
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The interaction of lateral baroclinic forcing and turbulence in an estuary.
J. Geophys. Res (Oceans)
2003; C3 (108)
View details for DOI 10.1029/2001JC001105
- The internal dynamics of a large polymictic lake. Part I: Field observations. J. Hydraulic Eng. 2003; 2 (129): 82-91
- The interplay between upwelling and deep convective mixing in determining the seasonal phytoplankton dynamics in the Gulf of Aqaba: Evidence from SeaWiFS and MODIS. Limnol. Ocean. 2003; 6 (48): 2355-2368
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Structure and flow-induced variability of the subtidal salinity field in northern San Francisco Bay
JOURNAL OF PHYSICAL OCEANOGRAPHY
2002; 32 (11): 3003-3019
View details for Web of Science ID 000178834000003
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A comment on the use of flushing time, residence time, and age as transport time scales
LIMNOLOGY AND OCEANOGRAPHY
2002; 47 (5): 1545-1553
View details for Web of Science ID 000178081800028
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Numerical simulation of geophysical turbulence
COMPUTERS & FLUIDS
2002; 31 (4-7): 557-568
View details for Web of Science ID 000174525900012
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Tidal asymmetry and variability of bed shear stress and sediment bed flux at a site in San Francisco Bay, USA
FINE SEDIMENT DYNAMICS IN THE MARINE ENVIRONMENT
2002; 5: 93-107
View details for Web of Science ID 000177780800007
- Tidal asymmetry and variability of cohesive sediment transport at a site in San Francisco Bay, California edited by Winterwerp, J., C., Kranenburg, C. 2002
- Intense benthic grazing on phytoplankton in coral reefs revealed using the control volume approach Oceanography 2002; 2 (15): 90-97
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Secondary currents in a curved, stratified, estuarine channel
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2001; 106 (C12): 31283-31302
View details for Web of Science ID 000173402400026
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Creation of residual flows in a partially stratified estuary
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
2001; 106 (C8): 17013-17037
View details for Web of Science ID 000170326000028
- Creation of residual flows in a partially stratified estuary J. Geophys. Res (Oceans) 2001; C4 (106): 17013-17038
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Stably stratified turbulent channel flows. I. Stratification regimes and turbulence suppression mechanism
PHYSICS OF FLUIDS
2000; 12 (10): 2569-2594
View details for Web of Science ID 000089171000019
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Evaluation of advection schemes for estuary transport - Closure
JOURNAL OF HYDRAULIC ENGINEERING-ASCE
2000; 126 (4): 314-316
View details for Web of Science ID 000086104900012
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Plume dispersion in a stratified, near-coastal flow: measurements and modeling
CONTINENTAL SHELF RESEARCH
2000; 20 (6): 637-663
View details for Web of Science ID 000086308000001
- Stably stratified channel flows. I Stratification regimes and turbulence suppression mechanism Phys. Fluids. 2000; 10 (12): 2569-2594
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Three-dimensional salinity simulations of south San Francisco Bay
JOURNAL OF HYDRAULIC ENGINEERING-ASCE
1999; 125 (11): 1199-1209
View details for Web of Science ID 000083311900010
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Observations of turbulence in a partially stratified estuary
JOURNAL OF PHYSICAL OCEANOGRAPHY
1999; 29 (8): 1950-1970
View details for Web of Science ID 000082607500005
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Measurements of Reynolds stress profiles in unstratified tidal flow
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
1999; 104 (C5): 10933-10949
View details for Web of Science ID 000080448200003
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Evaluation of advective schemes for estuarine salinity simulations
JOURNAL OF HYDRAULIC ENGINEERING-ASCE
1999; 125 (1): 32-46
View details for Web of Science ID 000077467800006
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Processes governing phytoplankton blooms in estuaries. II: The role of horizontal transport
MARINE ECOLOGY PROGRESS SERIES
1999; 187: 17-30
View details for Web of Science ID 000083830200002
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Salinity simulations in San Francisco Bay
ENVIRONMENTAL HYDRAULICS
1999: 67-73
View details for Web of Science ID 000078240600009
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Processes governing phytoplankton blooms in estuaries. I: The local production-loss balance
MARINE ECOLOGY PROGRESS SERIES
1999; 187: 1-15
View details for Web of Science ID 000083830200001
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Does the Sverdrup critical depth model explain bloom dynamics in estuaries?
JOURNAL OF MARINE RESEARCH
1998; 56 (2): 375-415
View details for Web of Science ID 000073642800004
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Turbulent mixing in a shear-free stably stratified two-layer fluid
JOURNAL OF FLUID MECHANICS
1998; 354: 175-208
View details for Web of Science ID 000071873700007
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Direct numerical simulation of wave-mean flow and wave-wave interactions: A brief perspective
PHYSICAL PROCESSES IN LAKES IN OCEANS
1998; 54: 271-283
View details for Web of Science ID 000079137400020
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On wavy mean flows, Langmuir cells, strain, and turbulence
PHYSICAL PROCESSES IN LAKES IN OCEANS
1998; 54: 101-110
View details for Web of Science ID 000079137400007
- On wavy mean flows, strain, turbulence and Langmuir cells IUTAM Symposium on Physical Limnology American Geophysical Union. 1998: 101-110
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Hybrid spectral finite difference simulations of stratified turbulent flows on distributed memory architectures
INTERNATIONAL JOURNAL FOR NUMERICAL METHODS IN FLUIDS
1997; 24 (11): 1129-1158
View details for Web of Science ID A1997XB30300004
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Digital particle tracking velocimetry
ENVIRONMENTAL AND COASTAL HYDRAULICS: PROTECTING THE AQUATIC HABITAT, PROCEEDINGS OF THEME B, VOLS 1 & 2
1997; 27: 119-124
View details for Web of Science ID 000081412000021
- Entrainment in a shear-free, stably stratified turbulent mixing layer J. Fluid Mech. 1997; 354: 175-208
- An hybrid digital particle tracking velocimetry technique Experiments in Fluids 1997; 22: 199-211
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A hybrid digital particle tracking velocimetry technique
EXPERIMENTS IN FLUIDS
1997; 22 (3): 199-211
View details for Web of Science ID A1997WE81600003
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Measuring estuarine turbulence with an ADCP
ENVIRONMENTAL AND COASTAL HYDRAULICS: PROTECTING THE AQUATIC HABITAT, PROCEEDINGS OF THEME B, VOLS 1 & 2
1997; 27: 155-160
View details for Web of Science ID 000081412000027
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Stratification and turbulence over a tidal cycle in northern San Francisco Bay
ENVIRONMENTAL AND COASTAL HYDRAULICS: PROTECTING THE AQUATIC HABITAT, PROCEEDINGS OF THEME B, VOLS 1 & 2
1997; 27: 1108-1113
View details for Web of Science ID 000081412000187
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Observations of turbulent mixing and shear in a partially stratified estuary
ENVIRONMENTAL AND COASTAL HYDRAULICS: PROTECTING THE AQUATIC HABITAT, PROCEEDINGS OF THEME B, VOLS 1 & 2
1997; 27: 1102-1107
View details for Web of Science ID 000081412000186
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A simple model of mixing in stratified tidal flows
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
1996; 101 (C12): 28583-28595
View details for Web of Science ID A1996VY90200019
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Environmental hydraulics: New research directions for the 21st century
JOURNAL OF HYDRAULIC ENGINEERING-ASCE
1996; 122 (4): 180-183
View details for Web of Science ID A1996UC58300001
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Entrainment in a shear-free turbulent mixing layer
JOURNAL OF FLUID MECHANICS
1996; 310: 215-241
View details for Web of Science ID A1996UB75400008
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The effects of near-bed hydrodynamics on model bivalve filtration rates
E SCHWEIZERBART'SCHE VERLAGSBUCHHANDLUNG. 1996: 247-254
View details for Web of Science ID A1996BH14Q00023
- Stratification Dynamics and Gravitational Circulation in Northern San Francisco Bay AAAS. 1996: 123-153
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Simulation of stratified turbulent channel flows on the intel paragon parallel supercomputer
ELSEVIER SCIENCE PUBL B V. 1996: 481-488
View details for Web of Science ID A1996BG02Z00059
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LONGITUDINAL VORTICES BENEATH BREAKING WAVES
JOURNAL OF GEOPHYSICAL RESEARCH-OCEANS
1995; 100 (C8): 16211-16221
View details for Web of Science ID A1995RP99900029
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THE EFFECT OF BIVALVE EXCURRENT JET DYNAMICS ON MASS-TRANSFER IN A BENTHIC BOUNDARY-LAYER
LIMNOLOGY AND OCEANOGRAPHY
1995; 40 (2): 330-344
View details for Web of Science ID A1995QZ60800013
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ISOHALINE POSITION AS A HABITAT INDICATOR FOR ESTUARINE POPULATIONS
ECOLOGICAL APPLICATIONS
1995; 5 (1): 272-289
View details for Web of Science ID A1995QK27600027
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IMPLEMENTATION OF SPECTRAL FINITE DIFFERENCE METHOD FOR SIMULATION OF STRATIFIED TURBULENT FLOWS ON DISTRIBUTED MEMORY MULTIPROCESSORS
SIAM. 1995: 149-154
View details for Web of Science ID A1995BC53B00030
- Wave dispersion on a sheared current Applied Ocean Research 1994; 16: 313-315
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A STUDY OF CONCENTRATION BOUNDARY-LAYER FORMATION OVER A BED OF MODEL BIVALVES
LIMNOLOGY AND OCEANOGRAPHY
1993; 38 (8): 1712-1729
View details for Web of Science ID A1993MZ45900010
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COUPLED EFFECTS OF VERTICAL MIXING AND BENTHIC GRAZING ON PHYTOPLANKTON POPULATIONS IN SHALLOW, TURBID ESTUARIES
JOURNAL OF MARINE RESEARCH
1993; 51 (4): 843-868
View details for Web of Science ID A1993MT26300006
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SIMULATION AND STABILITY OF 2-DIMENSIONAL INTERNAL GRAVITY-WAVES IN A STRATIFIED SHEAR-FLOW
ELSEVIER SCIENCE BV. 1993: 325-366
View details for Web of Science ID A1993MT48400013
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AXISYMMETRICAL SELECTIVE WITHDRAWAL IN A ROTATING STRATIFIED FLUID
JOURNAL OF FLUID MECHANICS
1993; 249: 287-305
View details for Web of Science ID A1993KZ44700014
- An experimental study of concentration boundary layer formation over bivalve assemblages Limnology and Oceanography 1993; 8 (38): 1712-1729
- The effects of vertical mixing and benthic grazing on phytoplankton populations in shallow turbid estuaries J. Marine Res. 1993; 4 (51): 1-26
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EXPERIMENTAL-STUDY OF WAVE-INDUCED LONGITUDINAL VORTICES
JOURNAL OF HYDRAULIC ENGINEERING-ASCE
1991; 117 (12): 1639-1649
View details for Web of Science ID A1991GQ58900006
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CONVECTIVE MOTIONS IN THE SIDEARM OF A SMALL RESERVOIR
LIMNOLOGY AND OCEANOGRAPHY
1990; 35 (8): 1676-1702
View details for Web of Science ID A1990FE65500002
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A STUDY OF MODEL BIVALVE SIPHONAL CURRENTS
LIMNOLOGY AND OCEANOGRAPHY
1990; 35 (3): 680-696
View details for Web of Science ID A1990DW93500010
- Horizontal convection in the sidearm of a small reservoir Limnology and Oceanography 1990; 35: 1676-1702
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SELECTIVE WITHDRAWAL AND SPIN-UP OF A ROTATING STRATIFIED FLUID
JOURNAL OF FLUID MECHANICS
1989; 199: 377-401
View details for Web of Science ID A1989T505800015
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SHEAR-WAVES AND UNSTEADY SELECTIVE WITHDRAWAL
JOURNAL OF HYDRAULIC ENGINEERING-ASCE
1988; 114 (9): 1134-1152
View details for Web of Science ID A1988P922100010
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DIFFERENTIAL MIXING IN A STRATIFIED FLUID
JOURNAL OF FLUID MECHANICS
1988; 189: 571-598
View details for Web of Science ID A1988N250000027
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MODAL RESPONSE OF RESERVOIRS TO WIND STRESS
JOURNAL OF HYDRAULIC ENGINEERING-ASCE
1987; 113 (10): 1290-1306
View details for Web of Science ID A1987K120500005
- The modal response of reservoirs to wind stress J. Hydr. Div. ASCE 1987; HY10 (110): 1290-1326
- An experimental study of the upwelling response of stratified reservoirs to shear stress Journal of Fluid Mechanics 1986; 171: 407-439
- Wind forced motions in stratified lakes and their effects on mixed-layer shear Limnology and Oceanography 1985; 30 (4): 771-783