@article{yamani_etal_2023,

title = {Spatiotemporal signatures of elastoinertial turbulence in viscoelastic planar jets},

author = {Sami Yamani and Yashasvi Raj and Tamer A. Zaki and Gareth H. McKinley and Irmgard Bischofberger},

url = {https://link.aps.org/doi/10.1103/PhysRevFluids.8.064610},

doi = {10.1103/PhysRevFluids.8.064610},

year  = {2023},

date = {2023-06-01},

journal = {Phys. Rev. Fluids},

volume = {8},

issue = {6},

pages = {064610},

publisher = {American Physical Society},

keywords = {Jet, Polymer, Viscoelastic},

pubstate = {published},

tppubtype = {article}

}

@article{du_etal_2023,

title = {State estimation in minimal turbulent channel flow: A comparative study of 4DVar and PINN},

author = {Yifan Du and Mengze Wang and Tamer A. Zaki},

url = {https://www.sciencedirect.com/science/article/pii/S0142727X22001412},

doi = {https://doi.org/10.1016/j.ijheatfluidflow.2022.109073},

issn = {0142-727X},

year  = {2023},

date = {2023-01-01},

journal = {International Journal of Heat and Fluid Flow},

volume = {99},

pages = {109073},

abstract = {The state of turbulent, minimal-channel flow is estimated from spatio-temporal sparse observations of the velocity, using both a physics-informed neural network (PINN) and adjoint-variational data assimilation (4DVar). The performance of PINN is assessed against the benchmark results from 4DVar. The PINN is efficient to implement, takes advantage of automatic differentiation to evaluate the governing equations, and does not require the development of an adjoint model. In addition, the flow evolution is expressed in terms of the network parameters which have a far smaller dimension than the predicted trajectory in state space or even just the initial condition of the flow. Provided adequate observations, network architecture and training, the PINN can yield satisfactory estimates of the flow field, both for the missing velocity data and the entirely unobserved pressure field. However, accuracy depends on the network architecture, and the dependence is not known a priori. In comparison to 4DVar estimation which becomes progressively more accurate over the observation horizon, the PINN predictions are generally less accurate and maintain the same level of errors throughout the assimilation time window. Another notable distinction is the capacity to accurately forecast the flow evolution: while the 4DVar prediction depart from the true flow state gradually and according to the Lyapunov exponent, the PINN is entirely inaccurate immediately beyond the training time horizon unless re-trained. Most importantly, while 4DVar satisfies the discrete form of the governing equations point-wise to machine precision, in PINN the equations are only satisfied in an L2 sense.},

keywords = {4DVar, Adjoint variational method, Data assimilation, Physics informed neural networks, PINN, State estimation, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{clarkdileoni_etal_2023,

title = {Neural operator prediction of linear instability waves in high-speed boundary layers},

author = {Patricio Clark Di Leoni and Lu Lu and Charles Meneveau and George Em Karniadakis and Tamer A. Zaki},

url = {https://www.sciencedirect.com/science/article/pii/S0021999122008567},

doi = {https://doi.org/10.1016/j.jcp.2022.111793},

issn = {0021-9991},

year  = {2023},

date = {2023-01-01},

journal = {Journal of Computational Physics},

volume = {474},

pages = {111793},

abstract = {We investigate if neural operators can predict the linear evolution of instability waves in high-speed boundary layers. To this end, we extend the design of the DeepOnet to ensure accurate and robust predictions, and also to perform data assimilation. In particular, we train DeepONet to take as inputs an upstream disturbance and a downstream location of interest, and to provide as output the perturbation field downstream in the boundary layer. DeepONet thus approximates the linearized and parabolized Navier-Stokes operator for this flow. For successful application to the high-speed boundary layer problem, we add sample weighting and Fourier input features to the regular DeepONet formulation. Once trained, the DeepOnet can perform fast and accurate predictions of the downstream disturbances within the range of training frequencies (inside the distribution). In addition, we show that DeepONet can solve the inverse problem, where downstream wall measurements are adopted as input, and a trained network can predict the upstream disturbances that led to these observations. This capability, along with the forward predictions, allows us to perform a full data assimilation cycle efficiently: starting from wall-pressure data, we predict the upstream disturbance using the inverse DeepONet and its evolution using the forward DeepONet. Finally, we introduce three new metrics to benchmark the training, evaluation and break-even cost of neural operators.},

keywords = {Deep operator networks, DeepONet, High-speed boundary layers, Instability waves, Machine Learning, Neural operators},

pubstate = {published},

tppubtype = {article}

}

@article{cheung_zaki_2023,

title = {An eigen-representation of the Navier–Stokes equations},

author = {Lawrence C. Cheung and Tamer A. Zaki},

url = {https://www.sciencedirect.com/science/article/pii/S0377042722005192},

doi = {https://doi.org/10.1016/j.cam.2022.114921},

issn = {0377-0427},

year  = {2023},

date = {2023-01-01},

journal = {Journal of Computational and Applied Mathematics},

volume = {423},

pages = {114921},

abstract = {In this paper we demonstrate that the incompressible Navier–Stokes equations can be formulated as a system of quadratic polynomial equations with a regular, tractable structure. This is first shown to be possible by using the combination matrix of Cheung and Zaki (2014) on the time-harmonic Navier–Stokes with periodic boundaries. We also show that the initial value problem can be rewritten in a similar fashion using the Laguerre polynomial basis and the appropriate version of the combination matrix. The solution to both these formulations, when using a finite number of terms in the series expansion, can be found through the null space of the Macaulay matrix and leads to an eigenvalue problem. We also provide two examples which illustrate the methods discussed in this work. The approach is demonstrated on a nonlinear, univariate model differential equation, and also on the two dimensional Taylor Green vortex problem.},

keywords = {Algebraic geometry, Eigenvalue problem, Navier–Stokes},

pubstate = {published},

tppubtype = {article}

}

@article{jahanbakhshi_zaki_2023,

title = {Optimal two-dimensional roughness for transition delay in high-speed boundary layer},

author = {Reza Jahanbakhshi and Tamer A. Zaki},

doi = {10.1017/jfm.2023.523},

year  = {2023},

date = {2023-01-01},

journal = {Journal of Fluid Mechanics},

volume = {968},

pages = {A24},

keywords = {Boundary layers, High-speed boundary layers, Hypersonic, Roughness, Stability, Transition},

pubstate = {published},

tppubtype = {article}

}

@article{page_zaki_2022,

title = {Vorticity amplification in wavy viscoelastic channel flow},

author = {Jacob Page and Tamer A. Zaki},

doi = {10.1017/jfm.2022.757},

year  = {2022},

date = {2022-01-01},

journal = {Journal of Fluid Mechanics},

volume = {949},

pages = {A14},

publisher = {Cambridge University Press},

keywords = {Channel, Polymer, Roughness, Stability, Viscoelastic, Wavy},

pubstate = {published},

tppubtype = {article}

}

@article{wang_Hesisan_jfm2022,

title = {What is observable from wall data in turbulent channel flow?},

author = {Qi Wang and Mengze Wang and Tamer A. Zaki},

doi = {10.1017/jfm.2022.295},

year  = {2022},

date = {2022-01-01},

journal = {Journal of Fluid Mechanics},

volume = {941},

pages = {A48},

publisher = {Cambridge University Press},

keywords = {Channel, Data assimilation, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{wang_Synch_jfm2022,

title = {Synchronization of turbulence in channel flow},

author = {Mengze Wang and Tamer A. Zaki},

doi = {10.1017/jfm.2022.397},

year  = {2022},

date = {2022-01-01},

journal = {Journal of Fluid Mechanics},

volume = {943},

pages = {A4},

publisher = {Cambridge University Press},

keywords = {Channel, Data assimilation, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{esteghamatian_jfm2022,

title = {Spatiotemporal characterization of turbulent channel flow with a hyperelastic compliant wall},

author = {Amir Esteghamatian and Joseph Katz and Tamer A. Zaki},

doi = {10.1017/jfm.2022.354},

year  = {2022},

date = {2022-01-01},

journal = {Journal of Fluid Mechanics},

volume = {942},

pages = {A35},

publisher = {Cambridge University Press},

keywords = {Channel, Compliant walls, Turbulence, Viscoelastic},

pubstate = {published},

tppubtype = {article}

}

@article{wang_Stochastic_jfm2022,

title = {Origin of enhanced skin friction at the onset of boundary-layer transition},

author = {Mengze Wang and Gregory L. Eyink and Tamer A. Zaki},

doi = {10.1017/jfm.2022.296},

year  = {2022},

date = {2022-01-01},

journal = {Journal of Fluid Mechanics},

volume = {941},

pages = {A32},

publisher = {Cambridge University Press},

keywords = {Channel, Data assimilation, Drag, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{buchta_jfm2022,

title = {Assimilation of wall-pressure measurements in high-speed flow over a cone},

author = {David A. Buchta and Stuart J. Laurence and Tamer A. Zaki},

doi = {10.1017/jfm.2022.668},

year  = {2022},

date = {2022-01-01},

journal = {Journal of Fluid Mechanics},

volume = {947},

pages = {R2},

publisher = {Cambridge University Press},

keywords = {Boundary layers, Data assimilation, Hypersonic, Stability, Transition},

pubstate = {published},

tppubtype = {article}

}

@article{fowler_jfm2022,

title = {A Lagrangian relaxation towards equilibrium wall model for large eddy simulation},

author = {Mitchell Fowler and Tamer A. Zaki and Charles Meneveau},

doi = {10.1017/jfm.2021.1156},

year  = {2022},

date = {2022-01-01},

journal = {Journal of Fluid Mechanics},

volume = {934},

pages = {A44},

publisher = {Cambridge University Press},

keywords = {Channel, LES, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{zaki_prf2021,

title = {From limited observations to the state of turbulence: Fundamental difficulties of flow reconstruction},

author = {Tamer A. Zaki and Mengze Wang},

url = {https://link.aps.org/doi/10.1103/PhysRevFluids.6.100501},

doi = {10.1103/PhysRevFluids.6.100501},

year  = {2021},

date = {2021-10-01},

journal = {Phys. Rev. Fluids},

volume = {6},

issue = {10},

pages = {100501},

publisher = {American Physical Society},

keywords = {Data assimilation, Ensemble Variational Methods, EnVar, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{Du_pre2021,

title = {Evolutional deep neural network},

author = {Yifan Du and Tamer A. Zaki},

url = {https://link.aps.org/doi/10.1103/PhysRevE.104.045303},

doi = {10.1103/PhysRevE.104.045303},

year  = {2021},

date = {2021-10-01},

journal = {Phys. Rev. E},

volume = {104},

issue = {4},

pages = {045303},

publisher = {American Physical Society},

keywords = {Deep learning, Machine Learning, Neural Networks},

pubstate = {published},

tppubtype = {article}

}

@article{mons_prf2021,

title = {Ensemble-variational assimilation of statistical data in large-eddy simulation},

author = {Vincent Mons and Yifan Du and Tamer A. Zaki},

url = {https://link.aps.org/doi/10.1103/PhysRevFluids.6.104607},

doi = {10.1103/PhysRevFluids.6.104607},

year  = {2021},

date = {2021-10-01},

journal = {Phys. Rev. Fluids},

volume = {6},

issue = {10},

pages = {104607},

publisher = {American Physical Society},

keywords = {Channel, Data assimilation, Ensemble Variational Methods, EnVar, LES, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{sami_prl2021,

title = {Spectral Universality of Elastoinertial Turbulence},

author = {Sami Yamani and Bavand Keshavarz and Yashasvi Raj and Tamer A. Zaki and Gareth H. McKinley and Irmgard Bischofberger},

url = {https://link.aps.org/doi/10.1103/PhysRevLett.127.074501},

doi = {10.1103/PhysRevLett.127.074501},

year  = {2021},

date = {2021-08-01},

journal = {Phys. Rev. Lett.},

volume = {127},

issue = {7},

pages = {074501},

publisher = {American Physical Society},

keywords = {Jet, Polymer, Viscoelastic},

pubstate = {published},

tppubtype = {article}

}

@article{ghanash_prf2021,

title = {Large eddy simulation of transitional channel flow using a machine learning classifier to distinguish laminar and turbulent regions},

author = {Ghanesh Narasimhan and Charles Meneveau and Tamer A. Zaki},

url = {https://link.aps.org/doi/10.1103/PhysRevFluids.6.074608},

doi = {10.1103/PhysRevFluids.6.074608},

year  = {2021},

date = {2021-07-01},

journal = {Phys. Rev. Fluids},

volume = {6},

issue = {7},

pages = {074608},

publisher = {American Physical Society},

keywords = {Channel, LES, Transition},

pubstate = {published},

tppubtype = {article}

}

@article{clark_di_leoni_jfm2021,

title = {Two-point stress--strain-rate correlation structure and non-local eddy viscosity in turbulent flows},

author = {Patricio Clark Di Leoni and Tamer A. Zaki and George Karniadakis and Charles Meneveau},

doi = {10.1017/jfm.2020.977},

year  = {2021},

date = {2021-01-01},

journal = {Journal of Fluid Mechanics},

volume = {914},

pages = {A6},

publisher = {Cambridge University Press},

keywords = {LES, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{esteghamatian_jfm2021,

title = {The dynamics of settling particles in vertical channel flows: gravity, lift and particle clusters},

author = {Amir Esteghamatian and Tamer A. Zaki},

doi = {10.1017/jfm.2021.304},

year  = {2021},

date = {2021-01-01},

journal = {Journal of Fluid Mechanics},

volume = {918},

pages = {A33},

publisher = {Cambridge University Press},

keywords = {Channel, Particles, Turbulence, Viscoelastic},

pubstate = {published},

tppubtype = {article}

}

@article{wang_jfm2021,

title = {State estimation in turbulent channel flow from limited observations},

author = {Mengze Wang and Tamer A. Zaki},

doi = {10.1017/jfm.2021.268},

year  = {2021},

date = {2021-01-01},

journal = {Journal of Fluid Mechanics},

volume = {917},

pages = {A9},

publisher = {Cambridge University Press},

keywords = {Adjoint, Channel, Data assimilation, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{jahanbakhshi_jfm2021,

title = {Optimal heat flux for delaying transition to turbulence in a high-speed boundary layer},

author = {Reza Jahanbakhshi and Tamer A. Zaki},

doi = {10.1017/jfm.2021.210},

year  = {2021},

date = {2021-01-01},

journal = {Journal of Fluid Mechanics},

volume = {916},

pages = {A46},

publisher = {Cambridge University Press},

keywords = {Hypersonic, Roughness, Transition},

pubstate = {published},

tppubtype = {article}

}

@article{buchta_jfm2021,

title = {Observation-infused simulations of high-speed boundary-layer transition},

author = {David A. Buchta and Tamer A. Zaki},

doi = {10.1017/jfm.2021.172},

year  = {2021},

date = {2021-01-01},

journal = {Journal of Fluid Mechanics},

volume = {916},

pages = {A44},

publisher = {Cambridge University Press},

keywords = {Data assimilation, Ensemble Variational Methods, EnVar, Hypersonic},

pubstate = {published},

tppubtype = {article}

}

@article{cai_jcp2021,

title = {DeepM&Mnet: Inferring the electroconvection multiphysics fields based on operator approximation by neural networks},

author = {Shengze Cai and Zhicheng Wang and Lu Lu and Tamer A. Zaki and George Em Karniadakis},

url = {https://www.sciencedirect.com/science/article/pii/S0021999121001911},

doi = {https://doi.org/10.1016/j.jcp.2021.110296},

issn = {0021-9991},

year  = {2021},

date = {2021-01-01},

journal = {Journal of Computational Physics},

volume = {436},

pages = {110296},

keywords = {Data assimilation, Deep learning, DeepONet, Multiscale modeling, Mutiphysics, Operator approximation},

pubstate = {published},

tppubtype = {article}

}

@article{mao_jcp2021,

title = {DeepM&Mnet for hypersonics: Predicting the coupled flow and finite-rate chemistry behind a normal shock using neural-network approximation of operators},

author = {Zhiping Mao and Lu Lu and Olaf Marxen and Tamer A. Zaki and George Em Karniadakis},

url = {https://www.sciencedirect.com/science/article/pii/S0021999121005933},

doi = {https://doi.org/10.1016/j.jcp.2021.110698},

issn = {0021-9991},

year  = {2021},

date = {2021-01-01},

journal = {Journal of Computational Physics},

volume = {447},

pages = {110698},

keywords = {Chemically reacting flow, Data assimilation, Deep learning, DeepONet, Hypersonic, Operator approximation},

pubstate = {published},

tppubtype = {article}

}

@article{you_jfm2021,

title = {Concave-wall turbulent boundary layers without and with free-stream turbulence},

author = {Jiho You and David A. Buchta and Tamer A. Zaki},

doi = {10.1017/jfm.2021.12},

year  = {2021},

date = {2021-01-01},

journal = {Journal of Fluid Mechanics},

volume = {915},

pages = {A4},

publisher = {Cambridge University Press},

keywords = {Boundary layers, Curvature, Freestream Turbulence, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{wu_prf2020,

title = {Data compression for turbulence databases using spatiotemporal subsampling and local resimulation},

author = {Zhao Wu and Tamer A Zaki and Charles Meneveau},

url = {https://link.aps.org/doi/10.1103/PhysRevFluids.5.064607},

doi = {10.1103/PhysRevFluids.5.064607},

year  = {2020},

date = {2020-06-01},

journal = {Phys. Rev. Fluids},

volume = {5},

pages = {064607},

publisher = {American Physical Society},

keywords = {Data assimilation},

pubstate = {published},

tppubtype = {article}

}

@article{eyink_gupta_zaki_2020b,

title = {Stochastic Lagrangian dynamics of vorticity. Part 2. Application to near-wall channel-flow turbulence},

author = {Gregory L Eyink and Akshat Gupta and Tamer A Zaki},

doi = {10.1017/jfm.2020.492},

year  = {2020},

date = {2020-01-01},

journal = {Journal of Fluid Mechanics},

volume = {901},

pages = {A3},

publisher = {Cambridge University Press},

keywords = {Channel, Drag, Navier-Stokes, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{esteghamatian_zaki_2020,

title = {Viscoelasticity and the dynamics of concentrated particle suspension in channel flow},

author = {Amir Esteghamatian and Tamer A Zaki},

doi = {10.1017/jfm.2020.525},

year  = {2020},

date = {2020-01-01},

journal = {Journal of Fluid Mechanics},

volume = {901},

pages = {A25},

publisher = {Cambridge University Press},

keywords = {Channel, Drag, Particles, Polymer, Viscoelastic},

pubstate = {published},

tppubtype = {article}

}

@article{eyink_gupta_zaki_2020,

title = {Stochastic Lagrangian dynamics of vorticity. Part 1. General theory for viscous, incompressible fluids},

author = {Gregory L Eyink and Akshat Gupta and Tamer A Zaki},

doi = {10.1017/jfm.2020.491},

year  = {2020},

date = {2020-01-01},

journal = {Journal of Fluid Mechanics},

volume = {901},

pages = {A2},

publisher = {Cambridge University Press},

keywords = {Channel, Drag, Navier-Stokes, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{Wu3461,

title = {High-Reynolds-number fractal signature of nascent turbulence during transition},

author = {Zhao Wu and Tamer A Zaki and Charles Meneveau},

url = {https://www.pnas.org/content/117/7/3461},

doi = {10.1073/pnas.1916636117},

issn = {0027-8424},

year  = {2020},

date = {2020-01-01},

journal = {Proceedings of the National Academy of Sciences},

volume = {117},

number = {7},

pages = {3461--3468},

publisher = {National Academy of Sciences},

keywords = {Bypass, Conditional Sampling, Freestream Turbulence, Machine Learning, Spots, T/NT interface, Transition, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{you_ftc2020,

title = {Turbulent Heat-Transfer Enhancement in Boundary Layers Exposed to Free-Stream Turbulence},

author = {Jiho You and Tamer A Zaki},

url = {https://doi.org/10.1007/s10494-019-00071-7},

doi = {10.1007/s10494-019-00071-7},

isbn = {1573-1987},

year  = {2020},

date = {2020-01-01},

journal = {Flow, Turbulence and Combustion},

abstract = {Direct numerical simulations (DNS) are performed to study the effect of free-stream vortical forcing on a thermal turbulent boundary layer. In presence of external perturbations, the heat-transfer rate from the wall is increased relative to the unforced case. An explanation is provided, and starts from the free-stream forcing which enhances the Reynolds stresses inside the boundary layer, and in particular the wall-normal component. As a result, the wall-normal heat flux is also increased, which has the dual effect of distorting the base temperature profile and enhancing the production of scalar variance; both contribute to the increase in the wall heat-transfer rate. In addition, the flow sustains higher thermal fluctuations, even though the free-stream forcing is only vortical, and not thermal. These changes are accompanied by modification of the spectra of the thermal field in the outer region of the boundary layer, where large-scale thermal structures are formed in response to the large-scale velocity motions. In the near-wall region, the thermal structures are modulated by the outer hydrodynamic field and are strengthened relative to the unforced flow.},

keywords = {Scalar, T/NT interface, Turbulence, Very-large-scale Motion},

pubstate = {published},

tppubtype = {article}

}

@article{park_jfm2019,

title = {Sensitivity of high-speed boundary-layer stability to base-flow distortion},

author = {J Park and T A Zaki},

url = {https://engineering.jhu.edu/zaki/wp-content/uploads/2018/12/Park_JFM_2019.pdf},

year  = {2019},

date = {2019-01-01},

journal = {Journal of Fluid Mechanics},

volume = {859},

pages = {476-515},

keywords = {Adjoint, Hypersonic, Instability, Sensitivity, Stability, Transition},

pubstate = {published},

tppubtype = {article}

}

@article{mons_jcp2019,

title = {Kriging-enhanced ensemble variational data assimilation for scalar-source identification in turbulent environments},

author = {Vincent Mons and Qi Wang and Tamer A Zaki},

url = {http://www.sciencedirect.com/science/article/pii/S0021999119305406},

doi = {https://doi.org/10.1016/j.jcp.2019.07.054},

issn = {0021-9991},

year  = {2019},

date = {2019-01-01},

journal = {Journal of Computational Physics},

volume = {398},

pages = {108856},

abstract = {Various ensemble-based variational (EnVar) data assimilation (DA) techniques are developed to reconstruct the spatial distribution of a scalar source in a turbulent channel flow resolved by direct numerical simulation (DNS). In order to decrease the computational cost of the DA procedure and improve its performance, Kriging-based interpolation is combined with EnVar DA, which enables the consideration of relatively large ensembles with moderate computational resources. The performance of the proposed Kriging-EnVar (KEnVar) DA scheme is assessed and favorably compared to that of standard EnVar and adjoint-based variational DA in various scenarios. Sparse regularization is implemented in the framework of EnVar DA in order to better tackle the case of concentrated scalar emissions. The problem of optimal sensor placement is also addressed, and it is shown that significant improvement in the quality of the reconstructed source can be obtained without supplementary computational cost once the ensemble required by the DA procedure is formed.},

keywords = {Channel, Data assimilation, Optimization, Scalar dispersion, Sensor placement, Source identification, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{wu_prf2019,

title = {Application of a self-organizing map to identify the turbulent-boundary-layer interface in a transitional flow},

author = {Zhao Wu and Jin Lee and Charles Meneveau and Tamer Zaki},

url = {https://link.aps.org/doi/10.1103/PhysRevFluids.4.023902},

doi = {10.1103/PhysRevFluids.4.023902},

year  = {2019},

date = {2019-01-01},

journal = {Phys. Rev. Fluids},

volume = {4},

pages = {023902},

publisher = {American Physical Society},

keywords = {Bypass, Machine Learning, Spots, T/NT interface, Transition, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{hameduddin_jfm2019b,

title = {The mean conformation tensor in viscoelastic turbulence},

author = {Ismail Hameduddin and Tamer A Zaki},

doi = {10.1017/jfm.2019.46},

year  = {2019},

date = {2019-01-01},

journal = {Journal of Fluid Mechanics},

volume = {865},

pages = {363--380},

publisher = {Cambridge University Press},

keywords = {Channel, Polymer, Shear, Viscoelastic},

pubstate = {published},

tppubtype = {article}

}

@article{wangB_jfm2019,

title = {Low-frequency selectivity in flat-plate boundary layer with elliptic leading edge},

author = {Bofu Wang and Xuerui Mao and Tamer A Zaki},

doi = {10.1017/jfm.2019.91},

year  = {2019},

date = {2019-01-01},

journal = {Journal of Fluid Mechanics},

volume = {866},

pages = {239--262},

publisher = {Cambridge University Press},

keywords = {Adjoint, Bypass, Optimization, Streaks, Transition},

pubstate = {published},

tppubtype = {article}

}

@article{you_jfm2019,

title = {Conditional statistics and flow structures in turbulent boundary layers buffeted by free-stream disturbances},

author = {Jiho You and Tamer A Zaki},

doi = {10.1017/jfm.2019.104},

year  = {2019},

date = {2019-01-01},

journal = {Journal of Fluid Mechanics},

volume = {866},

pages = {526--566},

publisher = {Cambridge University Press},

keywords = {T/NT interface, Turbulence, Very-large-scale Motion},

pubstate = {published},

tppubtype = {article}

}

@article{wang_jfm2019,

title = {Spatial reconstruction of steady scalar sources from remote measurements in turbulent flow},

author = {Qi Wang and Yosuke Hasegawa and Tamer A Zaki},

doi = {10.1017/jfm.2019.241},

year  = {2019},

date = {2019-01-01},

journal = {Journal of Fluid Mechanics},

volume = {870},

pages = {316--352},

publisher = {Cambridge University Press},

keywords = {Adjoint, Channel, Optimization, Scalar, Scalar dispersion},

pubstate = {published},

tppubtype = {article}

}

@article{esteghamatian_jfm2019,

title = {Dilute suspension of neutrally buoyant particles in viscoelastic turbulent channel flow},

author = {Amir Esteghamatian and Tamer A Zaki},

doi = {10.1017/jfm.2019.483},

year  = {2019},

date = {2019-01-01},

journal = {Journal of Fluid Mechanics},

volume = {875},

pages = {286--320},

publisher = {Cambridge University Press},

keywords = {Channel, Drag, Particles, Polymer, Viscoelastic},

pubstate = {published},

tppubtype = {article}

}

@article{jahanbakhshi_jfm2019,

title = {Nonlinearly most dangerous disturbance for high-speed boundary-layer transition},

author = {Reza Jahanbakhshi and Tamer A Zaki},

doi = {10.1017/jfm.2019.527},

year  = {2019},

date = {2019-01-01},

journal = {Journal of Fluid Mechanics},

volume = {876},

pages = {87--121},

publisher = {Cambridge University Press},

keywords = {Hypersonic, Optimization, Transition},

pubstate = {published},

tppubtype = {article}

}

@article{Wang_jcp2019,

title = {Discrete adjoint of fractional-step incompressible Navier-Stokes solver in curvilinear coordinates and application to data assimilation},

author = {Mengze Wang and Qi Wang and Tamer A Zaki},

url = {http://www.sciencedirect.com/science/article/pii/S0021999119304735},

doi = {https://doi.org/10.1016/j.jcp.2019.06.065},

issn = {0021-9991},

year  = {2019},

date = {2019-01-01},

journal = {Journal of Computational Physics},

volume = {396},

pages = {427 - 450},

abstract = {The discrete adjoint of an incompressible Navier-Stokes algorithm in generalized coordinates is derived and applied to estimate the states of saturated and turbulent circular Couette flows. The forward Navier-Stokes model is based on the fractional-step algorithm in curvilinear coordinates on a structured grid [1], which has been widely adopted in direct numerical simulations of transitional and turbulent flows. The discrete adjoint equations adopt the same stencil and temporal scheme as the forward discretization, and expressions are derived that relate the discrete adjoint variables to their continuous counterpart. The key ingredients of the forward algorithm can be retained in the adjoint, including the computation of the cell geometry, the approximate factorization method, and the parallelization strategy. The accuracy, efficiency, and stability of the adjoint solver are also commensurate with the forward model. In addition, a novel symmetric projector is proposed to guarantee that the outcome of the adjoint algorithm is divergence free. The implementation of the algorithm in double precision satisfies the forward-adjoint relation up to eight significant figures, and further validation is performed using circular Couette flow. The forward and adjoint growth rates of instability modes from linear theory are accurately reproduced. In addition, an adjoint-variational data-assimilation algorithm (4DVar) is adopted to reconstruct the initial condition of circular Couette flows from limited measurements, obtained from an independent simulation. When the flow is comprised of saturated wavy vortices, wall measurements are sufficient to reconstruct an initial condition that latches onto the target state after a short time. For the more challenging turbulent case, coarse-grained velocity data are used to estimate the initial condition.},

keywords = {Data assimilation, Discrete adjoint, Fraction-step algorithm, Generalized coordinates, Navier-Stokes, Taylor-Couette flow},

pubstate = {published},

tppubtype = {article}

}

@article{hameduddin_jfm2019,

title = {Perturbative expansions of the conformation tensor in viscoelastic flows},

author = {I Hameduddin and D Gayme and T A Zaki},

url = {https://engineering.jhu.edu/zaki/wp-content/uploads/2018/12/Hameduddin_JFM_2019.pdf},

year  = {2019},

date = {2019-01-01},

journal = {Journal of Fluid Mechanics},

volume = {858},

pages = {377-406},

keywords = {Channel, Polymer, Shear, Viscoelastic},

pubstate = {published},

tppubtype = {article}

}

@article{marxen_jfm2019,

title = {Turbulence in intermittent transitional boundary layers and in turbulence spots},

author = {O Marxen and T A Zaki},

url = {https://engineering.jhu.edu/zaki/wp-content/uploads/2018/12/Marxen_JFM_2019.pdf},

year  = {2019},

date = {2019-01-01},

journal = {Journal of Fluid Mechanics},

volume = {860},

pages = {350-383},

keywords = {Bypass, Conditional Sampling, Freestream Turbulence, Klebanoff, Streaks, Transition},

pubstate = {published},

tppubtype = {article}

}

@article{haward_pof2018,

title = {``Phase diagram'' for viscoelastic Poiseuille flow over a wavy surface},

author = {S J Haward and J Page and T A Zaki and A Q Shen},

url = {https://engineering.jhu.edu/zaki/wp-content/uploads/2018/12/Haward_PoF_2018.pdf},

year  = {2018},

date = {2018-01-01},

journal = {Physics of Fluids},

volume = {30},

number = {11},

pages = {113101},

keywords = {Channel, Polymer, Shear, Viscoelastic},

pubstate = {published},

tppubtype = {article}

}

@article{ismail_ijhff2018,

title = {The effect of cube-roughened walls on the response of rough-to-smooth (RTS) turbulent channel flows},

author = {U Ismail and T A Zaki and P A Durbin},

url = {https://engineering.jhu.edu/zaki/wp-content/uploads/2018/12/Ismail_IJHFF_2018.pdf},

year  = {2018},

date = {2018-01-01},

journal = {International Journal of Heat and Fluid Flow},

volume = {72},

pages = {174-185},

keywords = {Channel, Roughness, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{ismail_jfm2018,

title = {Simulations of rib-roughened rough-to-smooth turbulent channel flows},

author = {U Ismail and T A Zaki and P A Durbin},

url = {https://engineering.jhu.edu/zaki/wp-content/uploads/2018/12/Ismail_JFM_2018.pdf},

year  = {2018},

date = {2018-01-01},

journal = {Journal of Fluid Mechanics},

volume = {843},

pages = {419-449},

keywords = {Channel, Roughness, Turbulence},

pubstate = {published},

tppubtype = {article}

}

@article{hameduddin_arxiv2018,

title = {Scaling of energy amplification in viscoelastic channel and Couette flow},

author = {I Hameduddin and T A Zaki and D Gayme},

year  = {2018},

date = {2018-01-01},

journal = {arXiv},

volume = {1803.06880},

keywords = {Channel, Polymer, Shear, Viscoelastic},

pubstate = {published},

tppubtype = {article}

}

@article{haward_note2018,

title = {Publisher's Note: Poiseuille flow over a wavy surface [Phys. Rev. Fluids 2, 124102 (2017)]},

author = {S J Haward and J Page and T A Zaki and A Q Shen},

doi = {https://doi.org/10.1103/PhysRevFluids.3.019901},

year  = {2018},

date = {2018-01-01},

journal = {Physical Review fluids},

volume = {3},

number = {1},

pages = {019901},

keywords = {Channel, Polymer, Shear, Viscoelastic},

pubstate = {published},

tppubtype = {article}

}

@article{bose_prf2018,

title = {Instability waves and transition in adverse-pressure-gradient boundary layers},

author = {R Bose and T A Zaki and P A Durbin},

doi = {https://doi.org/10.1103/PhysRevFluids.3.053904},

year  = {2018},

date = {2018-01-01},

journal = {Physical Review fluids},

volume = {3},

number = {5},

pages = {053904},

keywords = {Bypass, Instability, Klebanoff, Shear, Streaks, Tollmien-Schichting, Transition},

pubstate = {published},

tppubtype = {article}

}

@article{lee_cf2018,

title = {Detection algorithm for turbulent interfaces and large-scale structures in intermittent flows},

author = {J Lee and T A Zaki},

url = {https://engineering.jhu.edu/zaki/wp-content/uploads/2018/12/Lee_CF_2018.pdf},

year  = {2018},

date = {2018-01-01},

journal = {Computers and Fluids},

volume = {175},

pages = {142-158},

keywords = {Bypass, Conditional Sampling, Freestream Turbulence, Klebanoff, Streaks, Transition},

pubstate = {published},

tppubtype = {article}

}