It got to be too much to maintain a list of current publications, so I stopped. NCAR/UCAR maintains an online database, simply use it and search for "ensemble data assimilation". Many, if not most, are related to DART.


Hacker, J. and W. Angevine, 2013
Ensemble data assimilation to characterize surface-layer errors in numerical weather prediction models.
Mon. Wea. Rev. doi:10.1175/MWR-D-12-00280.1

Rostkier-Edelstein, D., and J. Hacker, 2013
Impact of flow-dependence, column covariance, and forecast-model type on surface-observations assimilation for probabilistic PBL-profiles nowcasts.
Wea. Forecasting. doi:10.1175/WAF-D-12-00043.1

Raeder, K and Anderson, Jeffrey L. and Collins, Nancy and Hoar, Timothy J. and Kay, Jennifer E. and Lauritzen, Peter H. and Pincus, Robert, 2012
DART/CAM: An Ensemble Data Assimilation for CESM Atmospheric Models
Journal of Climate, 25 6304-6317 doi:10.1175/JCLI-D-11-00395.1


Pendergrass, Angeline G. and Hakim, Gregory J. and Battisti, David S. and Roe, Gerard, 2011
Coupled air-mixed-layer temperature predictability for climate reconstruction.
Journal of Climate, to appear  doi:10.1175/2011JCLI4094.1

Matsuo, T., E. A. Araujo-Pradere, 2011
Role of thermosphere-ionosphere coupling in a global ionospheric specification.
Radio Science, 46, RS0D23, 7pp.  doi:10.1029/2010RS004576

C. Lee, W. G. Lawson, M. I. Richardson, J. L. Anderson, N. Collins, T. Hoar, and M. Mischna, 2011
Demonstration of ensemble data assimilation for Mars using DART, MarsWRF, and radiance observations from MGS TES
Journal of Geophysical Research, 116, E11011, 17 pp.  doi:10.1029/2011JE003815

Otkin, J. A., 2011
Assessing the impact of the covariance localization radius when assimilating infrared brightness temperature observations using an ensemble Kalman filter.
Monthly Weather Review, (early online release) doi:10.1175/MWR-D-11-00084.1

Otkin, J. A., Hartung, D. C., D. D. Turner, R. Peterson, W. F. Feltz, and Erik Janzon, 2011
Assimilation of surface-based boundary layer profiler observations during a cool season weather event using an Observation System Simulation Experiment. Part 1: Analysis impact.
Monthly Weather Review, 139, 2309-2326  doi:10.1175/2011MWR3622.1

Otkin, J. A., Hartung, D. C., D. D. Turner, R. Peterson, W. F. Feltz, and Erik Janzon, 2011
Assimilation of surface-based boundary layer profiler observations during a cool season weather event using an Observation System Simulation Experiment. Part 2: Forecast assessment.
Monthly Weather Review, 139, 2327-2346  doi:10.1175/2011MWR3623.1

Kay, J., Raeder, K.D., Gettelman, A., Anderson, J.L., 2011
The boundary layer response to recent Arctic sea ice loss and implications for high-latitude climate feedbacks.
Journal of Climate, 24, 428-447  doi:10.1175/2010JCLI3651.1

Lauritzen, P.H., Mirin, A., Truesdale, J.E., Raeder, K.D., Anderson, J.L., Bacmeister, J., Neale, R.B., 2011
Implementation of new diffusion/filtering operators in the CAM-FV dynamical core.
International Journal of High Performance Computing Applications.  doi:10.1177/1094342011410088

Pincus, Robert and Patrick Hofmann, Robert J. and Anderson, Jeffrey L. and Raeder, Kevin and Collins, Nancy and Whitaker, Jeffrey S., 2011
Can Fully Accounting for Clouds in Data Assimilation Improve Short-Term Forecasts by Global Models?
Monthly Weather Review, 139, 3, pp. 946-957  doi:10.1175/2010MWR3412.1

Dorita Rostkier-Edelstein and Joshua P. Hacker, 2011
Experience and Conclusions from the Factor Separation Method: Ensemble Data Assimilation and Forecasting Applications
The Factor Separation Method in the Atmosphere- Applications and Future Prospects, Pinhas Alpert and Tatiana Sholokhman, Cambridge University Press, ISBN: 9780521191739


Anderson, J.L., 2010
A Non-Gaussian Ensemble Filter Update for Data Assimilation.
Monthly Weather Review, 138 pp. 4186-4198  doi:10.1175/2010MWR3253.1

Arellano Jr., A. F., P. G. Hess, D. P. Edwards, and D. Baumgardner, 2010
Constraints on black carbon aerosol distribution from Measurement Of Pollution In The Troposphere (MOPITT) CO,
Geophysical Research Letters, 37 L17801  doi:10.1029/2010GL044416

Aksoy, A., D. C. Dowell, C. Snyder, 2010
A multicase comparative assessment of the ensemble Kalman filter for assimilation of radar observations. Part II: Short-range ensemble forecasts.
Mon. Wea. Rev., 138, pp 1273-1292. doi:10.1175/2009MWR3086.1

C. Lee, M. I. Richardson, W. G. Lawson, and J. L. Anderson, 2010
Ensemble Data Assimilation of the Martian Atmosphere Using Temperature and Radiance Data from the Thermal Emission Spectrometer
American Astronomical Society,  DPS meeting #42, #30.09; Bulletin of the American Astronomical Society, Vol. 42, p.1029

C. Lee, M. I. Richardson, W. G. Lawson, J. L. Anderson, N. Collins, T. Hoar, M. Mischna, and A. D. Toigo, 2010
Initial Results from Ensemble Data Assimilation of Radiances and Retrieved Temperatures from TES and MCS in a Martian GCM.
2010 Fall Meeting, AGU,  San Francisco, Abstract P53E-1563.

Davis, C., W. Wang, J. Dudhia, and R. Torn, 2010
Does increased horizontal resolution improve hurricane wind forecasts?
Weather and Forecasting  25, 1826-1841,   doi:10.1175/2010WAF2222423.1

Davis, C., W. Wang, S. Cavallo, J. Done, J. Dudhia, S. Fredrick, J. Michalakes, G. Caldwell, T. Engel, and R. Torn, 2010
High-resolution hurricane forecasts.
Computing in Science and Engineering 13, 22-30  doi:10.1109/MCSE.2010.74

Dowell, D., G. Romine, and C. Snyder, 2010
Ensemble storm-scale data assimilation and prediction for severe convective storms.
25th Severe Local Storms Conference  Denver, Colorado, Amer. Meteor. Soc., paper 9.5.

Otkin, J.A., 2010
Clear and cloudy-sky infrared brightness temperature assimilation using an ensemble Kalman filter.
Journal of Geophysical Research 115,D19207, 14pp  doi:10.1029/2009JD013759

Torn, R. D., 2010
Ensemble-based Sensitivity Analysis applied to African Easterly Waves.
Weather and Forecasting 25, 61-78,   doi:10.1029/2008JD011375

Torn, R. D., 2010
Performance of a Mesoscale Ensemble Kalman Filter (EnKF) During the NOAA High-Resolution Hurricane Test.
Monthly Weather Review, 138, 4375-4392.  doi:10.1175/2010MWR3361.1

Rostkier-Edelstein, D. and J. Hacker, 2010
The roles of surface-observation ensemble assimilation and model complexity for nowcasting of PBL profiles: A factor separation analysis.
Weather and Forecasting 25, 1670-1690,   doi:10.1175/2010WAF2222435.1

Zagar, N., Tribbia, J., Anderson, J.L., Raeder, K.D., Kleist, D.T., 2010
Diagnosis of systematic analysis increments by using normal modes.
Quarterly Journal of the Royal Meteorological Society, 136, 61-76  doi:10.1002/qj.533


Anderson, J., T. Hoar, K. Raeder, H. Liu, N. Collins, R. Torn, and A. Arellano, 2009
The Data Assimilation Research Testbed: A Community Facility.
Bulletin of the American Meteorological Society, 90, 1283-1296.  doi:10.1175/2009BAMS2618.1

Anderson, J. L., 2009
Spatially and temporally varying adaptive covariance inflation for ensemble filters.
Tellus A 61, 72-83  doi:10.1111/j.1600-0870.2008.00361.x

Anderson, J. L., 2009
Ensemble Kalman filters for large geophysical applications.
IEEE Control Systems Magazine, 29, 66-82  doi:10.1109/MCS.2009.932222

Edwards, D.P., Arellano, A.F. and M.N. Deeter, 2009
A satellite observation system simulation experiment for carbon monoxide in the lowermost troposphere,
J. Geophys. Res. 114, D14304, doi:10.1029/2008JD011375

Hamill, T.M., Whitaker, J.S., Anderson, J.L., Snyder, C.M., 2009
Comments on "Sigma-Point Kalman filter data assimilation methods for strongly nonlinear systems".
Journal of the Atmospheric Sciences, 66, 3498-3500  doi:10.1175/2009JAS3245.1

Rostkier-Edelstein, D., and J.P. Hacker, 2009
Probabilistic nowcasting of PBL profiles with surface observations and an ensemble filter.
The 23rd Conference on Weather Analysis and Forecasting/19th Conference on Numerical Weather Prediction , Omaha, NE, USA  [extended abstract]

Thomas, S.J., Hacker, J.P., Anderson, J.L., 2009
A robust formulation of the ensemble Kalman filter.
Quarterly Journal of the Royal Meteorological Society, 135, 507-521  doi:10.1002/qj.372

Zagar, N., Tribbia, J., Anderson, J.L., Raeder, K., 2009
Uncertainties of estimates of inertia-gravity energy in the atmosphere. Part I: Intercomparison of four analysis systems
Monthly Weather Review, 137, 3837-3857  doi:10.1175/2009MWR2815.1

Zagar, N., Tribbia, J., Anderson, J.L., Raeder, K., 2009
Uncertainties of estimates of inertia-gravity energy in the atmosphere. Part II: Large-scale equatorial waves.
Monthly Weather Review, 137, 3858-3873  doi:10.1175/2009MWR2816.1


Anthes, R. A., P. A. Bernhardt, Y. Chen, L. Cucurull, K. F. Dymond, D. Ector, S. Healy, S.-P. Ho, D. C. Hunt, Y.-H. Kuo, H. Liu, K. Manning, C. McCormick, T. K. Meehan, W. J. Randel, C. Rocken, W. Schreiner, S. V. Sokolovskiy, S. Syndergaard, D. C. Thompson, K. E. Trenberth, T.-K. Wee, N. L. Yen, and Z. Zeng,
The COSMIC/FORMOSAT-3 Mission: Early Results, BAMS, 89 No. 3, 313-333

Snyder, C., Bengtsson, T., Bickel, P., Anderson, J., 2008
Obstacles to high-dimensional particle filtering.
Monthly Weather Review, 136, 4629-4640  doi:10.1175/2008MWR2529.1

Zubrow, A., L. Chen, and V.R. Kotamarthi, 2008
EAKF-CMAQ: Introduction and evaluation of a data assimilation for CMAQ based on the ensemble adjustment Kalman filter,
J. Geophys. Res., 113, D09302,  doi:10.1029/2007JD009267

Liu H., J. L. Anderson, Y.-H. Kuo, C. Snyder, and A. Caya, 2008
Evaluation of a non-local observation operator in assimilation of CHAMP radio occultation refractivity with WRF.
Monthly Weather Review 136 No.1, 242-256.  doi:10.1175/2007MWR2042.1

Khare, S.P., Anderson, J.L., Hoar, T.J., Nychka, D.W., 2008
An investigation into the application of an ensemble Kalman smoother to high-dimensional geophysical systems.
Tellus Series A-dynamic Meteorology and Oceanography, 60, 97-112,   doi:10.1111/j.1600-0870.2007.00281.x.


Anderson, J. L., 2007
An adaptive covariance inflation error correction algorithm for ensemble filters.
Tellus A, 59, 210-224.  doi:10.1111/j.1600-0870.2006.00216.x

Anderson, J. L., 2007
Exploring the need for localization in ensemble data assimilation using a hierarchical ensemble filter.
Physica D, 230, 99-111.  doi:10.1016/j.physd.2006.02.011

Anderson, J., Collins, N., 2007
Scalable Implementations of Ensemble Filter Algorithms for Data Assimilation.
Journal of Atmospheric and Oceanic Technology, 24, 1452-1463.  doi:10.1175/JTECH2049.1

A. F. Arellano Jr., Raeder, K., Anderson, J. L., Hess, P. G., Emmons, L. K., Edwards, D. P., Pfister, G. G., Campos, T. L., and Sachse, G. W.: 2007
Evaluating model performance of an ensemble-based chemical data assimilation system during INTEX-B field mission,
Atmos. Chem. Phys., 7, 5695-5710, doi:10.5194/acp-7-5695-2007

Arellano, A.F., P. Hess, D. Edwards, J. Anderson, K. Raeder, L. Emmons, G. Pfister, T. Campos, G. Diskin, J. Jimenez, and R. Subramanian, 2007
Chemical Data Assimilation of MOPITT CO and MODIS AOD Retrievals in the Community Atmosphere Model.
Eos. Trans. AGU, 88(52), Fall Meet. Suppl., Abstract A14D-03.

Edwards, D., A. Arellano, and M. Deeter, 2007
Defining Requirements for Future Satellite Air Quality Chemistry Observations.
Eos. Trans. AGU, 88(52), Fall Meet. Suppl., Abstract A54C-01.

W. G. Lawson, M. I. Richardson, D. J. McCleese, J. T. Schofield, O. Aharonson, S. B. Calcutt, P. G. J. Irwin, D. M. Kass, C. B. Leovy, S.R. Lewis, D. A. Paige, P. L. Read, F. W. Taylor, and R. W. Zurek, 2007
Adapting State of the Art Data Assimilation Approaches for Use with the Mars Climate Sounder and the PlanetWRF Martian GCM.
Seventh International Conference on Mars, Pasadena, Californa, LPI Contribution No. 1353, p 3321.

W. G. Lawson, M. I. Richardson, D. J. McCleese, J. L. Anderson, Y. Chen, and C. Snyder, 2007
Ensemble-Based Data Assimilation with a Martian GCM
Eos Trans. AGU, 88(52), Fall Meeting Suppl., Abstract P11A-0251.

Torn, R. D. and G. J. Hakim, 2007
Ensemble-based sensitivity analysis.
To appear in Monthly. Weather. Review 134

Hacker, J. P., J. Anderson, and M. Pagowski, 2007
Improved vertical covariance estimates for ensemble filter assimilation of near-surface observations.
Monthly Weather Review, 135, 1021-1036.  doi:10.1175/MWR3333.1

Hacker, Joshua P., and Dorita Rostkier-Edelstein, 2007
PBL state estimation with surface observations, a column model, and an ensemble filter.
Monthly Weather Review, 135, Issue 8, 2958-2972,  doi:10.1175/MWR3443.1

Karspeck, A., and J. Anderson, 2007
Experimental implementation of an ensemble adjustment filter for an intermediate ENSO model.
Journal of Climate, 20 4638-4658  doi:10.1175/JCLI4245.1


Aksoy, A., F. Zhang, and J. W. Nielsen-Gammon, 2006
Ensemble-based simultaneous state and parameter estimation with MM5.
Geophysical Research Letters, 33, L12801

Aksoy, A., F. Zhang and J. W. Nielsen-Gammon, 2006
Ensemble-based simultaneous state and parameter estimation in a two-dimensional sea breeze model.
Monthly Weather Review, 134, 2951-2970.

Chen, Y. and C. Snyder, 2006
Assimilation of hurricane position with an ensemble Kalman Filter.
Geophysical Research Abstracts, 8, 09910

D. Rostkier-Edelstein, J. Hacker and M. Pagowski, 2006
Estimates of boundary layer profiles by means of ensemble-filter assimilation of near surface observations in a parameterized PBL,
Proceedings of the 17th Symposium on Boundary Layers and Turbulence, AMS, San Diego, 16-22 May 2006.

W. G. Lawson, M. I. Richardson, D. J. McCleese, J. T. Schofield, O. Aharonson, S. B. Calcutt, P. G. J. Irwin, D. M. Kass, C. B. Leovy, S.R. Lewis, D. A. Paige, P. L. Read, F. W. Taylor, and R. W. Zurek 2006
Data Assimilation With the Mars Climate Sounder
2006 Fall Meeting AGU, abstract P23B-0061

J. Hacker, M. Pagowski and D. Rostkier-Edelstein, 2006
Parameter estimation in land-surface model using atmospheric data assimilation: finding distributions for use in an ensemble prediction system,
Proceedings of the 17th Symposium on Boundary Layers and Turbulence, AMS, San Diego, 16-22 May 2006.


Anderson, J. L., B. Wyman, S. Zhang, and T. Hoar, 2005
Assimilation of surface pressure observations using an ensemble filter in an idealized global atmospheric prediction system.
Journal of the Atmospheric Sciences, 62, 2925-2938  doi:10.1175/JAS3510.1

BD ... Before DART

Zhang, F., C. Snyder, and J. Sun, 2004
Impacts of initial estimate and observation availability on convective-scale data assimilation with an ensemble Kalman filter.
Monthly Weather Review, 132, 1238-1253.

Bengtsson, T., C. Snyder, and D. Nychka, 2003
A nonlinear filter that extends to high dimensional systems.
Journal of Geophysical Research-Atmosphere, 108, 1-10

Tribbia, J. J., and D. P. Baumhefner, 2004
Scale interactions and atmospheric predictablility: An updated perspective.
Monthly Weather Review, 132, 703-713.

Anderson, J. L.,, 2003
A local least squares framework for ensemble filtering.
Monthly Weather Review, 131, 634-642.  doi:10.1175/1520-0493(2003)131<0634:ALLSFF>2.0.CO;2

Tippett, M. K., J. L. Anderson, C. H. Bishop, T. M. Hamill, and J. S. Whitaker, 2003
Ensemble square root filters.
Monthly Weather Review, 131, 1485-1490.

Zhang, S., and J. L. Anderson, 2003
Impact of spatially and temporally varying estimates of error covariance on assimilation in a simple atmospheric model.
Tellus, 55A, 126-147.

Snyder, C., and F. Zhang, 2003
Assimilation of simulated Doppler radar observations with an ensemble Kalman filter
Monthly Weather Review, 131, 1663-16776.

Anderson, J. L., 2001
An Ensemble Adjustment Kalman Filter for Data Assimilation.
Monthly Weather Review, 129, 2884-2903.  doi:10.1175/1520-0493(2001)129<2884:AEAKFF>2.0.CO;2