Faculty Profile

Emery N. Brown, MD, PhD

Emery N. Brown, MD, PhD
Warren M. Zapol Professor of Anaesthesia, Harvard Medical School
Anesthetist, Department of Anesthesia, Massachusetts General Hospital

Administrative Title(s)

Director, Neuroscience Statistics Research Laboratory, Department of Anesthesia and Critical Care, Massachusetts General Hospital

Other Affiliation(s)

Professor of Computational Neuroscience
Professor of Health Sciences and Technology, Massachusetts Institute of Technology

See publications

Research Unit(s)

Neuroscience Statistics Research Laboratory, Department of Anesthesia and Critical Care, Massachusetts General Hospital

Research Interests

Neural Signal Processing Algorithms
Recent technological and experimental advances in the capabilities to record signals from neural systems have led to an unprecedented increase in the types and volume of data collected in neuroscience experiments and hence, in the need for appropriate techniques to analyze them. Therefore, using combinations of likelihood, Bayesian, state-space, time-series and point process approaches, a primary focus of the research in my laboratory is the development of statistical methods and signal-processing algorithms for neuroscience data analysis.

We have used our methods to:
  • characterize how hippocampal neurons represent spatial information in their ensemble firing patterns.
  • analyze formation of spatial receptive fields in the hippocampus during learning of novel environments.
  • relate changes in hippocampal neural activity to changes in performance during procedural learning.
  • improve signal extraction from fMR imaging time-series.
  • characterize the spiking properties of neurons in primary motor cortex.
  • localize dynamically sources of neural activity in the brain from EEG and MEG recordings made during cognitive, motor and somatosensory tasks.
  • measure the period of the circadian pacemaker (human biological clock) and its sensitivity to light.
  • characterize the dynamics of human heart beats in physiological and pathological states.

Understanding General Anesthesia
General anesthesia is a neurophysiological state in which a patient is rendered unconscious, insensitive to pain, amnestic, and immobile, while being maintained physiologically stable. General anesthesia has been administered in the U.S. for nearly 160 years and currently, more than 50,000 people receive anesthesia daily in this country for surgery alone. Still, the mechanism by which an anesthetic drug induces general anesthesia remains a medical mystery. A new research direction in my laboratory is to use a systems neuroscience approach to study how the state of general anesthesia is induced and maintained. To do so, we are using fMRI, EEG, neurophysiological recordings, microdialysis methods and mathematical modeling in interdisciplinary collaborations with investigators in BCS, the MIT/Harvard Division of Health Science and Technology, Massachusetts General Hospital and Boston University. The long-term goal of this research is to establish a neurophysiological definition of anesthesia, safer, site-specific anesthetic drugs and to develop better neurophysiologically-based methods for measuring depth of anesthesia.


Undergraduate Students
Yong Choe 1994-1995
Alex McCollom, 1993-1997
Dengda Tang, 1996-1997
David P. Nguyen, 1998-1999
Gabriel Rosenburg, 2000-2001
September Winslow, 2000-2003
Abdul Rasheed Alabi, 2003-2004
Nicholas Cetrullo, 2003
Danielle Dray, 2004
Camilo Lamus, 2004-2007
Diana M. Aversa, 2005
Andre Plair, 2005
Portia Taylor, 2006
Shadi Akiki, 2007
Vivek Reddy, 2007
Amanda Martori, 2008
Jen Gong, 2010
Henry Zheng, 2010
Nevin Raj, 2010
Sarah Svirsky, 2010
Shu Zheng, 2010-present

Masters Students
Esosa O. Amayo, 2003-2006    
Neil U. Desai, 2004-2005    

Ph.D. Students
Patricia Meehan, 1992-1993
Loren M. Frank, 1995-2000    
Patrick Purdon, 1998-2005    
Irmarie Reyes, 1998-2000
David P. Nguyn, 1999-2001
Sujith Vijayan, 2001-2007  
Uri Eden, 2000-2005
Cecilia Behn, 2002-2006    
Lakshminarayan Srinivasan, 2004-2006     
Michelle McCarthy, 2002-2007   
Anna Dreyer, 2005-2008  
Antonio Molins, 2006-2010
Stuart P. Layton, 2007-2008
Pavitra Krishnaswamy, 2008-2010
Vincent Cheung, 2001-present
Dennis Dean, 2005-present
Patrick Stokes, 2007-present
Camilo Lamus, 2007-present    
Veronica S. Weiner, 2007-present
Iahn Cajigas, 2007-present
Demba E. Ba, 2008-present
Deriba Olana, 2008-present
Rose Faghih, 2008-present
Maryam Modir Shanechi, 2008-present
Laura D. Lewis, 2009-present
Neal Dach, 2010-present

Post-Doctoral Fellows
Ao Yuan, 1997-1999    
Riccardo Barbieri, 1998-2000    
Harry P.  Luithardt, 1998-2000    
Anne C. Smith, 1999-2004    
Loren M. Frank, 2000-2003    
Catherine Mullaly, 2000-2003    
Christopher Long, 2001-2006    
Joao Scalon, 2003-2004    
Murat Okatan, 2003-2007    
Supratim Saha, 2003-2008    
Gabriela Czanner, 2004-2007    
Robert Haslinger, 2004-2007    
Uri Eden, 2005-2006    
Todd Coleman, 2005-2006    
Simona Temereanca, 2005-2008    
Srideva Sarma, 2006-2009    
Gordon Pipa, 2007-2008
David P. Nguyen, 2008-2010
SangGyun Kim, 2009-2010
David F. Putrino, 2009-2010
Zhe Chen, 2007-present
Aylin Cimenser, 2008-present
Kevin Wong , 2008-present
Francisco J. Flores, 2008-present
Wasim Q. Malik, 2008-present
Christa J. Van Dort, 2008-2011
ShiNung Ching, 2009-present
Eric Plourde, 2009-present
Hideaki Shimazaki, 2009-present

Research Funding

1 DP1 OD003646-04 (PI: Brown)    09/30/07 – 07/31/12
A Systems Neuroscience Approach for the Study of General Anesthesia
The major goal is to use a systems neuroscience paradigm to establish an interdisciplinary program to solve the mystery of general anesthesia.

1 R01 EB006385-01-A1 (PI: Boas)    09/20/07 – 06/30/12
Dynamic Inverse Solutions for Multimodal Imaging.
The major goal of this project is to develop a unified framework for multimodal imaging by using anatomic, biophysical and physiological information to construct meaningful state-space models.
R01 HD059852 (PI: Williams)   04/1/09-03/30/14
Neuronal Based Prosthetic Control of Volitional Movement
The principle objective of this research is to develop new experimental and algorithms for neuroprosthetic control.
Project Role:  Co-Investigator

5 R01 MH071847-05 (PI: Brown)     04/15/05 – 03/31/11
Dynamic Analyses of Learning in Behavioral Experiments
The major objective of this application is to develop dynamic algorithms to characterize learning from binary response data.

5 R01 MH59733-09 (PI: Brown)    04/01/04 – 03/31/10    
Statistical Analysis of Hippocampal Information Encoding
The major goal is to develop statistical models to study information encoding in the rat hippocampus.

R01 DA015644-05 (PI: Brown)    09/30/02 – 07/31/08
Dynamic Signal Processing Analyses of Neural Plasticity
The major goal is to develop dynamic signal processing algorithms to characterize and track neural plasticity in the representation of biological signals in the rat and monkey hippocampus and other structures in the medial temporal lobe during memory.

NSF 0836720 (PI: Doershuk)   09/05/08-08/31/11    
Collaborative Research CDI-Type II: Discovery of Succinct Dynamical Relationships in Large-Scale Biological Data Sets
The project is using problems in biology to develop new statistical methods and new mathematical methods
for estimation and control theory
Project Role:  Co-Investigator


2006 HST188J (9.914 MIT) Introduction to Statistics for Neuroscience Research.

2009 9.073 (MIT) Statistics for Neuroscience Research (Spring- 26 lectures)

2010 9.07 (MIT) Introduction to Statistics for Brain and Cognitive Sciences (Fall-  26 Lectures)

2011 Lecture, HST 500 Frontiers in Biomedical Engineering and Physics 9.52 (MIT) Quantitative Methods in Neuroscience (Spring- 22 of 42 lectures)

Selected Publications

Taylor NE, Chemali JJ, Brown EN, Solt K. Activation of D1 Dopamine Receptors Induces Emergence from Isoflurane General Anesthesia.
Anesthesiology. 2013 Jan;118(1):30-39. [PMID: 23221866]

Lewis LD, Weiner VS, Mukamel EA, Donoghue JA, Eskandar EN, Madsen JR, Anderson WS, Hochberg LR, Cash SS, Brown EN, Purdon PL. Rapid fragmentation of neuronal networks at the onset of propofol-induced unconsciousness.
Proc Natl Acad Sci U S A. 2012 Dec 4;109(49):E3377-86. [PMID: 23129622]

Schwinn DA, Mackensen GB, Brown EN. Understanding the TXA seizure connection.
J Clin Invest. 2012 Dec 3;122(12):4339-41. [PMID: 23187134]

Solt K, Chemali JJ, Van Dort CJ, Brown EN. In reply.
Anesthesiology. 2012 Dec;117(6):1394-5. [PMID: 23168434]

Shanechi MM, Hu RC, Powers M, Wornell GW, Brown EN, Williams ZM. Neural population partitioning and a concurrent brain-machine interface for sequential motor function.
Nat Neurosci. 2012 Nov;15(12):1715-22. [PMID: 23143511]

Lamus C, Hämäläinen MS, Temereanca S, Brown EN, Purdon PL. A spatiotemporal dynamic distributed solution to the MEG inverse problem.
Neuroimage. 2012 Nov 1;63(2):894-909. [PMID: 22155043]

Brown EN, Solt K. Management of opioid analgesic overdose.
N Engl J Med. 2012 Oct 4;367(14):1370-1; author reply 1372-3. [PMID: 23034040]

Citi L, Brown EN, Barbieri R. A real-time automated point-process method for the detection and correction of erroneous and ectopic heartbeats.
IEEE Trans Biomed Eng. 2012 Oct;59(10):2828-37 . Epub 2012 Aug 2. [ PMID: 22875239]

Chen Z, Kloosterman F, Brown EN, Wilson MA. Uncovering spatial topology represented by rat hippocampal population neuronal codes. J Comput Neurosci. 2012 Oct;33(2):227-55. [PubMed PMID: 22307459]

Pipa G, Chen Z, Neuenschwander S, Lima B, Brown EN. Mapping of visual receptive fields by tomographic reconstruction.
Neural Comput. 2012 Oct;24(10):2543-78. [PMID: 22734491]

Ching S, Brown EN, Kramer MA. Distributed control in a mean-field cortical network model: implications for seizure suppression.
Phys Rev E Stat Nonlin Soft Matter Phys. 2012 Aug;86(2 Pt 1):021920. [PMID: 23005798]

Chemali JJ, Van Dort CJ, Brown EN, Solt K. Active emergence from propofol general anesthesia is induced by methylphenidate.
Anesthesiology. 2012 May;116(5):998-1005. [PMID: 22446983]

Temereanca S, Hämäläinen MS, Kuperberg GR, Stufflebeam SM, Halgren E, Brown EN. Eye movements modulate the spatiotemporal dynamics of word processing.
J Neurosci. 2012 Mar 28;32(13):4482-94. [PMID: 22457496]

Faghih RT, Savla K, Dahleh MA, Brown EN. Broad range of neural dynamics from  a time-varying FitzHugh-Nagumo model and its spiking threshold estimation.
IEEE Trans Biomed Eng. 2012 Mar;59(3):816-23. [PMID: 22186931.

Kodituwakku S, Lazar SW, Indic P, Chen Z, Brown EN, Barbieri R. Point process time-frequency analysis of dynamic respiratory patterns during meditation practice.
Med Biol Eng Comput. 2012 Mar;50(3):261-75. [PMID: 22350435]

Jarosiewicz B, Schummers J, Malik WQ, Brown EN, Sur M. Functional biases in visual cortex neurons with identified projections to higher cortical targets.
Curr Biol. 2012 Feb 21;22(4):269-77. [PMID: 22305753]

Ching S, Purdon PL, Vijayan S, Kopell NJ, Brown EN. A neurophysiological-metabolic model for burst suppression.
Proc Natl Acad Sci U S A. 2012 Feb 21;109(8):3095-100. [PMID: 22323592]

Sarma SV, Cheng ML, Eden U, Williams Z, Brown EN, Eskandar E. The effects of cues on neurons in the basal ganglia in Parkinson's disease.
Front Integr Neurosci. 2012;6:40. [PMID: 22855673]

Chen Z, Purdon PL, Brown EN, Barbieri R. A unified point process probabilistic framework to assess heartbeat dynamics and autonomic cardiovascular control.
Front Physiol. 2012;3:4. [PMID: 22375120]

Shimazaki H, Amari S, Brown EN, Grün S. State-space analysis of time-varying higher-order spike correlation for multiple neural spike train data.
PLoS Comput  Biol. 2012;8(3):e1002385. [PMID: 22412358]

Haslinger R, Pipa G, Lima B, Singer W, Brown EN, Neuenschwander S. Context matters: the illusive simplicity of macaque V1 receptive fields.
PLoS One. 2012;7(7):e39699. [PMID: 22802940]

Solt K, Cotten JF, Cimenser A, Wong KF, Chemali JJ, Brown EN. Methylphenidate actively induces emergence from general anesthesia.
Anesthesiology. 2011 Oct;115(4):791-803. [PMID: 21934407]

Putrino DF, Chen Z, Ghosh S, Brown EN. Motor cortical networks for skilled movements have dynamic properties that are related to accurate reaching.
Neural Plast. 2011;2011:413543. Epub 2011 Oct 9. [PMID: 22007332]

Solt K, Cotten JF, Cimenser A, Wong KF, Chemali JJ, Brown EN. Methylphenidate actively induces emergence from general anesthesia.
Anesthesiology. 2011 Oct;115(4):791-803. [PMID: 21934407]

Phillips MA, Colonnese MT, Goldberg J, Lewis LD, Brown EN, Constantine-Paton M. A synaptic strategy for consolidation of convergent visuotopic maps.
Neuron. 2011 Aug 25;71(4):710-24. [PMID: 21867886]

Malik W, Schummer J, Sur M, Brown EN. Denoising two-photon imaging data.
PLoS One. 2011; 6(6):e20490.  Epub 2011 Jun 7.  [PMID: 21687727]

LaCount LT, Barbieri R, Park K, Kim J, Brown EN, Kuo B, Napadow V. Static and dynamic autonomic response with increasing perception 
Aviat Space Environ Med. 2011 Apr;82(4):424-33. [PMID: 21485400]

Indic P, Bloch-Salisbury E, Bednarek F, Brown EN, Paydarfar D, Barbieri R. Assesment of cardio-respiriatory interactions in preterm infants by bivariate autoregressive modeling and surrogate data analysis. 
Early Hum Dev. 2011 Apr 19. [Epub ahead of print] [PMID: 21511413]

Cimenser A, Pierce ET, Salazar Gomez AF, Walsh J, Harrell PG, Tavares-Stoeckel CL, Habeeb K, Purdon PL, Brown EN. Tracking brain states under general anesthesia by using global coherence,
Proceedings of the National Academy of Sciences, 2011 May 24; 108 (21):8832-8837. Epub 2011 May 9.  [PMID: 21555565]

Proc IEEE Int Symp Biomed Imaging. 2007 May 15;2007:1092-1095. [PMID: 20407591]

Wu Wei, Chen Z, Gao S, Brown EN. A hierarchical Bayesian approach for learning sparse spatio-temporal decompositions of multichannel EEG,
Neuroimage, 2011 Mar 21. [PMID:21420499]

Truccolo W,  Donoghue J, Hochberg L, Eskandar E, Madsen JR, Anderson WS, Brown EN, Halgren E, Cash SS, Single neuron dynamics in human focal epilepsy.
Nature Neuroscience,  2011 May;14(5):635-41. Epub 2011 Mar 27.  [PMID: 21441925]

Sarma SV, Nguyen DP, Czanner G, Wirth S, Wilson MA, Suzuki W, Brown EN. Computing confidence intervals for point process models.
Neural Comput. 2011 Nov;23(11):2731-45. Epub 2011 Aug 18. [PMID: 21851280]

Barnes TD, Mao J-B, Hu D, Kubota Y, Dreyer AA, Stamoulis C, Brown EN, Graybiel AM. Advance-cueing produces enhanced action-boundary patterns of spike activity in the sensorimotor striatum.
Journal of Neurophysiology, 2011 Apr;105(4):1861-78. Epub 2011 Feb 9. [PMID:21307317]

Kim S, Putrino D, Ghosh S, Brown EN. A Granger causality measure for point process models of ensemble neural spiking activity.
PLoS Computational Biology, 2011 Mar;7(3):e1001110. Epub 2011 Mar 24. [PMID: 21455283]

Plourde E, Delgutte B, Brown EN. A point process model for auditory neurons considering both their intrinsic dynamics and the spectro-temporal properties of an extrinsic signal.
IEEE Transactions of Biomedical Engineering, 2011 Feb 10. [Epub ahead of print]. [PMID: 21317068]

Krishnaswamy P, Brown EN, Herr H. Human leg model predicts ankle muscle-tendon morphology, state, roles and energetics in walking. PLoS Computational Biology, 2011, Mar;7(3):e1001107. Epub 2011 Mar 17. [PMID: 21445231]

Ching S, Cimenser A, Purdon PL, Brown EN, Kopell NJ. Thalamocortical model for a propofol-induced alpha rhythm associated with loss of consciousness.
Proceedings of the National Academy of Sciences, 2010, 107(52): 22665-70. [PMID: 21149695]

Chen Z, Putrino DF, Ghosh S, Barbieri R, Brown EN. Statistical inference for assessing functional connectivity of neuronal ensembles with sparse spiking data. 
IEEE Transactions on Neural Systems and Rehabilitation Engineering, 2011 Apr:19(2):121-35. Epub 2010 Oct 11.  [PMID: 20937583]

Chen Z, Purdon PL, Harrell PG, Pierce ET, Walsh J, Brown EN, Barbieri R. Dynamic assessment of baroreflex control of heart rate during induction of propofol anesthesia using a point process method.
Annals of Biomedical Engineering, 2011, 39(1):260-76. [PMID: 20945159] 

Malik WQ, Truccolo W, Brown EN, Hochberg LR. Efficient decoding with steady-state Kalman filter in neural interface systems. IEEE
Transactions on Neural Systems and Rehabilitation Engineering, 2011, Feb;19(1):25-34. [PMID: 21078582]

Putrino D, Brown EN, Mastaglia FL, Ghosh S. Differential involvement of excitatory and inhibitory neurons of cat motor cortex in coincident spike activity related to behavioral context.
Journal of Neuroscience, 2010, 30(23): 8048-56. [PMID: 20534853]

Keller CJ, Truccolo, W, Gale JT, Eskandar E, Thesen T, Carlson C, Devinsky O, Kuzniecky R, Doyle W, Madsen JR, Schomer D, Metha A, Brown EN, Hochberg L, Ulbert I, Halgren E, Cash SS. Heterogeneous neuronal firing patterns during interictal epileptiform discharges in the human cortex.
Brain, 2010 June 133(Pt6):1668-1681. [PMID: 20511283]  

Haslinger RH, Pipa G, Brown EN. Discrete time rescaling theorem: determining goodness-of-fit for discrete time statistical models of neural spiking.
Neural Computation, 2010, 22(10): 2477-2506. [PMID: 20608868]

Vijayan S, Moore CI, Brown EN, Wilson MA. Activity in the barrel cortex during active behavior and sleep.
Journal of Neurophysiology, 2010, February 17, Epub ahead of print. [PMID: 20164403]

Chen Z, Brown EN, Barbieri R. Characterizing nonlinear heartbeat dynamics within a point process framework.
IEEE Transactions on Biomedical Engineering, 2010 Jun;57(6):1335-47. Epub 2010 Feb 17.  [PMID: 20172783]

Sarma SV, Cheng M, Williams Z, Hu R, Eskandar EE, Brown EN. Using point process models to compare neural spiking activity in the subthalamic nucleus of Parkinson’s patients and a healthy primate.
IEEE Transactions on Biomedical Engineering, 2010, 57(6):1297-305. [PMID: 20172804]

Nguyen DP, Wilson MA, Brown EN, Barbieri R. Measuring instantaneous frequency of local field potential oscillations using the Kalman smoother.
Journal of Neuroscience Methods, 2009, 184(2):365-74. [PMID: 19699763]

Graybiel AM, Brown EN. Characterizing learning by simultaneous analysis of continuous and binary measures of performance.
Journal of Neurophysiology, 2009, 102(5):3060-72. [PMID: 19692505]

Smith AC, Scalon JD, Wirth S, Yanike M, Suzuki WA, Brown EN. State-space algorithms for estimating spike rate functions.
Computational Intelligence and Neuroscience, 2010: 426539. [PMID: 19911062]

Smith AC, Shah SA, Hudson AE, Purpura KP, Victor JD, Brown EN, Schiff ND. A Bayesian statistical analysis of behavioral facilitation associated with deep brain stimulation.
Journal of Neuroscience Methods, 2009, 183(2):267-76. [PMID: 19576932]

Nguyen DP, Kloosterman F, Barbieri R, Brown EN, Wilson MA. Characterizing the frequency structure of fast oscillations in the rodent hippocampus.
Frontiers in Neuroscience, 2009, 3:11. [PMID: 19562084]

Wirth S, Avsar E, Chiu CC, Varun S, Smith AC, Brown EN, Suzuki WA. Trial outcome and associative learning signals in the monkey hippocampus.
Neuron, 2009, 61(6): 930-940. [PMID: 19324001]

Yanike M, Wirth S, Smith AC, Brown EN, Suzuki WA. Comparison of associative learning-related signals in the macaque perirhinal cortex and hippocampus.
Cereb Cortex. 2009 May;19(5):1064-78. Epub 2008 Oct 20. [PMID: 18936274]

Chen Z, Vijayan S, Barbieri R, Wilson MA, Brown EN. Discrete- and continuous-time probabilistic models and algorithms for inferring neuronal UP and DOWN states.
Neural Comput. 2009 Jul;21(7):1797-862. [PMID: 19323637]

Purdon PL, Pierce ET, Bonmassar G, Walsh J, Harrell PG, Kwo J, Deschler D, Barlow M, Merhar RC, Lamus C, Mullaly CM, Sullivan M, Maginnis S, Skoniecki D, Higgins HA, Brown EN. Simultaneous electroencephalography and functional magnetic resonance imaging of general anesthesia.
Ann N Y Acad Sci. 2009 Mar;1157:61-70. [PMID: 19351356]

Nguyen DP, Kloosterman F, Barbieri R, Brown EN, Wilson MA. Characterizing the dynamic frequency structure of fast oscillations in the rodent hippocampus.
Front Integr Neurosci. 2009;3:11. Epub 2009 Jun 10. [PMID: 19562084]

Scholz J, Triantafyllou C, Whitfield-Gabrieli S, Brown EN, Saxe R. Distinct regions of right temporo-parietal junction are selective for theory of mind and exogenous attention.
PLoS One. 2009;4(3):e4869. Epub 2009 Mar 17. [PMID: 19290043]

McCarthy MM, Brown EN, Kopell NK. Potential network mechanisms mediating electroencephalographic beta rhythm changes during propofol-induced paradoxical excitation. Journal of Neuroscience, 2008, Dec 10; 28(50):13488-504. [PMID: 19074022]

Temereanca S, Brown EN, Simons DJ. Rapid changes in thalamic firing synchrony during repetitive whisker stimulation.
J Neurosci. 2008 Oct 29; 28(44):11153-64. [PMID: 18971458]

Yanike M, Wirth S, Smith AC, Brown EN, Suzuki WA. Comparison of Associative Learning-Related Signals in the Macaque Perirhinal Cortex and Hippocampus.
Cereb Cortex. 2008 Oct 20. [PMID: 18936274]

Molins A, Stufflebeam SM, Brown EN, Hämäläinen MS.  Quantification of the benefit from integrating MEG and EEG data in minimum l2-norm estimation.
Neuroimage. 2008 Sep 1;42(3):1069-77. Epub 2008 Jun 14. [PMID: 18602485]

Napadow V, Dhond R, Conti G, Makris N, Brown EN, Barbieri R.  Brain correlates of autonomic modulation: combining heart rate variability with fMRI.
NeuroImage. 2008 Aug 1;42(1):169-77. [PMID: 18524629]

Barbieri R, Brown EN. Application of dynamic point process models to cardiovascular control. Biosystems. 2008 Jul-Aug; 93(1-2):120-5. [PMID: 18515000]

Prerau MJ, Smith AC, Eden UT, Yanike M, Suzuki WA, Brown EN. A mixed filter algorithm for cognitive state estimation from simultaneously recorded continuous and binary measures of performance.
Biol Cybern. 2008 Jul; 99(1):1-14. [PMID: 18438683]

Diniz Behn CG, Kopell N, Brown EN, Mochizuki T, Scammell TE.  Delayed orexin signaling consolidates wakefulness and sleep: physiology and modeling.
J Neurophysiol. 2008 Jun; 99(6):3090-103. [PMID: 18417630]

Czanner G, Eden UT, Wirth S, Yanike M, Suzuki WA, Brown EN.  Analysis of between-trial and within-trial neural spiking dynamics.
J Neurophysiol. 2008 May;99(5):2672-93. [PMID: 18216233]

Barbieri R, Chen Z, Brown EN. Assessment of hippocampal and autonomic neural activity by point process models.
Conf Proc IEEE Eng Med Biol Soc. 2008;2008:3679. [PMID: 19163509]

Nguyen DP, Barbieri R, Wilson MA, Brown EN. Instantaneous frequency and amplitude modulation of EEG in the hippocampus reveals state dependent temporal structure.
Conf Proc IEEE Eng Med Biol Soc. 2008; 2008:1711-5. [PMID: 19163009]

Zhang Q, Brown EN, Strangman GE. Adaptive filtering to reduce global interference in evoked brain activity detection: a human subject case study.
J Biomed Opt. 2007 Nov-Dec;12(6):064009. [PMID: 18163825]

Srinivasan L, Eden UT, Mitter SK, Brown EN. General-purpose filter design for neural prosthetic devices.
J Neurophysiol. 2007 Oct;98(4):2456-75. Epub 2007 May 23. [PMID: 17522167]

Zhang Q, Brown EN, Strangman GE. Adaptive filtering for global interference cancellation and real-time recovery of evoked brain activity: a Monte Carlo simulation study.
J Biomed Opt. 2007 Jul-Aug;12(4):044014. [PMID: 17867818]

Behn CG, Brown EN, Scammell TE, Kopell NJ. Mathematical model of network dynamics governing mouse sleep-wake behavior.
J Neurophysiol. 2007 Jun;97(6):3828-40. Epub 2007 Apr 4. [PMID: 17409167]

Ergun A, Barbieri R, Eden UT, Wilson MA, Brown EN. Construction of point process adaptive filter algorithms for neural systems using sequential Monte Carlo methods.
IEEE Transactions on Biomedical Engineering, 2007 Mar; 54(3):419-28. [PMID: 17355053]

Smith AC, Wirth S, Suzuki WA, Brown EN. Bayesian analysis of interleaved learning and response bias in behavioral experiments.
J Neurophysiol. 2007 Mar;97(3):2516-24. Epub 2006 Dec 20. [PMID: 17182907]

Karameh FN, Dahleh MA, Brown EN, Massaquoi SG. Modeling the contribution of lamina 5 neuronal and network dynamics to low frequency EEG phenomena.
Biol Cybern. 2006 Oct;95(4):289-310. Epub 2006 Aug 8. [PMID: 16897093]

Indic P, Brown EN. Characterizing the amplitude dynamics of the human core-temperature circadian rhythm using a stochastic-dynamic model.
J Theor Biol. 2006 Apr 21;239(4):499-506. Epub 2005 Oct 11. [PMID: 16223510]

Srinivasan L, Eden UT, Willsky AS, Brown EN. A state-space analysis for reconstruction of goal-directed movements using neural signals.
Neural Computation, 2006 Oct; 18(10):2465-94. [PMID: 16907633]

Lee WC, Huang H, Feng G, Sanes JR, Brown EN, So PT, Nedivi E. Dynamic remodeling of dendritic arbors in GABAergic interneurons of adult visual cortex.
PLoS Biol. 2006 Feb;4(2):e29. Epub 2005 Dec 27. Erratum in: PLoS Biol. 2006 May;4(5):e126. [PMID: 16366735]

Long CJ, Purdon RL, Temereanca S, Desai NU, Hämäläinen M, Brown EN. Large scale Kalman filtering solutions to the electrophysiological source localization problem--a MEG case study. Conf Proc IEEE Eng Med Biol Soc. 2006;1:4532-5. PubMed PMID: 17947095]

Barbieri R, Brown EN. Correction of erroneous and ectopic beats using a point process adaptive algorithm.
Conf Proc IEEE Eng Med Biol Soc. 2006;1:3373-6. [PMID: 17945770]

Barbieri R, Brown EN. Analysis of heart beat dynamics by point process adaptive filtering.
IEEE Transactions on Biomedical Engineering, 2006, 53(1): 4-12. [PMID: 16402597]

Okatan M, Wilson MA, Brown EN. Analyzing functional connectivity using a network likelihood model of ensemble neural spiking activity.
Neural Computation, 2005, 9:1927-61. [PMID: 15992486]

Barbieri R, Matten EC, Alabi, A. Brown EN. A point process model of human heart beat intervals: new definitions of heart rate and heart rate variability.
American Journal of Physiology: Heart and Circulatory Physiology (published on line Sept. 16, 2004), 2005, 288:H424-H435. [PMID: 15374824]

Truccolo W, Eden UT, Fellow M, Donoghue JD, Brown EN. A point process framework for relating neural spiking activity to spiking history, neural ensemble and covariate effects.
Journal of Neurophysiology, 2005, 93:1074-1089. [PMID: 15356183]

Frank LM, Stanley GB, Brown EN. Hippocampal plasticity across multiple days of exposure to novel environments.
Journal of Neuroscience, 2004, 24 (35):7681-89. [PMID: 15342735]

Smith AC, Frank LM, Wirth S, Yanike M, Hu D, Kubota Y, Graybiel AM, Suzuki WA, Brown EN. Dynamic analysis of learning in behavioral experiments.
Journal of Neuroscience, 2004, 24(2): 447-461. [PMID: 14724243]

Brown EN, Mitra PP, Kass RE. Multiple neural spike train data analysis: state-of-the-art and future challenges.
Nature Neuroscience, 2004; 7(5): 456-61. [PMID: 15114358]

Eden UT, Frank LM, Barbieri R, Solo V, Brown EN, Dynamic analyses of neural encoding by point process adaptive filtering.
Neural Computation, 2004, 16(5): 971-998. [PMID: 15070506]

Barbieri R, Frank LM, Nguyen DP, Quirk MC, Solo V, Wilson MA, Brown EN. Dynamic analyses of information encoding by neural ensembles.
Neural Computation, 2004, 16 (2): 277-307. [PMID: 15006097]

Klerman EB, Adler GK, Jin M, Maliszewski AM, Brown EN. A statistical model of diurnal variation in human growth hormone.
American Journal of Physiology, 2003, E1118-26. [PMID: 12888486]

Wirth S, Yanike M. Frank LM, Smith AC, Brown EN, Suzuki WA. Single neurons in the monkey hippocampus and learning of new associations.
Science, 2003, 300: 1578-81. [PMID: 12791995]

Smith AC, Brown EN. Estimating a state-space model from point process observations.
Neural Computation, 2003, 15: 965-91. [PMID: 12803953]

Frank LM, Eden UT, Solo V, Wilson MA, Brown EN. Contrasting patterns of receptive field plasticity in the hippocampus and the entorhinal cortex: an adaptive filtering approach.
Journal of Neuroscience, 2002, 22:3817-30. [PMID: 11978857]

Brown EN, Barbieri R, Ventura V, Kass RE, Frank LM. The time-rescaling theorem and its application to neural spike train data analysis.
Neural Computation, 2002, 14(2):325-46. [PMID: 11802915]

Brown EN, Nguyen DP, Frank LM, Wilson MA, Solo V. An analysis of neural receptive field plasticity by point process adaptive filtering.
Proceedings of the National Academy of Sciences, 2001, 98:12261-66. [PMID: 11593043]

Brown EN, Meehan PM, Dempster AP. A stochastic differential equation model of diurnal cortisol patterns.
American Journal of Physiology (Endocrinology and Metabolism), 2001, 280:E450-61. [PMID: 11171600]

Purdon PL, Solo V, Weisskoff RM, Brown EN. Locally regularized spatio-temporal modeling and model comparison for functional MRI.
NeuroImage, 2001. Oct;14(4):912-23. [PMID: 11554810]

Brown EN, Choe Y, Luithardt H, Czeisler CA. A statistical model of the human core-temperature circadian rhythm.
American Journal of Physiology, 2000, 279:E669-E83. [PMID: 10950837]

Czeisler CA, Duffy JF, Shanahan TL, Brown EN, Mitchell JF, Rimmer DW, Ronda JM, Silva E, Allan JS, Emens JS, Dijk DJ, Kronauer RE. Age-independent stability, precision, and near 24 hour period of the human circadian pacemaker.
Science, 1999, 284:2177-81. [PMID: 11536927]

Brown EN, Frank LM, Tang D, Quirk MC, Wilson MA. A statistical paradigm for neural spike train decoding applied to position prediction from ensemble firing patterns of rat hippocampal place cells.
Journal of Neuroscience, 1998, 18:7411-25. [PMID: 9736661]

Brown EN, Choe Y, Shanahan TL, Czeisler CA. A mathematical model of diurnal variation in plasma melatonin levels.
American Journal of Physiology, (Endocrinology and Metabolism 35) 1997, 272:E506-E16. [PMID: 9124558]

Books and Chapters

Coleman TP, Yanike M, Suzuki WA, Brown EN. A mixed filter algorithm for dynamically tracking learning from multiple behavioral and neurophysiological measures.
In: Neuronal Variability and its Functional Significance, Glanzman DL, ed. Oxford University Press, 2010, pp. 3-28.

Brown EN, Chen Z, Barbieri R. State-space modeling of neural spike train and neural behavioral data.
In: Statistical Signal Processing for Neuroscience. Oweiss K, ed. Oxford Press, 2010, In Press.

Paninski L, Brown EN, Iyengar S, Kass RE. Statistical models of spike trains.
In: Stochastic Methods in Neuroscience. Liang C and Lord GJ, eds. Oxford: Clarendon Press, 2008; pp. 278-303.

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