Preprints (not yet published):

  • Hue tuning curves in V4 change with visual context
    AS Benjamin, P Ramkumar, H Fernandes, MA Smith, KP Kording
    bioRxiv, 780478
  • Expectation reshapes V4 neuronal activity and improves perceptual performance
    PL Stan, MA Smith
  • Automated customization of large-scale spiking network models to neuronal population activity
    S Wu, C Huang, AC Snyder, MA Smith*, B Doiron*, BM Yu* [* equal contribution]
  • Compact deep neural network models of visual cortex
    BR Cowley, PL Stan, JW Pillow*, MA Smith* [* equal contribution]


  • J Yang, D Acharya, WB Scammon, S Schmitt, E Crane, MA Smith, JM Kainerstorfer (2023) Cerebrovascular impedance as a function of cerebral perfusion pressure. IEEE Open Journal of Engineering in Medicine and Biology, 12 January 2023 (Journal Link)


  • R Johnston, AC Snyder, RS Schibler, MA Smith (2022) EEG signals index a global signature of arousal embedded in neuronal population recordings. eNeuro, 9(3): ENEURO.0012-22.2022 (Journal Link)
  • R Johnston, A Snyder, SB Khanna, D Issar, MA Smith (2022) The Eyes Reflect an Internal Cognitive State Hidden in the Population Activity of Cortical Neurons. Cerebral Cortex, 32(15): 33463331- (Journal Link)
  • D Acharya, A Ruesch, S Schmitt, J Yang, MA Smith*, JM Kainerstorfer* (2022) Changes in neurovascular coupling with cerebral perfusion pressure indicate a link to cerebral autoregulation. Journal of Cerebral Blood Flow & Metabolism (Journal Link) [* equal contribution]
  • D Acharya, A Mukherjea, J Cao, A Ruesch, S Schmitt, J Yang, MA Smith, JM Kainerstorfer (2022) Non-Invasive Spectroscopy for Measuring Cerebral Tissue Oxygenation and Metabolism as a Function of Cerebral Perfusion Pressure. Metabolites. 12(7):667 (Journal Link)
  • FAJ Relander, A Ruesch, J Yang, D Acharya, B Scammon, S Schmitt, EC Crane, MA Smith, JM Kainerstorfer (2022) Using near-infrared spectroscopy and a random forest regressor to estimate intracranial pressure, Neurophotonics, Vol. 9, Issue 04, 045001 (Journal Link)
  • J Wei, Y Hua, B Yang, B Wang, SE Schmitt, B Wang, KA Lucy, H Ishikawa, JS Schuman, MA Smith, G Wollstein, IA Sigal (2022) Comparing acute IOP-induced lamina cribrosa deformations premortem and postmortem. Translational Vision Science & Technology, (Journal Link)


  • A Ruesch, D Acharya, S Schmitt, J Yang, MA Smith, JM Kainerstorfer (2021) Comparison of static and dynamic cerebral autoregulation under anesthesia influence in a controlled animal model. PLoS One, 16(1): e0245291 (Journal Link)
  • A Umakantha*, R Morina*, BR Cowley*, AC Snyder, MA Smith†, BM Yu† (2021) Bridging neuronal correlations and dimensionality reduction. Neuron, 10.1016/j.neuron.2021.06.028 (Journal Link) [*,† equal contribution]
  • AC Snyder, BM Yu*, MA Smith* (2021) A stable population code for attention in prefrontal cortex leads a dynamic attention code in visual cortex. J Neurosci, 41: 9163-9176. (Journal Link) [* equal contribution]
  • Z Zhu, S Waxman, B Wang, J Wallace, SE Schmitt, E Tyler-Kabara, H Ishikawa, JS Schuman, MA Smith, G Wollstein, IA Sigal (2021) Interplay between intraocular and intracranial pressure effects on the optic nerve head in vivo. Experimental Eye Research, 213:108809 (Journal Link)


    • BR Cowley, AC Snyder, K Acar, RC Williamson, BM Yu*, MA Smith* (2020) Slow drift of neural activity as a signature of impulsivity in macaque visual and prefrontal cortex. Neuron, 108: 551-576 (Journal Link) [*equal contribution]
    • D Issar, RC Williamson, SB Khanna, MA Smith (2020) A neural network for online spike classification that improves decoding accuracy. Journal of Neurophysiology 123 (4), 1472-1485 (Journal Link) (Code and Supplements)
    • SB Khanna, MA Smith (2020) Deciphering the neuronal population code. In: He B. (eds) Neural Engineering. Springer, Cham. (Journal Link)
    • SB Khanna, JA Scott, MA Smith (2020) Dynamic shifts of visual and saccadic signals in prefrontal cortical regions 8Ar and FEF. Journal of Neurophysiology 124 (6), 1774-1791 (Journal Link)
    • A Ruesch, J Yang, S Schmitt, D Acharya, MA Smith, JM Kainerstorfer (2020) Estimating intracranial pressure using pulsatile cerebral blood flow measured with diffuse correlation spectroscopy. Biomedical Optics Express, 11 (3), 1462-1476 (Journal Link)


    • K Acar, L Kiorpes, JA Movshon, MA Smith (2019) Altered functional interactions between neurons in primary visual cortex of macaque monkeys with experimental amblyopia. Journal of neurophysiology, 122: 2243-2258 (Journal Link)
    • SB Khanna, AC Snyder, MA Smith (2019) Distinct sources of variability affect eye movement preparation. Journal of Neuroscience, 39: 4511-4526 (Journal Link)
    • RC Williamson, B Doiron, MA Smith, BM Yu (2019) Bridging large-scale neuronal recordings and large-scale network models using dimensionality reduction. Current Opinion in Neurobiology, 55: 40-47 (Journal Link)
    • A Ruesch, SE Schmitt, J Yang, MA Smith, J Kainerstorfer (2019) Fluctuations in intracranial pressure can be estimated non-invasively using near-infrared spectroscopy in non-human primates. Journal of Cerebral Blood Flow & Metabolism (Journal Link)


    • G Vinci, V Ventura, MA Smith, RE Kass (2018) Adjusted regularization of cortical covariance. Journal of computational neuroscience, 45: 83-101 (Journal Link)
    • AC Snyder, BM Yu*, MA Smith* (2018) Distinct population codes for attention in the absence and presence of visual stimulation. Nature Communications 9: 4382 (Journal Link) [*equal contribution]
    • AC Snyder, MA Smith (2018) Early steps toward understanding neuronal communication. Curr Opin Neurol, 31: 59-65 (Journal Link)
    • AC Snyder, D Issar, MA Smith (2018) What Does Scalp EEG Coherence Tell Us About Long-range Cortical Networks? Eur J Neurosci, 48: 2466-2481 (Journal Link)
    • H Tran, J Wallace, Z Zhu, KA Lucy, AP Voorhees, SE Schmitt, RA Bilonick, JS Schuman, MA Smith, G Wollstein, IA Sigal (2018) Seeing the Hidden Lamina: Effects of Exsanguination on the Optic Nerve Head. Investigative Ophthalmology & Visual Science, 59: 2564-2575 (Journal Link)


    • SR Bittner, RC Williamson, AC Snyder, A Litwin-Kumar, B Doiron, SM Chase*, MA Smith*, BM Yu* (2017) Population activity structure of excitatory and inhibitory neurons. PLoS One, 12(8):e0181773 [*equal contribution] (Journal Link)
    • RO Konecky, MA Smith, CR Olson (2017) Monkey prefrontal neurons during Sternberg performance: Contents of working memory or current focus of attention? J Neurophysiol, 117: 2269-2281 (Journal Link)
    • R Rosenbaum, MA Smith, A Kohn, JE Rubin, B Doiron (2017) The spatial structure of correlated neuronal variability. Nature Neurosci, 20:107-114 (Journal Link)
    • B Wang, H Tran, MA Smith, T Kostanyan, SE Schmitt, RA Bilonick, NJ Jan, L Kagemann, EC Tyler-Kabara, H Ishikawa, JS Schuman, IA Sigal, G Wollstein (2017) In-vivo effects of intraocular and intracranial pressures on the lamina cribrosa microstructure. PloS one 12 (11), e0188302 (Journal Link)
    • H Tran, NJ Jan, D Hu, A Voorhees, JS Schuman, MA Smith, G Wollstein, IA Sigal (2017) Formalin fixation and cryosectioning cause only minimal changes in shape or size of ocular tissues. Scientific reports 7 (1), 1-11 (Journal Link)


    • BR Cowley, MA Smith, A Kohn, BM Yu (2016) Stimulus-driven population activity patterns in macaque primary visual cortex. PLoS Comput Biol, 12(12):e1005185 (Journal Link)
    • JP Mayo, MA Smith (2016) Neuronal adaptation: tired neurons or wired networks? Trends in Neurosciences, 40: 127-128 (Journal Link)
    • RC Williamson, BR Cowley, A Litwin-Kumar, B Doiron, A Kohn, MA Smith*, BM Yu* (2016) Scaling properties of dimensionality reduction for neural populations and network models. PLoS Comput Biol, 12(12):e1005141 [*equal contribution] (Journal Link)
    • AC Snyder, MJ Morais, MA Smith (2016) Dynamics of excitatory and inhibitory networks are differentially altered by selective attention. J Neurophysiol, 116:1807-1820 (Journal Link)
    • JP Mayo JP, RM Morrison, MA Smith (2016) A probabilistic approach to receptive field mapping in the frontal eye fields. Front Syst Neurosci, 10: 25 (Journal Link)
    • G Vinci, V Ventura, MA Smith, RE Kass (2016) Separating spike count correlation from firing rate correlation. Neural Comput, 28: 849-881 (Journal Link)


    • JP Mayo, AR DiTomasso, MA Sommer, MA Smith (2015) Dynamics of visual receptive fields in the macaque frontal eye field. J Neurophysiol, 114: 3201-3210 (Journal Link)
    • P Zhou, SD Burton, AC Snyder, MA Smith, NN Urban, RE Kass (2015) Establishing a statistical link between network oscillations and neural synchrony. PLoS Comput Biol, 11(10): e1004549 (Journal Link)
    • AC Snyder, MA Smith (2015) Stimulus-dependent spiking relationships with the EEG. J Neurophysiol, 114:1468-1482 (Journal Link)
    • AL Cecala, I Smalianchuk, SB Khanna, MA Smith, NJ Gandhi (2015) Context cue dependent saccadic adaptation in rhesus macaque cannotbe passively elicited using color. J Neurophysiol, 114:570-584 (Journal Link)
    • JG Scott, RC Kelly, MA Smith, P Zhou, RE Kass (2015) False discovery rate regression: an application to neural synchrony detection in primary visual cortex. Journal of the American Statistical Association, 110:459–471 (Journal Link)
    • AC Snyder, MJ Morais, CM Willis, MA Smith (2015) Global network influences on local functional connectivity. Nature Neurosci, 18: 736-743 (Journal Link)
    • TDY Kozai, Z Du, ZV Gugel, MA Smith, SM Chase, LM Bodily, EM Caparosa, RM Friedlander, Cui XT (2015). Comprehensive chronic laminar single-unit, multi-unit, and local field potential recording performance with planar single shank electrode arrays. J Neurosci Methods, 242: 15-40 (Journal Link)


    • AC Snyder, MJ Morais, A Kohn, MA Smith (2014) Correlations in V1 are reduced by stimulation outside the receptive field. J Neurosci, 34(34): 11222-11227 (Journal Link)


    • AC Snyder, MJ Morais, MA Smith (2013) Variance in population firing rate as a measure of slow time-scale correlation. Front Comp Neuro, 7(176) (Journal Link)
    • MA Smith, MA Sommer (2013) Spatial and temporal scales of neuronal correlation in visual area V4. J Neurosci, 33: 5422-5432 (Journal Link)
    • MA Smith, X Jia, A Zandvakili, A Kohn (2013) Laminar dependence of neuronal correlations in visual cortex. J Neurophysiol, 109: 940-947 (Journal Link)


    • L Glass, MA Smith (2011) Glass patterns. Scholarpedia, 6(8):9594 (Link)
    • X Jia, MA Smith, A Kohn (2011) Flexible relationship between gamma components of the local field potential and spiking activity. J Neurosci, 31: 9390–9403 (Journal Link)

    2010 and Prior:

    • RC Kelly, MA Smith, RE Kass, TS Lee (2010) Accounting for network effects in neuronal responses using L1 penalized point process models. Advances in Neural Information Processing Systems 22 (Journal Link)
    • RC Kelly, MA Smith, RE Kass, TS Lee (2010) Local field potentials indicate network state and account for neuronal response variability. J Comp Neurosci, 29: 567–579 (Journal Link)
    • MM Churchland, BM Yu, JP Cunningham, LP Sugrue, MR Cohen, GS Corrado, WT Newsome, AM Clark, P Hosseini, BB Scott, DC Bradley, MA Smith, A Kohn, JA Movshon, KM Armstrong, T Moore, SW Chang, LH Snyder, SG Lisberger, NJ Priebe, IM Finn, D Ferster, SI Ryu, G Santhanam, M Sahani, and KV Shenoy (2010) Stimulus onset quenches neural variability: a widespread cortical phenomenon. Nature Neurosci, 13: 369–378 (Journal Link)
    • MA Smith, N Majaj, JA Movshon (2010) Dynamics of pattern motion computation. In Dynamics of Visual Motion Processing: Neuronal, Behavioral and Computational Approaches, eds. G Masson and U Ilg. Springer (Link)
    • A Kohn, A Zandvakili, MA Smith (2009) Correlations and brain states: from electrophysiology to functional imaging. Curr Opin Neurobiol, 19: 434–438 (Journal Link)
    • MA Smith, A Kohn (2008) Spatial and temporal scales of neuronal correlation in primary visual cortex. J Neurosci, 28: 12591–12603 (Journal Link)
    • MA Smith, RC Kelly, TS Lee (2007) Dynamics of response to perceptual pop-out stimuli in macaque V1. J Neurophysiol, 98: 3436–3449 (Journal Link)
    • F Montani, A Kohn, MA Smith, S Schultz (2007) The role of correlations in direction and contrast coding in the primary visual cortex. J Neurosci, 27: 2338–2348 (Journal Link)
    • MA Smith, A Kohn, JA Movshon (2007) Glass pattern responses in macaque V2 neurons. J Vis, 7(3):5, 1-15. (Journal Link)
    • RC Kelly*, MA Smith*, JM Samonds, A Kohn, AB Bonds, JA Movshon & TS Lee (2007) Comparison of recordings from microelectrode arrays and single electrodes in the visual cortex. Journal of Neuroscience, 27: 261-264 [*equal contribution] (Journal Link)
    • MA Smith, W Bair, JA Movshon (2006) Dynamics of suppression in macaque V1. J Neurosci, 26: 4826–4834 (Journal Link)
    • MA Smith (2006) Surround suppression in the early visual system. Journal of Neuroscience, 26: 3624-3625 (Journal Link)
    • TD Smith, KP Bhatnagar, AM Burrows, KL Shimp, JC Dennis, MA Smith, L Maico-Tan, EE Morrison (2005) The vomeronasal organ of greater bushbabies (Otolemur spp.): Species, sex, and age differences. J Neurocytol, 34: 135-147 (Journal Link)
    • A Kohn, MA Smith (2005) Stimulus dependence of neuronal correlation in primary visual cortex of the macaque. J Neurosci, 25: 3661–3673 (Journal Link)
    • MA Smith, N Majaj, JA Movshon (2005) Dynamics of motion signaling by neurons in
      macaque area MT. Nature Neurosci, 8: 220–228 (Journal Link)
    • JA Movshon, TD Albright, GR Stoner, N Majaj & MA Smith (2003) Cortical responses to visual motion in alert and anesthetized monkeys. Nature Neuroscience, 6: 3 (Journal Link)
    • MA Smith, W Bair, JA Movshon (2002) Signals in macaque striate cortical neurons that support the perception of Glass patterns. J Neurosci, 22: 8334–8345 (Journal Link)
    • W Bair, JR Cavanaugh, MA Smith, JA Movshon (2002) The timing of response onset and offset in macaque visual neurons. J Neurosci, 22: 3189–3205 (Journal Link)
    • TD Smith, MI Siegel, CJ Bonar, KP Bhatnagar, MP Mooney, AM Burrows, MA Smith, LM Maico (2001) The existence of the vomeronasal organ in postnatal chimpanzees and evidence for its homology to that of humans. J Anat, 198: 77–82 (Journal Link)
    • M Noonan, MA Smith, MA Sanfilippo, K Kelleher, S Axelrod (1998) Sex differences in anterior commissure size in the rat. Brain Res Bull, 45: 101–104 (Journal Link)