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OBJECTIVE
My interest is in understanding how cortical networks within
and between early visual areas perform integrative and perceptual
inference functions such as complex and invariant pattern recognition,
feature binding, scene segmentation, and stereo correspondence.
CAREER EXPERIENCE
Postdoctoral Fellow
Carnegie Mellon University, Center for the Neural
Basis of Cognition
January 2005 –
present (supervisor: Tai Sing Lee, PhD)
I implemented the Tucker-Davis
Technologies 16-channel multi-electrode system to carry out experiment
with recordings from up to 8 electrodes in V1 of awake and alert
macaques. I helped set up, implant, and carry out experiments using
data from a chronically implanted 100-electrode Cyberkinetics
array into V1 (implant recorded activity for nearly two years). I
helped set up, implant, and carry out experiments using a chronically
implanted 32-electrode Gray Matter microdrive
and chamber system into V2 (implant still recording after 10 months). I
designed and ran experiments exploring single-unit and ensemble
representations of depth inference in V1 and V2. I mentored and
supervised other post-docs, graduate students, and undergraduate
students in computer science, engineering, and neuroscience. I
presented my work in seminars and conferences as lectures and posters,
and published my work, for both general and neuroscience audiences. I
gave lectures in graduate and undergraduate classes on visual
neuroscience and signal processing topics. One of my own NIH proposals
was funded and I helped write and develop several other funded
proposals in the laboratory from a variety of funding sources. I
learned the associated surgical procedures, as well as anesthesia and
physiological monitoring for electrophysiological recordings from
visual cortex of macaque.
Grant
Support:
NIMH IBSC
MH64445--------(James L McClelland) Interactive processes in perception
(Tai Sing Lee and Carl Olson)
NSF CISE
IIS-0413211------Statistical and neural basis of 3D surface inference
in vision (Tai Sing Lee)
NSF CISE
IIS-0713206------Computational and Neurophysiological
Investigation of Robust Visual Inference (Tai Sing Lee)
NEI F32
EY017770-----------Spatial Integration of V1 Horizontal Disparity
Signals (Jason Samonds)
AFOSR
FA9550-09-1-0678--Multi-cue surface representation (Tai Sing Lee &
Christopher Tyler)
NEI R01
EY022247----------- Neural representation of hierarchical visual
concepts in natural scenes (Tai Sing Lee & Alan Yuille)
Postdoctoral Fellow
Vanderbilt University, Department of Electrical
Engineering and Computer Science
May 2004 – January
2005 (supervisor: AB Bonds, PhD)
I designed and ran
experiments exploring origins of cortical synchrony, along with
cooperative interactions involved in contour detection, using
electrophysiological recordings from the 100-electrode Bionics
Technologies array in primary visual cortex of anesthetized cats. I
mentored and supervised graduate students and undergraduate students in
computer science and engineering. I presented my work in seminars and
conferences as lectures and posters, and published my work, for both
general and neuroscience audiences.
Grant
Support:
NEI RO1
EY014680----------Representation of Visual Information in Striate
Cortex (AB Bonds)
Research Assistant
Vanderbilt University, Department of Biomedical
Engineering
May 1999 – May 2004
(supervisor: AB Bonds, PhD)
I
implemented, designed, and maintained stimuli, data collection, and
data analysis systems on PC, Sun Microsystems, and custom hardware. I
developed and implemented a broad range of neural signal processing
tools (emphasis on probabilistic signal processing). I implemented and
maintained 100- and 25-electrode Bionics Technologies microelectrode
arrays for large scale multi-unit recordings. I helped with the
successful formulation and submission of an NIH grant (NEI RO1
EY014680). I presented my work in seminars and conferences as lectures
and posters, and published my work, for both general and neuroscience
audiences. I learned the associated surgical procedures, as well as
anesthesia and physiological monitoring for acute electrophysiological
recordings from visual cortex of cats.
Grant
Support:
NEI RO1
EY03778-----------Spatial Characteristics of Cells in the Striate Cortex
(AB Bonds)
NEI RO1
EY014680----------Representation of Visual Information in Striate
Cortex (AB Bonds)
Research Technician
Medical College of Wisconsin, Functional Imaging Research Center
May 1998-May 1999
(supervisor: Thomas E Prieto, PhD)
I designed
mechanical and electrical subject interface systems, and maintained
these systems, for functional magnetic resonance imaging studies. My
projects included audio and visual stimuli, feedback and response
systems, and head restraint.
Grant
Support:
NIH P01
MH51358----------(James S Hyde) Subject Interface Systems (Thomas E Prieto)
EDUCATION
Vanderbilt University, Nashville TN
Doctor of Philosophy in
Biomedical Engineering, May 2004
Vanderbilt University,
Nashville TN
Spatiotemporal analysis of synchronization
of neural ensembles for spatial discriminations in cat striate cortex. Vanderbilt
University
PhD Dissertation, 2004. (pdf)
Master of Science in
Biomedical Engineering, May 2002
Vanderbilt University,
Nashville TN
Spike train analysis of spatial
discriminations and functional connectivity of pairs of neurons in cat
striate cortex. Vanderbilt
University
MS Thesis, 2002. (pdf)
G.P.A. 3.44(4.0)
Curriculum: Real-time Systems, Bioelectrical Signals, DSP, Artificial
Intelligence, Neural Networks, Morphological Image Processing, Medical
Imaging, Excitable Membranes, Visual System.
Workshops: NIPS Spike Train Analysis, UC-Berkeley BioMEMS
Research Assistantship,
Academic Scholarship, Graduate School
Travel Awards, Student Paper Award
Milwaukee School of Engineering,
Milwaukee WI
Bachelor of Science in
Biomedical Engineering, May 1999
Senior Design: Heart Sound
Simulator, Design Team Associate Project Manager
G.P.A.
3.69(4.0) Major G.P.A. 3.70(4.0)
Curriculum: Instrumentation, Imaging, Signals, Control Systems,
Thermo/Fluids, Biomedical Design, Biomaterials.
Workshops:
MCW fMRI Experiment Design & Issues
Alumni
Association Student Achievement Award
M.S.O.E.,
Walton Foundation, and Pearl Noren Scholarships
PUBLICATIONS
Invited Talks:
Spatiotemporal
analysis of synchronization of neural ensembles for spatial
discriminations in cat striate cortex. Sloan-Swartz Center, Salk Institute for Biological Studies.
La Jolla, CA. April 26, 2004. (slide show)
Neuronal
Ensemble Recording in the Cat Primary Visual Cortex. Center for the Neural Basis of Cognition.
Carnegie
Mellon University. Pittsburgh, PA. July 23, 2004.
Evidence of cooperative and
competitive mechanisms for stereo computation in macaque V1. Workshop: What
role does spike synchrony or correlation play in sensory processing? Cosyne, The Canyons, Utah. February 26-27, 2007
(slide show)
Representations of scene
statistics in the primary visual cortex for inferring binocular
disparity. Brain
Corporation. La Jolla,
CA November 1, 2011 (pdf)
(slide show)
Workshops Organized:
Samonds
JM, Smith MA. What role does spike synchrony or correlation play in
sensory processing? Cosyne, The
Canyons, Utah.
February
26-27, 2007 (link)
Presentations:
Allison JD, Smith KR, Atherton ME, Samonds
JM, Bonds AB. Temporal frequency tuning of cross orientation inhibition
in the striate cortex of cats. [ARVO abstr] Invest
Ophthalmol Vis Sci,
2000. (abstract) (poster) (related article)
Brown HA, Allison JD, Samonds JM, Bonds AB. Nonlocal
origin of response supression from stimulation
outside the Classic Receptive Field in Area 17 of the cat. [VSS abstr] J Vision 1(3):200a, 2001. (abstract)
Brown HA, Allison JD, Samonds JM, Bonds AB.
Area 18 contribution to spatial integration of receptive fields of area
17 cells in the cat. [VSS abstr] J Vision
2(7):582a, 2002. (abstract)
Samonds JM, Allison JD, Brown HA, Bonds AB.
Spike train analysis reveals cooperation between Area 17 neuron pairs
that enhances fine discrimination of orientation. [VSS abstr] J Vision 2(7):196a, 2002. (poster) (abstract)
Bonds AB, Samonds JM, Allison JD. Spike train analysis
reveals cooperation between Area 17 neuron pairs that enhances fine
discrimination of orientation. Annual Meeting of the Society for
Mathematical Psychology, 2002. (slide show) (abstract)
Brown HA, Allison JD, Samonds JM, Thomas AM,
Bonds AB. Characterization of area 18 modulation from stimulation
outside the receptive field of area 17 cells in the cat. [VSS abstr] J Vision 3(9):373a, 2003. (abstract)
Samonds JM, Allison JD, Brown HA, Bonds AB.
Cooperative Synchronized Assemblies and Orientation Discrimination.
[VSS abstr] J Vision 3(9):152a, 2003. (slide show) (abstract)
Brown HA, Samonds JM, Bonds AB. Area 18 contributes to
contrast adaptation of Area 17 cells in the cat. [VSS abstr] J
Vision 4(8):224a, 2004. (abstract)
Samonds JM*, Brown HA, Bonds AB.
Relationships between the spatiotemporal spike train structure and
cortical synchronization. [VSS abstr] J Vision 4(8):17a, 2004. (slide show) (abstract)
*Student Travel Award
Samonds JM, Bonds AB. Quantitative
analysis of cooperation and structure in the cat striate cortex. Workshop
on Coding of Visual Information in the Brain, Isle of Skye, Scotland, 2004. (abstract) (paper)
Zhou
Z*, Samonds JM, Bernard MR, Bonds AB.
Synchronous activity in cat visual cortex encodes collinear and cocircular contours. [VSS abstr]
J Vision 5(8):675a, 2005. (poster) (abstract)
*Student Travel Award
Bernard
MR, Samonds JM, Zhou Z, Bonds AB. An integration
model of detection and quantification of synchronous firing within cell
groups. [VSS abstr] J Vision 5(8)676a, 2005. (poster) (abstract)
Samonds
JM*, Potetz B, Lee TS. Cooperative processing
of spatially distributed disparity signals in macaque V1. [VSS abstr] J
Vision 6(6):831a, 2006. (slide show) (abstract)
*Student Travel Award
Potetz BR, Samonds
JM, Lee TS. Disparity and luminance preference are correlated in
macaque V1, matching natural scene statistics. [Soc Neurosci abstr],
2006. (slide show) (abstract)
Samonds JM, Potetz
BR, Lee TS. Evidence of cooperative and competitive mechanisms for
stereo computation in macaque V1. [Soc
Neurosci abstr],
2006. (poster) (abstract)
Samonds JM, Potetz
BR, Lee TS. Neurophysiological Evidence of
Cooperative Mechanisms for Stereo Computation. [NIPS], 2006. (poster)
Samonds JM, Potetz
BR, Lee TS. Evidence of cooperative and competitive mechanisms for
stereo computation in macaque V1. OIST
Workshop on Cognitive Neurobiology, Onna Village,
Okinawa, Japan, 2007. (poster) (abstract)
Samonds JM, Potetz
BR, Lee TS. Implications of neuronal interactions on disparity tuning
in V1. [Soc Neurosci
abstr], 2007. (poster) (abstract)
Samonds JM, Potetz
BR, Poplin RE, Lee TS. Neuronal interactions reduce local feature
uncertainty. [Soc Neurosci abstr],
2008. (poster) (abstract)
Samonds JM, Poplin RE, Lee TS.
Binocular disparity in the surround biases V1 responses to ambiguous
binocular stimuli within the classical receptive field. [Soc Neurosci abstr], 2009. (poster) (abstract)
Poole B, Lenz I, Lindsay G, Samonds JM, Lee TS. Connecting scene statistics to
probabilistic population codes and tuning properties of V1 neurons.
[Soc Neurosci abstr],
2010. (abstract)
Samonds JM, Poole
B, Lee TS. V1 interactions reduce local uncertainty about binocular
disparity over time. [Soc Neurosci abstr], 2010. (slide show) (abstract)
Lindsay G, Poole B, Doiron B, Samonds JM, Lee TS. Quality of tuning curves and
their effect on population coding. [Cosyne],
2011. (abstract)
Samonds JM, Potetz
BR, Tyler
CW, Lee TS. Dynamics of binocular disparity tuning explained by a
neural network model with recurrent interactions. [Soc Neurosci abstr], 2011. (poster) (abstract)
Samonds JM, Li X, Tyler CW, Lee TS. Neuronal
interactions in area V2 and their role in stereoscopic
three-dimensional shape processing. [Soc Neurosci
abstr], 2012. (poster) (abstract)
Li X, Samonds
JM, Lui Y, Lee TS. Pairwise
interaction of V1 disparity neurons depends on spatial configural relationship between receptive fields as
predicted by 3D scene statistics. [Soc Neurosci
abstr], 2012. (poster) (abstract)
Peer-reviewed Articles:
Brown HA, Allison JD, Samonds JM, Bonds AB.
Nonlocal origin of response suppression outside of the classical receptive
field in Area 17 of the cat. Vis
Neurosci 20(1):85-96, 2003. (pdf)
Samonds JM, Allison JD, Brown HA, Bonds AB.
Cooperation between Area 17 neuron pairs enhances fine discrimination
of orientation. J Neurosci
23(6):2416-2425, 2003. (pdf)
*Reviewed by the Faculty of 1000
Samonds JM, Allison JD, Brown HA,
Bonds AB. Cooperative synchronized assemblies enhance orientation
discrimination. Proc Nat Acad Sci USA 101(17):6722-6727,
2004. (pdf) (Daily Register) (Engineering News)
Samonds JM, Bonds AB. From another
angle: Differences in cortical coding between
fine and coarse discrimination of orientation. J Neurophysiol
91(3):1193-1202, 2004. (pdf)
Samonds JM, Bonds AB. Real-time visualization of
neural synchrony for identifying coordinated cell assemblies. J Neurosci Meth 139(1):51-60, 2004. (pdf)
(link)
Samonds JM, Bonds AB. Gamma oscillation maintains
stimulus structure-dependent synchronization in cat visual cortex. J Neurophysiol
93(1):223-236, 2005. (pdf)
Samonds JM, Zhou Z, Bernard MR, Bonds AB. Synchronous
activity in cat visual cortex encodes collinear and cocircular
contours. J Neurophysiol
95(4):2602-2616, 2006. (pdf)
*Reviewed by the Faculty of 1000
Samonds JM, Potetz
BR, Lee TS. Neurophysiological Evidence of
Cooperative Mechanisms for Stereo Computation. Advances in Neural Information Processing Systems 19, MIT
Press, 2007. (pdf)
Samonds JM, Potetz
BR, Lee TS. Cooperative and competitive interactions facilitate stereo
computations in macaque primary visual cortex. J Neurosci 29(50):15780-15795,
2009. (pdf)
Samonds JM, Potetz
BR, Lee TS. Relative luminance and binocular disparity preferences are
correlated in macaque V1, matching natural scene statistics. Proc Nat Acad
Sci USA 109(16):6313-6318, 2012. (pdf)
Samonds JM, Potetz
BR, Tyler
CW, Lee TS. Recurrent connectivity can account for the dynamics of
disparity processing in V1. J Neurosci
33(7):2934-294, 2013. (pdf)
Samonds JM, Potetz
BR, Lee TS. Sample skewness as a statistical
measurement of neuronal tuning sharpness. (under
review) 2013.
Li X, Samonds
JM, Lui Y, Lee TS. Encoding of 3D surface
priors in the functional interactions among V1 disparity-tuned neurons.
(in preparation) 2013.
Samonds JM, Tyler CW, Lee TS. Stereoscopic
stimuli in the surround disambiguate V1 classical receptive field
responses. (in preparation) 2013.
Poole B, Samonds
JM, Lee TS. Neural encoding of scene statistical priors. (in
preparation) 2013.
Reviews and Commentary:
Samonds JM and Bonds AB.
Cooperative and temporally structured information in the visual cortex. Signal Processing, 85(11):2124-2136,
2005. (pdf)
Samonds JM. Feature configuration
modulates effective connectivity. J
Neurosci 26(14):3621-3623, 2006. (pdf)
Kelly RC, Smith MA, Samonds JM, Kohn A, Bonds AB, Movshon
JA, Lee TS. Comparison of recordings from microelectrode arrays and
single electrodes in visual cortex. J
Neurosci 27(2):261-264, 2007. (pdf) (cover)
Book Chapters:
Lee
TS, Stepleton T, Potetz
B, Samonds JM. Neural coding of scene
statistics for surface and object inference In Object Categorization: perspectives from human and machine
vision, Ed. Sven Dickinson, Ales Leonardis,
Bernt Schiele,
Michael Tarr, Cambridge University Press,
2008. (pdf)
Samonds JM, Lee TS.
Neuronal interactions and their role in solving the stereo
correspondence problem, In Vision
in 3D Environments, Ed. Laurence Harris, Michael Jenkin, Cambridge University Press, 2011. (pdf)
Invited Reviewer:
Journal
of Neuroscience
Journal
of Neurophysiology
Journal
of Computational Neuroscience
Network:
Computation in Neural Systems
Journal
of Neuroscience Methods
Vision
Research
Journal
of Vision
Behavioral
and Brain Functions
Signal
Processing
AFFILIATIONS
Society for Neuroscience 2006-present
American Physiological Society
2003-present
Visual Sciences Society 2001-present
Association for Research in Vision
& Opthalmology 2000-2001
Institute for Electrical and
Electronics Engineers 1997-present
Engineering in Medicine and Biology
Society 1997-present
Biomedical Engineering Society
1995-present
Tau Omega Mu Honor Society 1998
COMPUTER
SKILLS
C, ADA, Fortran
programming languages
Matlab (Windows, Mac, and Linux)
Cadkey
Solidworks and Rapid Prototype design
DOS, Windows, Mac, and Unix environments (also cluster systems)
Microsoft and Corel Office programs
Pspice
INTERESTS
Mountain biking, cycling, hiking,
photography, football, music, literature
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