Introduction to Neural Data Analyses - Psychology 435/535
Readings and Resources
- Week1 Introduction to biophysical neurons and neural networks.
- Readings
(optional): Neuroscience Primer: Brain Facts
(optional) Basic Information about the brain from the Society for Neuroscience
- Week2 Basic recording techniques: single and multi unit data. Generating your own data: surrogate datasets, NEURON simulations.
- Readings:
Johnson, 1996: Point Process models of single-neuron discharges
(optional) Reinagel and Reid, 2002: Precise Firing Events Are Conserved across Neurons
(optional) Berry and Meister 1998:
Refractoriness and Neural Precision
(optional)
Userey et. al, 2003: Receptive Fields and Response Properties of Neurons in Layer 4 of Ferret Visual Cortex
Part I: Single unit data analyses
- Week3 Spontaneous activity: Spike count, firing rate, CV, return maps, fano factor.
- Readings:
Pare et al, 1998:
Impact of Spontaneous Synaptic Activity on the Resting Properties of Cat Neocortical Pyramidal Neurons In Vivo
Holt et al, 1996: Comparison of Discharge Variability In Vitro and In Vivo in Cat Visual Cortex Neurons
(optional):
Siegel 1990: Non Linear Dynamical Systems Theory and Primary Visual Cortical Processing
(optional): Teich
et al 1996: Temporal Correlation in Cat Striate-Cortex Neural Spike Trains
- Week4 Stimulus driven activity: Histograms, spike triggered average, PSTH.
- Readings:
Kara et al, 2000: Low Response Variability in Simultaneously Recorded Retinal, Thalamic, and Cortical Neurons .
Reich et al,
1997: Response Variability and Timing Precision of Neuronal Spike Trains
In Vivo
(optional): Gur et al, 1997:
Response Variability of Neurons in Primary Visual Cortex (V1) of
Alert Monkeys
(optional):
Lewen et al, 2001: Neural coding of naturalistic motion stimuli
- Week5 Reverse correlations, tuning curves, receptive fields, discriminability and ROC curves.
- Readings:
Ringach and Shapley, 2004: Reverse Correlation in neurophysiology
Userey et al, 2003: Receptive fields and response properties of neurons in Layer 4 of ferret visual cortex
(optional) Quiroga et al,
2005: Invariant visual representation by single neurons in the human brain
- Week6 Rhythms and oscillations, autocorrelation, field potentials, power spectra and spectrogram.
- Readings:
Gray and di Prisco 1997: Stimulus-Dependent Neuronal Oscillations and Local Synchronization in Striate Cortex of the Alert Cat
Kocsis and Li 2004:
In vivo contribution of h-channels in the septal pacemaker
to theta rhythm generation
(optional): Ghose and Freeman 1992: Oscillation discharges in the visual system: Does it have a functional role?
- Week7 Displaying single unit data and analyses.
- Week8 Spike timing and spike patterns. Reliability, precision.
- Readings:
Fellous et al., 2004:
Discovering Spike Patterns in Neuronal Responses
Ikegaya et al, 2004:
Synfire Chains and Cortical
Songs: Temporal Modules of
Cortical Activity
(optional)
Mokeichev et al, 2007: Stochastic Emergence of Repeating
Cortical Motifs in Spontaneous Membrane
Potential Fluctuations In Vivo.
(optional) Ikegaya et al, 2008:
Statistical Significance of Precisely Repeated Intracellular
Synaptic Patterns
Part II: Multi-unit data analyses
- Week9 Population vectors, cortical maps.
- Readings:
Miller et. al, 1991: Representation of Sensory Information in the Cricket Cereal Sensory System. I. Response Properties of the Primary Interneurons.
Crowe et. al, 2005:
Dynamics of Parietal Neural Activity during Spatial Cognitive Processing.
(optional) Fortier et. al, 1989:
Cerebellar Neuronal Activity Related to Whole-Arm Reaching Movements in the Monkey
- Week10 Dimension reduction: PCA and ICA.
- Readings:
Chapin and Nicolelis 1999:
Principal component analysis of neuronal ensemble activity reveals multidimensional somatosensory representations.
Matsumoto et al, 2005:
Population Dynamics of Face-responsive Neurons in the Inferior Temporal Cortex
- Week11 Cross correlations, joint-PSTH, synchrony and coherence.
- Readings:
Aersten et al, 1989: Dynamics of Neural Firing Correlation: Modulation of 'effective connectivity'
Fries et al, 2001: Modulation of oscillatory neuronal synchronization by selesctive visual attention.
(optional)
Kimpo et al, 2003: Propagation of correlated activity through multiple stages of a neural circuit.
- Week12: Displaying multi-unit data and analyses
- Week13 Introduction to information theory. Measures of information (Shannon Vs Fisher).
- Readings:
Hastopoulos et al., 1998: Information about movement direction obtained from synchronous activity of motor cortical neurons.
Dean et al. 2005: Neural population coding of sound level adapts to stimulus statistics.
(optional) Kanitscheider et al., 2015:
Measuring Fisher Information Accurately in Correlated Neural Populations
- Week14 Projects presentations.
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