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ref: -0 tags: sparse coding reference list olshausen field date: 03-11-2019 21:59 gmt revision:3 [2] [1] [0] [head]

This was compiled from searching papers which referenced Olhausen and Field 1996 PMID-8637596 Emergence of simple-cell receptive field properties by learning a sparse code for natural images.

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ref: -2004 tags: Olshausen sparse coding review date: 03-08-2019 07:02 gmt revision:0 [head]

PMID-15321069 Sparse coding of sensory inputs

  • Classic review, Olshausen and Field. 15 years old now!
  • Note the sparsity here is in neuronal activation, not synaptic activity (though one should follow the other).
  • References Lewicki's auditory studies, Efficient coding of natural sounds 2002; properties of early auditory neurons are well suited for producing a sparse independent code.
    • Studies have found near binary encoding of stimuli in rat auditory cortex -- e.g. one spike per noise.
  • Suggests that overcomplete representations (e.g. where there are more 'second layer' neurons than inputs or pixels) are useful for flattening manifolds in the input space, making feature extraction easier.
    • But then you have an under-determined problem, where presumably sparsity metrics step in to restrict the actual coding space. Authors mention that this could lead to degeneracy.
    • Example is the early visual cortex, where axons to higher layers exceed those from the LGN by a factor of 25. Which, they say, may be a compromise between over-representation and degeneracy.
  • Sparse coding is a necessity from an energy standpoint -- only one in 50 neurons can be active at any given time.
  • Sparsity increases when classical receptive field stimuli in V1 is expanded with a real-world-statistics surround. (Gallant 2002).

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ref: -0 tags: neural coding rats binary permutation retrosplenial basolateral amygdala tetrode date: 12-19-2016 07:39 gmt revision:1 [0] [head]

PMID-27895562 Brain Computation Is Organized via Power-of-Two-Based Permutation Logic.

  • Nice and interesting data, sort of kitchen sink of experiments but ...
  • At first blush it seems they have re-discovered Haar wavelets / the utility of binary decompositions.
  • Figures 9 and 10, however, suggest a discriminable difference in representation in layers 2/3 and 5/6, supporting their binary hypothesis.
    • The former targeted the mouse's large retrosplenial cortex; the latter, the hamster's prelimbic cortex.

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ref: -0 tags: retinal ganglion cells neural encoding Farrow date: 07-31-2013 16:21 gmt revision:0 [head]

PMID-21273316 Physiological clustering of visual channels in the mouse retina

  • Anatomy predicts that mammalian retinas should have in excess of 12 physiological channels, each encoding a specific aspect of the visual scene.
  • Although several channels have been correlated with morphological cell types, the number of morphological types generally exceeds the known physiological types.
  • Here, we attempted to sort the ganglion cells of the mouse retina purely on a physiological basis.
  • Result: The optimal partition was the 12-cluster solution of the Fuzzy Gustafson-Kessel algorithm.
    • This might be useful elsewhere ...
  • Farrow Lab is responsible for the 11,011 electrode array.

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ref: -0 tags: decoding recording todo read biocompatibility histology electrodes future date: 01-28-2013 20:52 gmt revision:9 [8] [7] [6] [5] [4] [3] [head]

Things to read!

decoding:

  • PMID-20359500 Population decoding of motor cortical activity using a generalized linear model with hidden states
  • Robust satisficing linear regression: Performance/robustness trade-off and consistency criterion
  • PMID-15813408 Closed-loop cortical control of direction using support vector machines
  • Efficient Decoding With Steady-State Kalman Filter in Neural Interface Systems
    • Fixed gain: We analyze a low-complexity Kalman filter implementation in which the filter gain is approximated by its steady-state form, computed offline before real-time decoding commences.
    • We also find that the steady-state Kalman filter reduces the computational load (algorithm execution time) for decoding the firing rates of 25±3 single units by a factor of 7.0±0.9.

electrodes:

other random scribblings: Vascularization {1027} histology {736},{737} and size {1028},{747},{1026}, insulation {1033}. How very very important -- as important or moreso than the recording technology. What has happened to {149} ?

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ref: -0 tags: SUA LFP BMI decoding Donoghue date: 07-24-2012 15:54 gmt revision:0 [head]

PMID-22157115 Decoding 3D reach and grasp from hybrid signals in motor and premotor cortices: spikes, multiunit activity, and local field potentials.

  • Idea: you get more information from SUA (what they call SA) activity than broadband LFPS for predicting reach direction / position for a freely moving monkey.
  • C.F. {253}

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ref: Nicolelis-1998.11 tags: spatiotemporal spiking nicolelis somatosensory tactile S1 3b microwire array rate temporal coding code date: 12-28-2011 20:42 gmt revision:3 [2] [1] [0] [head]

PMID-10196571[0] Simultaneous encoding of tactile information by three primate cortical areas

  • owl monkeys.
  • used microwires arrays to decode the location of tactile stimuli; location was encoded through te population, not within single units.
  • areas 3b, S1 & S2.
  • used LVQ (learning vector quantization) backprop, LDA to predict/ classify touch trials; all yielded about the same ~60% accuracy. Chance level 33%.
  • Interesting: "the spatiotemporal character of neuronal responses in the SII cortex was shown to contain the requisite information for the encoding of stimulus location using temporally patterned spike sequences, whereas the simultaneously recorded neuronal responses in areas 3b and 2 contained the requisite information for rate coding."
    • They support this result by varying bin widths and looking at the % of correctly classivied trials. in SII, increasing bin width decreases (slightly but significantly) the prediction accuracy.

____References____

[0] Nicolelis MA, Ghazanfar AA, Stambaugh CR, Oliveira LM, Laubach M, Chapin JK, Nelson RJ, Kaas JH, Simultaneous encoding of tactile information by three primate cortical areas.Nat Neurosci 1:7, 621-30 (1998 Nov)

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ref: Schwartz-1988.08 tags: Georgopoulos 1988 motor coding cortex population vector date: 12-20-2011 00:49 gmt revision:3 [2] [1] [0] [head]

PMID-3411361[0] Primate motor cortex and free arm movements to visual targets in three-dimensional space. I. Relations between single cell discharge and direction of movement.

  • 475/568 (83%) of cells varied in an orderly fashion with movement -- tuned to a movement direction.
    • As before, binned the firing based on movement direction.
  • generalize 2-D results [1][2]
  • Totally awesome tracking system: a spark gap was attached to the monkey's wrist and was discharged every 20ms. The sonic signal was picked up by at least 3 of the 8 ultrasonic recievers placed at the corners of the workspace and the xyz coordinates were calculated from the sonic delays using a microprocessor-based system.
  • monkey(s) had to press lighted buttons (arcade buttons) within this workspace.
  • otherwise same materials / methods as before.
  • every effort was made to isolate initially negative-going action potentials, and indication that the neuron was less likely to be damaged.
    • fiber spikes are initially positive. Cite Mountcastle et al 1969.
  • EMG signals gained 3000 and bandpassed 100-500Hz. rather narrow, but normal I guess.
  • Neural data recorded as interspike intervals.
  • vectoral dot-product tuning of cells, with the coeficients set by multiple linear regression.
    • This is equivalent to cosine tuning.
  • rather complicated CUSUM for determining onset of activity - including inhibition.
  • as in the earlier study, 60% of cells were tuned in the reaction time, and 85% within the movement time.
  • EMG activity looks like it can be described with cosine tuning as well.
  • 3D tuning directed over the whole space.
  • Residuals of firing rates measured with respect to the tuning functions; residuals were mean zero and approximately the same spread, and were distributed equally over the 3D space.
  • movement latency about 300ms. pretty quick reaction time?
  • Got some pretty awesome graphics for 1986 :)
  • The discharge rate of motor cortical cells varies with the magnitude of force and that cells with higher thresholds are recruited at progressively higher forces (Hepp-Reymond et al 1978).
  • Murphy et al 1982 found that ICMS to M1 caused rotation about single joints, which is inconsistent with cosine tuning (would require complex tuning, or tuning to joints).
  • They argue that cosine tuning refects transformatino by the propriospinal system, which engages patterns of muscle activity.
    • Most PTNs can influence several motoneuron pools in the spinal cord. (Fetz and Finocchio 1975, Fetz and Cheney 1978, 1980 ... Lemon 1986, Cheney and Fetz 1985)
    • Suggest that PTNs related to the weighted combinations of muscles.

____References____

[0] Schwartz AB, Kettner RE, Georgopoulos AP, Primate motor cortex and free arm movements to visual targets in three-dimensional space. I. Relations between single cell discharge and direction of movement.J Neurosci 8:8, 2913-27 (1988 Aug)
[1] Georgopoulos AP, Kalaska JF, Caminiti R, Massey JT, On the relations between the direction of two-dimensional arm movements and cell discharge in primate motor cortex.J Neurosci 2:11, 1527-37 (1982 Nov)
[2] Thach WT, Correlation of neural discharge with pattern and force of muscular activity, joint position, and direction of intended next movement in motor cortex and cerebellum.J Neurophysiol 41:3, 654-76 (1978 May)

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ref: notes-0 tags: neuroscience ion channels information coding John Harris date: 01-07-2008 16:46 gmt revision:4 [3] [2] [1] [0] [head]

  • crazy idea: that neurons have a number of ion channel lines which can be selectively activated. That is, information is transmitted by longitudial transmission channels which are selectively activated based on the message that is transmitted
  • has any evidence for such a fine structure been found?? I think not, due to binding studies, but who knows..
  • dude uses historical references (Neumann) to back up his ideas. I find these sorts of justifications interesting, but not logically substantiative. Do not talk about the opinions of old philosophers (exclusively, at least), talk about their data.
  • interesting story about holography & the holograph of Dennis Gabor.
    • he does make interesting analogies to neuroscience & the importance of preserving spatial phase.
  • fourier images -- neato.
conclusion: interesting, but a bit cooky.

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ref: bookmark-0 tags: blackfin coding practice software engineering institute Carnegie mellon ucalgary date: 10-17-2007 14:26 gmt revision:0 [head]

Little Stupid Details - what they are, and how to avoid them