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19 results for “macaque monkey”
Two-probe macaque monkey auditory LFP
<p>Dataset accompanying paper Klein, N., Siegle, J.H., Teichert, T., Kass, R.E. (2021) "Cross-population coupling of neural activity based on Gaussian process current source densities". </p> <p>Auditory local field potential (LFP) recordings and evoked multi-unit activity (MUA) from two 24-electrode linear probes (V-Probes from Plexon) inserted in primary auditory cortex of a macaque monkey. The probes were arranged parallel to the iso-frequency bands in primary auditory cortex (A1), and had similar tonal response fields with preferred frequencies close to 1000 Hz. The first probe (which we call the lateral probe) was located centrally in A1, while the second probe (which we call the medial probe) was located more medially and closer to the boundary of A1 with the medio-lateral belt. The medial probe had lower response threshold, shorter MUA latencies, and overall stronger current sinks and sources than the lateral probe. The spacing between electrodes on each probe was 100 microns so that the probe spanned 2,300 microns. The treatment of the animals was in accordance with the guidelines set by the U.S. Department of Health and Human Services (NIH) for the care and use of laboratory animals, and all methods were approved by the Institutional Animal Care and Use Committee at the University of Pittsburgh.</p> <p>See README.txt for precise description of data files.</p>
Data from Churan et al. Action-dependent processing of self-motion in parietal cortex of macaque monkeys
<p><strong>Animals</strong></p> <p>Two adult male monkeys (macaca mulatta) participated in the study. Single-unit recordings were done using standard tungsten microelectrodes (FHC, Bowdoin, USA) with an impedance of ~2 MΩ at 1 kHz that were positioned by an hydraulic micromanipulator (MO-95, Narishige, Tokyo, Japan). A stainless-steel guiding tube was used for transdural penetration and support of the electrode. The neuronal signal was processed using a commercial system (Alpha Omega, Nof HaGalil, Israel). It was band-pass filtered (cut-off frequencies at 500 Hz and 8000 Hz) and sampled at 44 kHz.</p> <p><strong>Apparatus</strong></p> <p>During recordings, the monkeys were sitting head-fixed in a primate chair in a dark room, and their eye-position was monitored at 1000 Hz using a video-based eye tracker (EyeLink 1000, SR Research, Ottawa, Canada). The chair was positioned at a distance of 97 cm from a semi-transparent screen (size 160 cm x 90 cm, subtending the central 79 deg x 50 deg of the visual field) on which the visual stimuli were back-projected using a PROPixx-projector (VPixx Technologies, St-Bruno de Montarville, Canada) running at a resolution of 1920 x 1080 pixels and at a frame rate of 100 Hz. A custom-made touch sensor (length 10 cm, diameter 1 cm) was integrated into the monkey chair in front of the monkey and its status was monitored online at a sampling rate of 1 kHz.</p> <p><strong>Data processing</strong></p> <p>Single units were isolated using a semi-manual spike sorter (Plexon Inc, Dallas, Texas). To this end we used a threshold on the electrode signal that was set manually to separate the action potentials from noise. The samples that exceeded the threshold were further analyzed using principal components as well as other features that were derived from the signal (like local maxima and minima). Then clusters of samples with similar properties were identified visually and each defined as representing a single unit. For a detailed description of the sorting process see the offline User Guide (Plexon, 2020).</p> <p>Further description of the Methods, see: Churan et al. 2021, doi: 10.1152/jn.00049.2021</p> <p><strong>Data:</strong></p> <p>The file '<strong>data_active_passive.mat</strong>' contains following variables:</p> <p>monkey: code for the tested monkey (1=monkey S, 2=monkey O)</p> <p>baseline: Mean and standard deviation of the activity in a time window of 150 ms to 20 ms before the press of the button.</p> <p>reaction: Mean time between the switch of the color of the fixation point from red to green and the time of the button press.</p> <p>anti_p: Significance of a one sided t-test between the baseline activity and activity 200 ms to 0 ms prior to the onset of stimulus motion.</p> <p>p_win (a (1-3),b (1-3),c (1-3),n(1-110)): 4D matrix containing p-values of t-tests</p> <p>a:</p> <p>1: Was preparatory activity significantly higher in the passive relative to the active condition?</p> <p>2: Was preparatory activity significantly lower in the passive relative to the active condition?</p> <p>3: Was the tonic motion response (200 ms to 500 ms after motion onset) significantly different between the active and the passive conditions?</p> <p>b:</p> <p>1: Calculation was made based on all motion directions</p> <p>2: Calculation was made based on the preferred motion direction</p> <p>3: Calculation was made based on the flanking motion directions</p> <p>c:</p> <p>1: Calculation was made based on all presented delays</p> <p>2: Calculation was made based on the shorter set of delays (500 ms to 700 ms)</p> <p>3: Calculation was made based on the longer set of delays (701 ms to 1000 ms)</p> <p>n: number of the investigated neuron</p> <p>psth_alldir: cell array containing the PSTHs (obtained by convolving each spike with a Gaussian as described in the manuscript) in a time window between 1000 ms before and 800 ms after the onset of motion (in 1 ms steps). PSTHs were calculated based on data from all tested directions. Each cell array consists of 4 elements containing different conditions:</p> <p>1: active condition</p> <p>2: passive condition shorter set of delays (500 ms to 700 ms)</p> <p>3: passive condition longer set of delays (701 ms to 1000 ms)</p> <p>4: passive condition all delays</p> <p>psth_bestdir: same as above - using only the preferred direction</p> <p>psth_nbestdir: same as above - using only the flanking directions</p> <p>d_alldir: cell array containing the continuous d-prime (as described in the manuscript) in a time window between 1000 ms before and 800 ms after the onset of motion (in 1 ms steps). d' were calculated based on data from all tested directions. Each cell array consists of 4 elements containing different conditions:</p> <p>1: active condition</p> <p>2: passive condition shorter set of delays (500 ms to 700 ms)</p> <p>3: passive condition longer set of delays (701 ms to 1000 ms)</p> <p>4: passive condition all delays</p> <p>d_bestdir: same as above - using only the preferred direction</p> <p>d_nbestdir: same as above - using only the flanking directions</p> <p>The file '<strong>timecourse_preparatory.mat</strong>' contains the cell array 'd_alldir_preparatory' that consists of 201 elements. Each of the elements contains PSTHs of 23 neurons that have exhibited significant preparatory activity in the passive condition in a time window 1000 ms to 0 ms before the motion onset. Each of the 201 elements describes a specific range of delays between button press and motion onset. This delay range is always a 100 ms wide sliding window, e.g. the element 1 represents delays between 500 and 600 ms, in element 2, the delays are between 501 and 601 ms and so on with the last element (201) representing delays between 700 and 800 ms.</p> <p>Some example code that re-creates most of the figures from the manuscript and that may serve as a starting point for further exploration of the data is available on request from the corresponding author.</p>
Behavioral evidence for memory replay of video episodes in macaque monkeys
<p>Humans recall the past by replaying fragments of events temporally. Here, we demonstrate a similar effect in macaques. We trained six rhesus monkeys with a temporal-order judgement (TOJ) task and collected 5000 TOJ trials. In each trial, they watched a naturalistic video of about 10 s comprising two across-context clips, and after a 2-s delay, performed TOJ between two frames from the video. The monkeys apply a non-linear forward, time-compressed replay mechanism during the temporal-order judgement. In contrast with humans, such compression of replay is however not sophisticated enough to allow them to skip over irrelevant information by compressing the encoded video globally. We also reveal that the monkeys detect event contextual boundaries and such detection facilitates recall by an increased rate of information accumulation. Demonstration of a time-compressed, forward replay like pattern in the macaque monkeys provides insights into the evolution of episodic memory in our lineage</p>
Mitonuclear interactions and introgression genomics of macaque monkeys (Macaca) highlight the influence of behaviour on genome evolution
<p>In most macaques, females are philopatric and males migrate from their natal ranges, which results in pronounced divergence of mitochondrial genomes within and among species. We therefore predicted that some nuclear genes would have to acquire compensatory mutations to preserve compatibility with diverged interaction partners from the mitochondria. We additionally expected that these sex-differences would have distinctive effects on gene flow in the X and autosomes. Using new genomic data from 29 individuals from eight species of Southeast Asian macaque, we identified evidence of natural selection associated with mitonuclear interactions, including extreme outliers of interspecies differentiation and metrics of positive selection, low intraspecies polymorphism, and atypically long runs of homozygosity associated with nuclear-encoded genes that interact with mitochondria-encoded genes. In one individual with introgressed mitochondria, we detected a small but significant enrichment of autosomal introgression blocks from the source species of her mitochondria that contained genes that interact with mitochondria-encoded loci. Our analyses also demonstrate that sex-specific demography sculpts genetic exchange across multiple species boundaries. These findings show that behaviour can have profound but indirect effects on genome evolution by influencing how interacting components of different genomic compartments (mitochondria, the autosomes, the sex chromosomes) move through time and space.</p>
Mitonuclear interactions and introgression genomics of macaque monkeys (Macaca) highlight the influence of behaviour on genome evolution
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Image distortion data from "An open-source MRI compatible frame for multimodal presurgical mapping in macaque and capuchin monkeys"
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Data from: Macaque monkeys perceive the flash lag illusion
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Establishment of macaque trophoblast stem cell lines from cynomolgus monkey blastocysts.
GEO Series GSE131795. Macaca fascicularis. 15 samples. Type: Expression profiling by high throughput sequencing.
Similarities and differences in the acute-phase response to SARS-CoV-2 in rhesus macaques and African green monkeys
GEO Series GSE184949. Macaca mulatta; Chlorocebus sabaeus. 44 samples. Type: Expression profiling by high throughput sequencing.
Infinium Monkeys: Infinium 450K array for the Cynomolgus macaque (Macaca fascicularis) (methylation array)
GEO Series GSE52944. Homo sapiens; Macaca fascicularis. 12 samples. Type: Methylation profiling by genome tiling array.
Infinium Monkeys: Infinium 450K array for the Cynomolgus macaque (Macaca fascicularis) RRBS-seq
GEO Series GSE53593. Macaca fascicularis. 11 samples. Type: Methylation profiling by high throughput sequencing.
Gene expression in three tissues from two crab-eating macaques (Macaca fascicularis, cynomolgus monkey).
GEO Series GSE120935. Macaca fascicularis. 18 samples. Type: Expression profiling by high throughput sequencing.
Monocular Visual Deprivation in Macaque Monkeys: A Profile in the Gene Expression of the LGN by LCM
GEO Series GSE9795. Macaca mulatta. 24 samples. Type: Expression profiling by array.
Differentially expressed genes among motor and prefrontal areas of macaque monkey neocortex
GEO Series GSE8644. Macaca mulatta. 24 samples. Type: Expression profiling by array.
Infinium Monkeys: Infinium 450K array for the Cynomolgus macaque (Macaca fascicularis)
GEO Series GSE53596. Homo sapiens; Macaca fascicularis. 23 samples. Type: Methylation profiling by genome tiling array; Methylation profiling by high throughput sequencing.
Laser capture microdissected vervet monkey lateral geniculate nucleus hybridized to the Rhesus Macaque Genome Array.
GEO Series GSE8859. Macaca mulatta; Homo sapiens; Chlorocebus aethiops vervet. 14 samples. Type: Expression profiling by array.
Interhemispheric differences in gene expression of the cerebral cortex in humans and macaque monkeys
GEO Series GSE76644. Macaca mulatta. 30 samples. Type: Expression profiling by array.
Comprehensive analysis of area-specific and time-dependent changes in gene expression in the motor cortex of macaque monkeys during recovery from spinal cord injury
GEO Series GSE81264. Macaca mulatta. 54 samples. Type: Expression profiling by array.
Transcriptional Profile Analysis of the Lateral Geniculate Nucleus in Monocular Deprived Macaque Monkeys
GEO Series GSE2165. Macaca mulatta; Homo sapiens. 12 samples. Type: Expression profiling by array.
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Allen Brain Atlas
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Annotated Behaviour and Observability Dataset (ABODe)
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