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111 results for “cognitive modeling”
Language-enhanced cognitive skills model
<p>This is a model of cognitive skills required in the workplace which enhance previous models by including a more detailed measurement of linguistic skills. Linguistic skills are defined as the set of abilities, competencies and knowledge which principally involve the use of linguistic code. More specifically, the linguistic items used are reading and writing competencies, ability to speak, listen or communicate, as well as knowledge of second languages (as a whole). These variables were factorialised together with a list of competencies from previous models of cognitive skills. Principal component analysis (PCA) with equamax rotation was applied to reduce the dimensionality of all items to a few interpretable dimensions according to the correlations between them. The result is nine factors with similar variances among at least three express linguistic-related skills: The first factor expresses the demand for scientific and engineering knowledge. The second refers to a collection of competencies which could be called verbal-reasoning. These include deductive and inductive reasoning skills or those of identifying and solving complex problems. Some linguistic competencies relating to the level of oral and written comprehension and expression are also relevant in this factor. The third factor expresses numerical or quantitative competencies. The fourth expresses the demand for communicative competencies, composed of variables related to efficient communication goals such as clarity of speech, active listening or speaking. The fifth factor expresses creative abilities. The sixth, competencies and knowledge linked to electronics and computers. The seventh expresses managerial competencies. The eighth expresses nurturing competencies and the ninth factor basically expresses knowledge of foreign languages.</p>
How do native and non-native speakers recognize emotions in the instructor's voice in educational videos? Exploring the first step of the cognitive-affective model of e-learning for international learners [dataset]
<p>Dataset for the journal article <em>How do native and non-native speakers recognize emotions in the instructor’s voice in educational videos? Exploring the first step of the cognitive-affective model of e-learning for international learners.</em></p>
Data and models for "Modelling human behaviour in cognitive tasks with latent dynamical systems"
<p>Ebb and Flow gameplay data and trained model parameters for:</p> <p>Jaffe, P.I., Poldrack, R.A., Schafer, R.J. & Bissett, P.G.<em> </em>Modelling human behaviour in cognitive tasks with latent dynamical systems. <em>Nat Hum Behav</em> (2023). https://doi.org/10.1038/s41562-022-01510-8 </p> <p>Ebb and Flow is a task-switching game offered as a part of the Lumosity cognitive training platform (Lumos Labs, Inc.). The data and model parameters are organized by participant/model in individual archived directories (140 participants; 245 models). Within each model directory, “data_pre_split.pickle” contains the raw Ebb and Flow data. The processed model inputs for the training, validation, and holdout/test splits are contained in the files "train_model_inputs.pt", "val_model_inputs.pt", and "test_model_inputs.pt", respectively. Other metadata associated with each split is contained in "train_other_data.pkl", "val_other_data.pkl", and "test_other_data.pkl". The parameters from the trained model are stored in “model_params.pth”. Some intermediate analysis products are contained in the subfolder “model_analysis”.</p> <p>Metadata for all models can be found in “model_metadata.csv”. The metadata field “switch_cost_type” identifies models that were trained on data with (sc+) or without (sc-) a switch cost (note that models marked “NA”, except for the optimal models, were also trained on data with a switch cost but were not included in the paired comparison of the sc+ and sc- models; see manuscript for details). The "exgauss" field identifies models that were trained with an exGaussian response template (coded as "exgauss+"); models identified as "exgauss-" were trained with a Gaussian kernel and were used in paired comparisons with the exgauss+ models. The "early" field identifies models that were trained with early-stage practice data if set to TRUE. The "optimal" field identifies models that were trained to perform the task optimally if set to TRUE. The other metadata fields are self-explanatory.</p> <h2><strong>Fast command line download instructions (macOS/linux) </strong></h2> <p>For help downloading on Windows, see <a href="https://github.com/dvolgyes/zenodo_get">https://github.com/dvolgyes/zenodo_get</a>.<strong><br></strong></p> <p>1) Copy and save the complete list of files below to a text file, e.g. "files.txt". Save it to the same directory you would like to save the data to. </p> <p>2) Install parallel if it's not already installed:</p> <pre><code>sudo apt-get install parallel</code></pre> <p>3) Run the following from the directory with files.txt (all data will be saved here). The flag -jN will create N parallel wget instances to download the files, e.g.:</p> <pre><code>cat files_test.txt | parallel -j8 wget {}</code></pre> <p>4) Unzip the files and cleanup:</p> <pre><code>unzip "*.zip" rm *.zip files.txt</code></pre> <h2><strong>List of files</strong></h2> 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<p> </p>
Pre-processed ex vivo MRI data for manuscript titled "Neuroanatomical and cognitive biomarkers of alpha-synuclein propagation in a mouse model of synucleinopathy prior to onset of motor symptoms""
<p>Repository for <em>ex vivo</em> magnetic resonance imaging data from the project titled "Presymptomatic neuroanatomical and cognitive biomarkers of alpha-synuclein propagation in a mouse model of synucleinopathy"</p> <p>Contains the pre-processed <em>ex vivo</em> T1-weighted images (Bruker 7T; 70 micron isotropic voxel resolution) for M83 alpha-synuclein A53T hemizygous mice that received either a phosphate buffered saline (PBS) or alpha-synuclein pre-formed fibrils (PFF) injection in the right dorsal striatum. Full subject list can be viewed with the "subject_list.csv" file. More details are available in the manuscript. </p>
Data from: Sleep, inflammation, and cognitive behavior of aged wild-type mice subjected to diffuse brain injury and aged 3xTg-AD mice as a model of Alzheimer's disease
<p>Identifying differential responses between sexes following traumatic brain injury (TBI) can elucidate the mechanisms behind disease pathology. Peripheral and central inflammation in the pathophysiology of TBI can increase sleep in male rodents, but this remains untested in females. We hypothesized that diffuse TBI would increase inflammation and sleep in males more so than in females. Diffuse TBI was induced in C57BL/6J mice and serial blood samples were collected (baseline, 1, 5, 7 days post‐injury [DPI]) to quantify peripheral immune cell populations and sleep regulatory cytokines. Brains and spleens were harvested at 7DPI to quantify central and peripheral immune cells, respectively. Mixed‐effects regression models were used for data analysis. Female TBI mice had 77%–124% higher IL‐6 levels than male TBI mice at 1 and 5DPI, whereas IL‐1β and TNF‐α levels were similar between sexes at all timepoints. Despite baseline sex differences in blood‐measured Ly6Chigh monocytes (females had 40% more than males), TBI reduced monocytes by 67% in TBI mice at 1DPI. Male TBI mice had 31%–33% more blood‐measured and 31% more spleen‐measured Ly6G+ neutrophils than female TBI mice at 1 and 5DPI, and 7DPI, respectively. Compared with sham, TBI increased sleep in both sexes during the first light and dark cycles. Male TBI mice slept 11%–17% more than female TBI mice, depending on the cycle. Thus, sex and TBI interactions may alter the peripheral inflammation profile and sleep patterns, which might explain discrepancies in disease progression based on sex.</p>
Data and R code from: Modelling the evolution of cognitive styles
Background <p>Individuals consistently differ in behaviour, exhibiting so-called personalities. In many species, individuals differ also in their cognitive abilities. When personalities and cognitive abilities occur in distinct combinations, they can be described as 'cognitive styles'. Both empirical and theoretical investigations produced contradicting or mixed results regarding the complex interplay between cognitive styles and environmental conditions.</p> Results <p>Here we use individual-based simulations to show that, under just slightly different environmental conditions, different cognitive styles exist and under a variety of conditions, can also co-exist. Co-existences are based on individual specialization on different resources, or, more generally speaking, on individuals adopting different niches or microhabitats.</p> Conclusions <p>The results presented here suggest that in many species, individuals of the same population may adopt different cognitive styles. Thereby the present study may help to explain the variety of styles described in previous studies and why different, sometimes contradicting, results have been found under similar conditions.</p>
Deferoxamine Regulates Neuroinflammation and Iron Homeostasis in a Mouse Model of Postoperative Cognitive Dysfunction
<p>The raw data of the manuscript” Deferoxamine Regulates Neuroinflammation and Iron Homeostasis in a Mouse Model of Postoperative Cognitive Dysfunction”</p>
Cognition-Associated Protein Structural Changes in a Rat Model of Aging are Related to Reduced Refolding Capacity – Peptide Quantifications
<p>Cognitive decline during aging represents a major societal burden, causing both personal and economic hardship in an increasingly aging population. There are a few well-known proteins that can misfold and aggregate in an age-dependent manner, such as amyloid β and α-synuclein. However, many studies have found that the proteostasis network, which functions to keep proteins properly folded, is impaired with age, suggesting that there may be many more proteins that incur structural alterations with age. Here, we used limited-proteolysis mass spectrometry (LiP-MS), a structural proteomic method, to globally interrogate protein conformational changes in a rat model of cognitive aging. Specifically, we compared soluble hippocampal proteins from aged rats with preserved cognition to those from aged rats with impaired cognition. We identified several hundred proteins as having undergone cognition-associated structural changes (CASCs). We report that CASC proteins are substantially more likely to be nonrefoldable than non-CASC proteins, meaning they typically cannot spontaneously refold to their native conformations after being chemically denatured. The potentially cofounding variable of post-translational modifications is systematically addressed, and we find that oxidation and phosphorylation cannot significantly explain the limited proteolysis signal. These findings suggest that noncovalent, conformational alterations may be general features in cognitive decline, and more broadly, that proteins need not form amyloids for their misfolded states to be relevant to age-related deterioration in cognitive abilities.</p> <p>This deposition provides processed peptide quantifications for all LC-MS/MS proteomics experiments conducted for this study.</p>
Neurochemical and cognitive changes precede structural abnormalities in the TgF344-AD rat model
<p>Raw data for manuscript accepted in Brain Communications, awaiting official publication. All datasets contain subject information and modality-specific data. Data was acquired longitudinally at four timepoints from hemizygous TgF344-AD rats (transgenic AD model bred on a Fischer 344 background) and wildtype littermates. </p> <p>1) Barnes Maze probe data. Probe data acquired 48 hours after last training trial. </p> <p>2) Magnetic Resonance Spectroscopy data: absolute concentrations are provided, as well as relative to total creatine. </p> <p>3) Magnetic Resonance Imaging data: absolute brain volumes generated from absolute jacobians. "Brain-size-corrected" volumes are referred to as "relative" volumes and are generated from relative jacobians. </p>
Applying Cognitive Principles to Model-Finding Output: The Positive Value of Negative Information (artifact)
<p>This is the artifact associated with the OOPSLA 2022 paper titled "Applying Cognitive Principles to Model-Finding Output: The Positive Value of Negative Information".</p> <p>It includes:</p> <ul> <li>A README file with in-depth instructions for accessing and using all artifact components.</li> <li>The raw and anonymized data for each participant in the quantitative studies.</li> <li>The raw and anonymized audio transcripts for each participant in the qualitative studies.</li> <li>Working versions of every user interface used in the experiments.</li> <li>An experimental model-finder, which is a modified version of the <a href="http://alloytools.org/">Alloy</a> model finder, which demonstrates the "2+1-" visualization mode from the paper.</li> </ul>
data set related to article A Nervous System-Specific Model of Creatine Transporter Deficiency Recapitulates the Cognitive Endophenotype of the Disease: a Longitudinal Study
<p>This record contains raw data related to article A Nervous System-Specific Model of Creatine Transporter Deficiency Recapitulates the Cognitive Endophenotype of the Disease: a Longitudinal Study</p>
Paradise fish (Macropodus opercularis) as novel translational model for emotional and cognitive function - RAW DATA
<p>The data of the study under the title "Paradise fish (Macropodus opercularis) as novel translational model for emotional and cognitive function". The structure of the data follows the structure of the results section of the paper. Data sheets are labeled according to figure numbers of the papers.</p>
Data from: Using 3D modeling and printing to study avian cognition from different geometric dimensions
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Data from: Sleep, inflammation, and cognitive behavior of aged wild-type mice subjected to diffuse brain injury and aged 3xTg-AD mice as a model of Alzheimer’s disease
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Data and R code from: Modelling the evolution of cognitive styles
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Data and R Code for publication: Should dispersers be fast learners? Modelling the role of cognition in dispersal
<p><span><span><span><span><span><span><span><span><span><span><span>Both cognitive abilities and dispersal tendencies can vary strongly between individuals. Since cognitive abilities may help dealing with unknown circumstances it is conceivable that </span></span></span></span></span></span></span></span></span></span></span><span><span><span><span><span><span><span><span><span><span><span>dispersers may rely more heavily on learning abilities than residents. However, cognitive abilities are costly and leaving a familiar place might result in losing the advantage of having learned to deal with local conditions. Thus, individuals which invested in learning to cope with local conditions may be more reluctant to leave their natal place. In order to disentangle the complex relationship between dispersal and learning abilities we implemented individual-based simulations. By allowing for developmental plasticity, individuals could either develop a "resident" or "dispersal" cognitive phenotype.</span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span>In line with our expectations, the correlation between learning abilities and dispersal could take any direction, depending how much time individuals had to recoup their investment in cognition. Both, longevity and the timing of dispersal within lifecycles determine the time individuals have to recoup that investment and thus crucially influence this correlation. We therefore suggest that species' life-history will strongly impact the expected cognitive abilities of dispersers, relative to their resident conspecifics, and that cognitive abilities might be an integral part of dispersal syndromes.</span></span></span></span></span></span></span></span></span></span></span></p>
JNK Activation Correlates with Cognitive Impairment and Alteration of the Post-Synaptic Element in the 5xFAD AD Mouse Model
<p>The c-Jun N-terminal kinases (JNKs) are a family of proteins that, once activated by stress<br>stimuli, can alter neuronal functions and survival. The JNK cascade plays a crucial role in the<br>post-synaptic neuronal compartment by altering its structural organization and leading, at worst,<br>to an overall impairment of neuronal communication. Increasing evidence suggests that synaptic<br>impairment is the first neurodegenerative event in Alzheimer’s disease (AD). To better elucidate this<br>mechanism, we longitudinally studied 5xFAD mice at three selected time points representative of<br>human AD symptom progression. We tested the mice cognitive performance by using the radial<br>arm water maze (RAWM) in parallel with biochemical evaluations of post-synaptic enriched protein<br>fraction and total cortical parenchyma. We found that 5xFAD mice presented a strong JNK activation<br>at 3.5 months of age in the post-synaptic enriched protein fraction. This JNK activation correlates<br>with a structural alteration of the post-synaptic density area and with memory impairment at this<br>early stage of the disease that progressively declines to cause cell death. These findings pave the way<br>for future studies on JNK as a key player in early neurodegeneration and as an important therapeutic<br>target for the development of new compounds able to tackle synaptic impairment in the early phase<br>of AD pathology</p>
Exploring the Cognitive Effects of Ambiguity in Process Models
<p>This dataset contains the supplementary material for the paper "Exploring the Cognitive Effects of Ambiguity in Process Models", accepted for publication in the proceedings of BPM 2024.</p> <p>The dataset includes:</p> <ul> <li>All process models used in the experiments</li> <li>A report on the process models complexity metrics</li> <li>The list of all tasks and the respective modeling guidelines violations</li> <li>Participants demographics</li> <li>Higher resolution version of the figures in the paper</li> <li>The Python notebook used for the data analysis</li> <li>Process maps generated from the data analysis results</li> </ul>
CT data and 3D models associated with: Palaeoneurology of the Early Cretaceous iguanodont Proa valdearinnoensis and its bearing on the parallel developments of cognitive abilities in theropod and ornithopod dinosaurs
<p><i>Proa valdearinnoensis </i>is a relatively large-headed and stocky iguanodontian dinosaur from the latest Early Cretaceous of Spain. Its braincase is known from three specimens. Similar to that of other dinosaurs, it shows a mosaic ossification pattern in which most of the bones seem to have fused together indistinguishably while a few bones (frontoparietal, basioccipital) might have remained loosely attached. The endocasts of the three specimens are described based on CT data and digital reconstructions. They show unmistakable morphological similarities with the endocast of closely related taxa, such as <i>Sirindhorna khoratensis </i>(which is close in age but from Thailand). This supports a high conservatism of the endocranial cavity. The issue of volumetric correspondence between endocranial cavity and brain in dinosaurs is analysed. Although a brain-to-endocranial cavity (BEC) index of 0.50 has been traditionally used, we employ instead 0.73. This is indeed the mid-value between the situation in adults of <i>Alligator mississippiensis</i> and <i>Gallus gallus</i>, which are members of the extant bracketing taxa of dinosaurs (Crocodilia and Aves). We thence gauge the level of encephalisation of <i>Proa valdearinnoensis</i> by the calculation of the Encephalisation Quotient (EQ), which remains valuable as a metric for assessing the degree of cognitive function in extinct taxa, especially those with fully ossified braincases like dinosaurs and other archosaurs. The EQ obtained for <i>Proa valdearinnoensis</i> (3.611) suggests that this species was significantly more encephalised than most if not all extant non-avian, non-mammalian amniotes. Our work adds to the growing body of data concerning theoretical cognitive capabilities in dinosaurs and supports the idea that increasing encephalisations were fostered not only once in theropods but also in parallel in the shorter-lived lineage of ornithopods. <i>Proa valdearinnoensis</i> was ill-equipped to respond to theropod dinosaurs and possibly lived in groups as a strategy to mitigate the risk of being predated upon. We hypothesize that group-living and protracted caring of juveniles in this and possibly many other iguanodontian ornithopods favoured a degree of encephalisation that was outstanding by reptile standards.</p>
Combined Model of Online Remote Interventions for Cancer-Related Cognitive Impairment
ClinicalTrials.gov study NCT04210778. IPD Sharing: Not stated. Countries: 1. Publications: 8.
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.