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110 results for “associative learning”
Conditional Visual Associative Learning Task
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Second release of the data associated with the paper entitled 'Cluster-enhanced ensemble learning for mapping global monthly surface ozone from 2003 to 2019'
<p>This is the second release of the data associated with the paper entitled 'Cluster-enhanced ensemble learning for mapping global monthly surface ozone from 2003 to 2019'.</p> <p>The paper was published in Geophysical Research Letters. We provide the data that has been smoothed by moving filter and not. The data can be loaded by the <em>raster </em>package in <em>R.</em> Note that the unit is ppmv.</p> <p>Please note that both of these files must be in the same directory to open in <em>R</em> properly<em>.</em></p> <p>Please get in touch with the authors if you have any issues, email: xliu21@smail.nju.edu.cn or wanghk@nju.edu.cn</p>
A catalog of associated, machine-learning-derived phase arrival times for ten days of seismic data in the Yellowstone region
<p>This dataset contains the associated phase picks and event information from applying a deep learning phase picker to continuous data recorded over March 25 – April 3, 2014, on 20 three-component stations and 14 vertical-component stations in the Yellowstone region. This 10-day period contains an M<sub>w</sub> 4.8 event, the largest earthquake in the Yellowstone region since 1980. The catalog and deep learning phase picker are described in Armstrong et al. (submitted).</p> <p>The arrivals were associated using the method described by Baker et al. (2021) and located using HypoInverse2000 (Klein, 2002). There are 1,053 events in this catalog, including 855 that were previously unidentified. Events that also appear in the University of Utah Seismograph Stations catalog have an event identifier (evid) beginning with “6”, while new events begin with “9”. </p> <p>Columns include:</p> <ul> <li>A simple event number</li> <li>the network, station, channel, and location code for the arrival time</li> <li>the arrival time in UTC (arrival_time) and Unix (arrival_time_epoch) format</li> <li>any static correction applied to the arrival time</li> <li>the P-pick first motion polarity as determined by a machine learning model - up (1), down (-1), or unknown (0)</li> <li>the arrival time residual </li> <li>the take off angle in degrees </li> <li>the event latitude and longitude in degrees</li> <li>the event depth in km</li> <li>the event origin time in UTC (origin_time) and Unix (origin_time_epoch) format</li> <li>the azimuthal gap of the event in degrees</li> <li>the root mean square error (RMS) of the event location</li> <li>the event identifier (evid) - begins with a “6” for events in the UUSS catalog and a “9” for new events</li> </ul> <p> </p>
Modeling islet enhancers using deep learning identifies candidate causal variants at loci associated with T2D and glycemic traits
<p>Genetic association studies have identified hundreds of independent genetic signals associated with type 2 diabetes (T2D) and related traits. Despite these successes, the identification of specific causal variants underlying a genetic association signal remains challenging. In this study, we describe a deep learning method to analyze the impact of sequence variants on enhancers. Focusing on pancreatic islets, a relevant T2D tissue, we show that our model learns islet-specific transcription factor (TF) regulatory patterns and can be used to prioritize candidate causal variants. At 101 genetic signals associated with T2D and related glycemic traits where multiple variants occur in linkage disequilibrium, our method nominates a single causal variant for each association signal, including three variants previously shown to alter reporter activity in islet-relevant cell types. For another signal associated with blood glucose levels, we biochemically test all candidate causal variants from statistical fine-mapping using a pancreatic islet beta cell line and show biochemical evidence of allelic effects on TF binding for the model-prioritized variant. To aid in future research, we publicly distribute our model and islet enhancer perturbation scores across ~67 million variants. We anticipate that deep learning methods like the one presented in this study will enhance the prioritization of candidate causal variants for functional studies.</p>
Sensor data associated with Lucius et al. 2020 – Using machine learning to correct for nonphotochemical quenching in high-frequency in vivo fluorometer data.
This document describes a dataset used to produce Using machine learning to correct for nonphotochemical quenching in high-frequency, in vivo fluorometer data, as reported in: Lucius, M.A., Johnston, K.E., Eichler, L.W., Farrell, J.L., Moriarty, V.W. and Relyea, R.A. (2020), Using machine learning to correct for nonphotochemical quenching in high‐frequency, in vivo fluorometer data. Limnol Oceanogr Methods, 18: 477-494. https://doi.org/10.1002/lom3.10378 The dataset consists of high-frequency water quality and meterological sensor data collected from two autonomous vertical profiling platforms deployed on Lake George, NY during the ice-free months of 2017-2019. Water quality data include depth-referenced measurements of chlorophyll fluorescence, water temperature and dissolved oxygen. Meteorological data include surface-incident total radiation as well as two derived values: solar azimuth and 1-hr rolling average of total radiation. Finally, using interpolated data from regularly collected subsurface profiles of photosynthetically active radiation, estimates of subsurface total radiation were estimated and included in this dataset. This dataset does not include raw data. The data used were subjected to quality control procedures of the Jefferson Project, as well as additional outlier removal measures and the creation of derived data (as previously described and described in detail in Lucius et al. 2020).
Associated code and data for "A disease network-based deep learning approach for characterizing melanoma (doi:10.1002/IJC.33860)"
<p>This deposit contains the data, code, and analysis to recreate the results in the manuscript - Lai X, Zhou JF, Wissely A, Heppt M, Maier A, Berking C, Vera J, Zhang L. A disease network-based deep learning approach for characterizing melanoma. International Journal of Cancer. 2022; 150(6): 1029- 1044. <a href="http://www.researchgate.net/publication/355774213_A_disease_network-based_deep_learning_approach_for_characterizing_melanoma">doi:10.1002/IJC.33860</a>.</p> <p>If you have used the code for your research, please cite the original publication. Thank you very much.</p> <p> </p> <p> </p>
Machine learning and bioinformatics analysis of diagnostic biomarkers associated with the occurrence and development of lung adenocarcinoma
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Informativeness, contingency and time scale invariance in associative learning
<p>Contemporary theories guiding the search for neural mechanisms of learning and memory assume that associative learning results from the temporal pairing of cues and reinforcers resulting in coincident activation of associated neurons, strengthening their synaptic connection. While enduring, this framework has limitations: Temporal-pairing-based models of learning do not fit with many experimental observations and cannot be used to make quantitative predictions about behavior. Here we present behavioral data that supports an alternative, information-theoretic conception: The amount of information that cues provide about the timing of reward delivery predicts behavior. Furthermore, this approach accounts for the rate and depth of both inhibitory and excitatory learning across paradigms and species. We also show that dopamine release in the ventral striatum reflects cue–predicted changes in reinforcement rates consistent with subjects understanding temporal relationships between task events. Our results reshape the conceptual and biological framework for understanding associative learning.<strong><br></strong></p>
data and model associated with "Generalization of learned responses in the mormyrid electrosensory lobe" published in eLife
<p>Data and code for model of negative image formation associated with "Generalization of learned responses in the mormyrid electrosensory lobe" published in eLife.</p>
Data from: RockNet: Rockfall and earthquake detection and association via multitask learning and transfer learning
<p>Seismological data can provide timely information for slope failure hazard assessments, among which rockfall waveform identification is challenging for its high waveform variations across different events and stations. A rockfall waveform does not have typical body waves as earthquakes do, so researchers have made enormous efforts to explore characteristic function parameters for automatic rockfall waveform detection. With recent advances in deep learning, algorithms can learn to automatically map the input data to target functions. We develop RockNet via multitask and transfer learning; the network consists of a single-station detection model and an association model. The former discriminates rockfall and earthquake waveforms. The latter determines the local occurrences of rockfall and earthquake events by assembling the single-station detection model representations with multiple station recordings. RockNet achieves macro F1 scores of 0.990 and 0.981 in terms of discriminating earthquakes and rockfalls from other events with the single-station detection and association models, respectively.</p>
Deep Representation Learning of Physical Activity and Sleep Patterns During Pregnancy Identifies post-hoc Inferences Associated with Prematurity
<p><strong>Running title</strong>: series2signal gestational age "clock" for pregnancy monitoring</p> <p><strong>Summary</strong>: </p> <p>Preterm birth (PTB) is the leading cause of infant mortality globally. While research has focused on the development of predictive models for PTB, cost-effective interventions have remained understudied. Physical activity and sleep present unique opportunities for interventions in low- and middle-income populations. However, objective measurement of physical activity and sleep remains challenging and self-reported metrics suffer from low-resolution and accuracy that decays over time. In this study, we use physical activity data collected using a wearable device comprising over 181, 944 hours of data across N = 1, 083 patients. Using a new state-of-the art deep learning time-series classification architecture, we first develop a ”clock” of healthy dynamics in physical activity patterns during pregnancy by using gestational age (GA) as a surrogate for progression of pregnancy. We also developed a novel interpretability algorithm that integrates unsupervised clustering, model error analysis, feature attribution, and automated actigraphy analysis, allowing for model interpretation with respect to sleep, activity, and static clinical variables. Our model performs significantly better than 7 other machine learning and AI methods for modeling the progression of pregnancy based on measures of physical activity and sleep.</p> <p>Importantly, we found that deviations from this normal ”clock” of physical activity and sleep changes during pregnancy are strongly associated with pregnancy outcomes. When our model underestimates GA, there are 0.52 fewer preterm births than expected (P = 1.01e − 67) and when our model overestimates GA, there are 1.44 times (P = 2.82e − 39) more preterm births than expected. Model error is negatively correlated with interdaily stability (P = 0.043), indicating that our model assigns a more advanced GA when an individual’s daily rhythms are less precise. Supporting this, our model attributes higher importance to sleep periods in predicting higher-than-actual GA, relative to lower-than-actual GA (P = 1.01e − 21). Combining prediction with interpretability allows us to robustly signal when activity behaviors increase or decrease the likelihood of preterm birth and advocates for the future development of clinical decision support through passive monitoring and suggestions around exercise habits and sleep patterns, which are easily implemented in low- and middle-income countries (LMICs). Beyond this particular application, the presented pipeline can be used to analyze high-fidelity time-series data in other translational studies utilizing wearable devices.</p> <p> </p> <p><strong>Data description (brief)</strong>: the raw wearables data is available as .mtn files with the GA encoded in the filename after the underscore. The processed data with sleep annotations can be loaded using the pickle module for serialized objects in python. See https://github.com/nealgravindra/wearables for examples.</p>
Associated data underlying the publication "Flipped Classroom Real-World Activities for Learning Open Computing Concepts"
<p>Various “open” concepts in Computing, such as open standards, open data, open licenses or system interoperability are becoming more important in the professional lives of software engineers. However, students usually do not receive a systematic education about these concepts ; rather they sporadically learn about a subset of these topics. This paper presents the revised version of the Open Computing course in the University of Zagreb, Faculty of Electrical Engineering and Computing (FER), which teaches a clear set of current topics focused on open data and correlating concepts. The new e-learning course is carried out using the “flipped classroom” educational method ; students construct their knowledge in a set of real-world mini-activities throughout the course, instead of passively learning from the official course resources. In this paper, we discuss our flipped classroom activities, their relation to revised Bloom’s taxonomy of educational objectives, and present the evaluation of the first course instance us- ing this model. Students’ feedback shows they welcome this change in approach, finding the course useful and interesting, and preferring this method to the traditional full lecture setting.</p>
Informativeness, contingency and time scale invariance in associative learning
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Nestling birds learn socially to eavesdrop on heterospecific alarm calls through acoustic association
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A data-driven supervised machine learning approach to estimating global ambient air pollution concentrations with associated prediction intervals
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Data from: RockNet: Rockfall and earthquake detection and association via multitask learning and transfer learning
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Seafloor Density Measurements, Prediction, and Associated Uncertainty for "Predicting global marine sediment density using the random forest regressor machine learning algorithm"
<p>Global seafloor density prediction results using the random forest regressor machine learning algorithm. </p> <p>Dataset S1. Seafloor density measurements. Columns are labeled with a header and include associated drilling project and measurement type for each sample. File format: CSV text file</p> <p>Dataset S2. Seafloor density prediction results from the random forest regressor machine learning algorithm at 5×5-arc minute resolution. Units are g/cm^3. File format: netCDF (.nc)</p> <p>Dataset S3. Seafloor density prediction standard deviation from the random forest regressor machine learning algorithm at 5×5-arc minute resolution. Units are g/cm^3. File format: netCDF (.nc)</p>
Physical Activity is Associated with Reduced Implicit Learning but Enhanced Relational Memory and Executive Functioning in Young Adults
<p>This file contains all data reported in the main analyses of our paper, including age, gender, BMI, Stroop effect, implicit learning sessions 1 and 2, relational memory, and all physical activity variables</p>
Reward draws the eye, uncertainty holds the eye: Associative learning modulates distracter interference in visual search.
<p>Eye tracking data and statistical analysis of:</p> <p>Koenig, S., Kadel, H., Uengoer, M., Schubö, A., & Lachnit, H. (2017). Reward draws the eye, uncertainty holds the eye: Associative learning modulates distracter interference in visual search. <em>Frontiers in Behavioral Neuroscience</em>. doi: 10.3389/fnbeh.2017.00128.</p> <p> Abstract: Stimuli in our sensory environment differ with respect to their physical salience, but moreover may acquire motivational salience by association with reward. If we repeatedly observed that reward is available in the context of a particular cue, but absent in the context of another cue, the former typically attracts more attention than the latter. However, we also may encounter cues uncorrelated with reward. A cue with 50% reward contingency may induce an average reward expectancy, but at the same time induces high reward uncertainty. In the current experiment we examined how both values, reward expectancy and uncertainty, affected overt attention. Two different colors were established as predictive cues for low reward and high reward respectively. A third color was followed by high reward on 50% of the trials and thus induced uncertainty. Colors then were introduced as distractors during search for a shape target and we examined the relative potential of the color distractors to capture and hold the first fixation. We observed that capture frequency corresponded to reward expectancy while capture duration corresponded to uncertainty. The results may suggest that within trial, reward expectancy is represented at an earlier time window than uncertainty.</p>
Behavioral data associated with "Passive exposure to task-relevant stimuli enhances categorization learning"
<p>Behavioral data associated with Schmid et al. (2023) "<i>Passive exposure to task-relevant stimuli enhances categorization learning</i>", and example code for loading these data. See README.md for details.</p><p> </p>
ScienceDex guides
Understand access before you commit
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.