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43 results for “Collective variables”
Collection of figures to explore intra-regime weather variability of North Atlantic-European year-round weather regimes as Supplementary Dataset for Gerighausen et al. (2024)
<p>This is a supplementary dataset accompanying the publication <strong>Gerighausen et al. (2024) </strong>submitted to Meteorological Applications. It contains a collection of browsable figures, complementing selected regimes, seasons, and countries in the paper. The figures are provided as a zipped archive. The ZIP-File (1.2 GB) contains 4 subfolders and 4 auxiliary files as described in <strong>readme.md </strong>in the main folder. Once downloaded and unpacked, the .html navigation panels can be used in any browser to navigate through the plots. </p> <p>Data and methods used to generate the figures are explained in Gerighausen et al. (2024). In brief the analysis is based on ERA5 reanalysis 1979-2021 at 1° grid spacing and 6h temporal resolution aggregated to daily data. Anomalies are computed with respect to a 31-day running mean climatology. The figures are explained in the table below and in the navigation panel.</p> <p><strong>Gerighausen</strong>, J., J. Dorrington, M. Osman, and C. M. Grams, <strong>2024</strong>: Quantifying intra-regime weather variability for energy applications, <em>submitted to Meteorological Applications.</em> <a href="https://doi.org/10.48550/arXiv.2408.04302">doi:10.48550/arXiv.2408.04302</a></p>
Soil biogeochemical variables collected on the Arctic Long Term Ecological Research (ARC LTER) experimental plots in moist acidic and dry heath tundra, Arctic LTER, Toolik Field Station, Alaska 2017.
**Note: Versions 1 and 2 had the wrong data files.** Soil nutrients (total Carbon and Nitrogen, inorganic nutrients (ammonium ion (NH4), nitrate anion (NO3-), phosphate anion (PO43-)); organic nutrients (extractable organic carbon (EOC), extractable total nitrogen (ETN), extractable organic phosphorus (EOP)), microbial biomass, and extracellular enzyme activity on soils sampled from the Arctic LTER Dry Heath (organic soils only) and Moist Acidic Tundra (organic and mineral soils) herbivore exclosures and control plots at Toolik Lake, AK in July 2017.
Variabilities of Dopamine (₯) I: Six Paper Collections in 2024
<ol> <li><a title="The Variabilities of Dopamine (₯) - PART V: MeSH: D005239 & NBO:0000209 (Fear Comes in to Play)" href="https://details-or-fragments.blogspot.com/2024/12/DAfear.html" target="_blank" rel="noopener"><strong>The Variabilities of Dopamine (₯) - PART V: MeSH: D005239 & NBO:0000209 (Fear Comes in to Play)</strong></a>: Do you still remember the 67-year-old dopamine girl in the history of dopamine science this year? She gradually became a spokesperson for happiness in her twenties. However, behind this happiness is actually a little fear. In the early stages of research, scientists used basic tools to explore dopamine's role, focusing on its relevance to psychosis and antipsychotic drugs. Initial claims that dopamine was involved in fear conditioning were dismissed due to the inadequacies of the drugs, tools, and techniques used. However, with the development of science, it turns out that the purple "Fear" in "Inside Out" also has some relationship with the dopamine girl. Let's do some brain teasers together this time! In "Dopamine at Forty," we learned that dopamine (DA) is more than just the "happy molecule" we once thought it was. Thanks to advancements in genetics, chemistry, and other technologies in the 21st century, scientists now understand dopamine and its interactions with neurons (DAN) and receptors much better. <a title="多變多巴胺&mdash;&mdash;第五部:恐懼也來湊一腳" href="https://case.ntu.edu.tw/blog/?p=44919" target="_blank" rel="noopener">CASE Science, Center for the Advancement of Science Education, National Taiwan (Chinese Publication)</a>, 2024-12-26 </li> <li><strong><a title="The Variabilities of Dopamine (₯) - PART IV: MeSH:D011954(Bound Receptors:D1~D5" href="https://details-or-fragments.blogspot.com/2024/12/dar.html" target="_blank" rel="noopener">The Variabilities of Dopamine (₯) - PART IV: MeSH:D011954(Bound Receptors:D1~D5</a>) : </strong>Dopamine is a pretty quirky character. Not only does it act as a neurotransmitter, but it also behaves differently depending on the "dopamine receptor" it binds to. Imagine these receptors as different doorways on the surface of a cell, each one changing how dopamine does its job. So, what's so special about these receptors? Well, think of them like the VIP passes that let dopamine into the cell club. You've probably heard about receptors because of the coronavirus (yep, the COVID-19 villain). The virus uses a special receptor called "ACE2" to sneak into our cells. Using this same idea, you can picture dopamine needing its own special receptors to get things done. In short, dopamine receptors are like the bouncers deciding who gets into the cell party, and without them, dopamine would just be left knocking on the door! <a title="多變多巴胺&mdash;&mdash;第四部:綁定的受體D1~D5" href="https://case.ntu.edu.tw/blog/?p=44815" target="_blank" rel="noopener">CASE Science, Center for the Advancement of Science Education, National Taiwan (Chinese Publication)</a>, 2024-11-14 <strong><br></strong></li> <li><strong><a title="The Variabilities of Dopamine (₯) - PART III: CL:0000700 & SIO:000823 (Curious detective DAN's aging)" href="https://details-or-fragments.blogspot.com/2024/09/curiosity.html" target="_blank" rel="noopener">The Variabilities of Dopamine (₯) - PART III: CL:0000700 & SIO:000823 (Curious detective DAN's aging)</a> : </strong>In the complex drama of the brain, there are many characters, but dopaminergic neurons (DAN) take the lead role. These neurons are always on the lookout for new things and solving puzzles, like a brainy Sherlock Holmes. Dopamine, the neurotransmitter, is their trusty sidekick, helping them stay curious and active. But, like in any good story, there's a twist. Over time, these once-energetic neurons start to lose their zest for new experiences. This decline in curiosity mirrors our own aging. It raises an important question: what happens in the brain to cause this loss? What makes our inner Sherlock Holmes lose interest in the unknown? <a title="多變多巴胺&mdash;&mdash;第三部:好奇偵探DAN的變老" href="https://case.ntu.edu.tw/blog/?p=44568" target="_blank" rel="noopener">CASE Science, Center for the Advancement of Science Education, National Taiwan (Chinese Publication)</a>, 2024-09-06 </li> <li><a title="The Variabilities of Dopamine (₯) - PART II: CL: 0000700" href="https://details-or-fragments.blogspot.com/2024/08/CL0000700.html"><strong>The Variabilities of Dopamine (₯) - PART II: CL: 0000700: </strong></a>What are dopaminergic neurons (DANs), the cells in your brain that help you do your job every day? Let’s give it a try . Let’s use the “Knowledge Manual” - the ontology. Starting from DAN’s ID, CL: 0000700, a few pictures will present the important relationship between DAN and dopamine. Once you have the concept of DAN-related knowledge graph, will it collide with the DAN and dopamine working in your mind to inspire a new cognitive world spark that belongs to you? | <a title="多變多巴胺&mdash;&mdash;第二部:工作細胞DAN " href="https://case.ntu.edu.tw/blog/?p=44411" target="_blank" rel="noopener">CASE Science, Center for the Advancement of Science Education, National Taiwan (Chinese Publication)</a>, 2024-08-04</li> <li><a title="The Variabilities of Dopamine (₯) - PART I:ChEBI:18243" href="https://details-or-fragments.blogspot.com/2024/06/ChEBI18243.html"><strong>The Variabilities of Dopamine (₯) - PART I:ChEBI:18243:</strong> </a>What is the specific image of the charming and changeable dopamine among scientists? What is the family tree of dopamine established by chemists and information scientists? What is so called ontology? Let us try to brief in common words, knowledge ontology (ontology for short) is a basic computing model compiled by scientific experts in a specific field and fed to computers. Today, we try to use the knowledge architecture of these computers to feed human readers in the context of popular science for writing and reading. This is an innovative creative experiment that uses dopamine to open a new chapter in popular science. It’s so exciting, so nervous for me. What are the benefits of learning about dopamine through Ontology? (1) Telling stories by the graphical structure of the basic knowledge summary, let people understand the information quickly and clearly at a glance. (2) Linking to specific knowledge bases, the information can be “tasted” briefly and deeply by human choices. (3) Are you in urgent need of inspiration tools? Why not try the ontological popular science for different creativity? | <a title="多變多巴胺&mdash;&mdash;第一部:ChEBI:18243" href="https://case.ntu.edu.tw/blog/?p=44277" target="_blank" rel="noopener">CASE Science, Center for the Advancement of Science Education, National Taiwan(Chinese Publication)</a>, 2024-06-27 </li> <li><a title="Variabilities of Dopamine (₯) - Prequel" href="https://details-or-fragments.blogspot.com/2024/04/polymorphic-dopamine-prequel.html" target="_blank" rel="noopener"><strong>Variabilities of Dopamine (₯) - Prequel:</strong> </a>Dopamine should be the most well-known neurotransmitter in the human body. After all, who doesn’t like the “happy molecule”? But you know what? Dopamine is not that simple! There are still divergent opinions about the role she plays in the human body, and it is often said that her actions and reactions affect us in unexpected ways. This article uses the theme of anthropomorphic scientific information to observe and understand the development process of dopamine in the history of science and the different characteristics discovered at different stages. It uses the growth process of a girl as a metaphor to observe and understand it as a leading story to understand the complete knowledge structure of dopamine. | <a href="https://case.ntu.edu.tw/blog/?p=44043">CASE Science, Center for the Advancement of Science Education, National Taiwan(Chinese Publication)</a>, 2024-04-24 </li> </ol>
Soil biogeochemical variables collected on the Arctic LTER experimental plots in moist acidic, moist non-acidic, wet shrub and shrub tundra, Arctic LTER Toolik Field Station, Alaska 2015
We investigated the effect of long-term warming on multiple soil and microbial carbon, nitrogen, and phosphorus pools, and microbial extracellular enzyme activities, with a particular focus on phosphorus, in Alaskan tundra plots underlain by permafrost
Soil and plant biogeochemical and soil temperature variables collected at brown lemming (Lemmus trimucronatus) and tundra vole (Microtus oeconomus) structure sties near Nome, Toolik Lake, and Utqaigvik, Alaska, summer 2018-2020
Soil and plant sampling analysis under small mammal-built structures and controls sites from near the Team Vole fences: Nome, Toolik, Utqiagvik, AK 2018-2020.
A database of physical therapy exercises with variability of execution collected by wearable sensors
<p>The PHYTMO database contains data from physical therapy exercises and gait variations recorded with magneto-inertial sensors, including information from an optical reference system. PHYTMO includes the recording of 30 volunteers, aged between 20 and 70 years old. A total amount of 6 exercises and 3 gait variations commonly prescribed in physical therapies were recorded. The volunteers performed two series with a minimum of 8 repetitions in each one. Four magneto-inertial sensors were placed on the lower-or upper-limbs for the recording of the motions together with passive optical reflectors. The files include the specifications of the inertial sensors and the cameras. The database includes magneto-inertial data (linear acceleration, turn rate and magnetic field), together with a highly accurate location and orientation in the 3D space provided by the optical system (errors are lower than 1mm). The database files were stored in CSV format to ensure usability with common data processing software. The main aim of this dataset is the availability of inertial data for two main purposes: the analysis of different techniques for the identification and evaluation of exercises monitored with inertial wearable sensors and the validation of inertial sensor-based algorithms for human motion monitoring that obtains segments orientation in the 3D space. Furthermore, the database stores enough data to train and evaluate Machine Learning-based algorithms. The age range of the participants can be useful for establishing age-based metrics for the exercises evaluation or the study of differences in motions between different aged groups. Finally, the MATLAB function <em>features_extraction</em>, developed by the authors, is also given. This function splits signals using a sliding window, returning its segments, and extract signal features, in the time and frequency domains, based on prior studies of the literature.</p>
Collective Variable for Metadynamics Derived from AlphaFold Output
<p>AlphaFold is the state of the art method for prediction of 3D structures of proteins from the amino acid sequence by neural networks. One of the outputs of AlphaFold is a probability profile of inter-residue distances for all residue pairs. We used this profile to evaluate any conformation of the studied protein to express its compliance with the AlphaFold prediction. This value can be used as a collective variable in metadynamics or parallel tempering metadynamics to accelerate protein folding in a molecular simulation. We applied this approach on folding of mini-proteins Trp-cage and beta hairpin. See V. Spiwok, M. Krečka & A. Křenek: <a href="http://doi.org/10.3389/fmolb.2022.878133">Collective Variable for Metadynamics Derived from AlphaFold Output</a> <em>Frontiers in Molecular Biosciences</em> <strong>9</strong> 878133 (2022) DOI: 10.3389/fmolb.2022.878133.</p>
Middle Rio Grande riparian plant cover sensitivity to variability in groundwater depth collected by the Bosque Ecosystem Monitoring Program
Determining the ecological consequences of interactions between slow changes in long-term climate means and amplified variability in climate is an important research frontier in plant ecology. We combined the recent approach of climate sensitivity functions with a revised hydrological ‘bucket model’ to improve predictions on how plant species will respond to future changes in both the mean and variance of groundwater resources. We leveraged spatiotemporal variation in a long-term dataset of riparian vegetation cover to build the first groundwater sensitivity functions (GSFs) for common plant species of dryland riparian corridors. Our results demonstrate the value of this approach to identifying which plant species will thrive (or fail) in an increasingly variable climate layered on top of declining groundwater stores. Riparian plant species differed in sensitivity to both the mean and variance in groundwater levels. Rio Grande cottonwood (Populus deltoides ssp. wislizenii) cover was predicted to decline with greater interannual groundwater variance, while coyote willow (Salix exigua) and other native wetland species were predicted to benefit from greater year-to-year variance. No non-native species were sensitive to groundwater variance, but patterns for Russian olive (Elaeagnus angustifolia) predict declines under deeper mean groundwater tables. Warm air temperatures modulated groundwater sensitivity for cottonwood, which was more sensitive to variability in groundwater in years/sites with warmer maximum temperatures than in cool sites/periods. Cottonwood cover declined most with greater intra-annual coefficients of variation (CV) in groundwater, but was not significantly correlated with inter-annual CV, perhaps due to the relatively short time series (16 y) relative to cottonwood lifespan. In contrast, non-native tamarisk (Tamarix chinensis) cover increased with both intra- and inter-annual CV in groundwater. Altogether, our results predict that changes in groundw
Input Files for Peptide Translocation Across Phospholipid Membranes Using Various Collective Variables and Martini Coarse-Grained Simulations
<p>Input files for publication: Ivo Kabelka, Radim Brožek, and Robert Vácha: Selecting Collective Variables and Free Energy Methods for Peptide Translocation Across Membranes, Journal of Chemical Information and Modeling, submitted</p>
Dataset supporting publication: "Data collected by coupling fix and wearable sensors for addressing urban microclimate variability in an historical Italian city"
<p>Dataset supporting publication: “Data collected by coupling fix and wearable sensors for addressing urban microclimate variability in an historical Italian city” (publication available for download: <a href="https://zenodo.org/record/3901556">GEOFIT Zenodo</a>)</p> <p>Datasets resulting from monitoring activities of Sant'Apollinare systems and climatic parameters inside and outside the building (post-intervention monitoring).</p> <p>The article presents the data collected through an extensive research work conducted in a historic hilly town in central Italy during the period 2016-2017. Data concern two different datasets: long-term hygrothermal histories collected in two specific positions of the town object of the research, and three environmental transects collected following on foot the same designed path at three different time of the same day, i.e. during a heat wave event in summer. The short-term monitoring campaign is carried out by means of an innovative wearable weather station specifically developed by the authors and settled upon a bike helmet. Data provided within the short-term monitoring campaign are analysed by computing the apparent temperature, a direct indicator of human thermal comfort in the outdoors. All provided environmental data are geo-referenced. These data are used in order to examine the intra-urban microclimate variability. Outcomes from both long- and short-term monitoring campaigns allow to confirm the existing correlation between the urban forms and functionalities and the corresponding local microclimate conditions, also generated by anthropogenic actions. In detail, higher fractions of built surfaces are associated to generally higher temperatures as emerges by comparing the two long-term air temperature data series, i.e. temperature collected at point 1 is higher than temperature collated at point 2 for the 75% of the monitored period with an average of þ2.8 [1]C. Furthermore, gathered environmental transects demonstrate the high variability of the main environmental parameters below the Urban Canopy. Diversification of the urban thermal behaviour leads to a computed apparent temperature range in between 33.2 [1]C and 46.7 [1]C at 2 p.m. along the monitoring path. Reuse of these data may be helpful for further investigating interesting correlations among urban configuration, anthropogenic actions and microclimate variables affecting outdoor comfort. Additionally, the proposed dataset may be compared to other similar datasets collected in other urban contexts around the world. Finally, it can be compared to other monitoring methodologies such as weather stations and satellite measurements available in the location at the same time.</p>
DeepCV: A Deep Learning Framework for Blind Search of Collective Variables in Expanded Configurational Space
<p>We present <em>Deep learning for Collective Variables</em> (DeepCV), a computer code that provides an efficient and customizable implementation of the deep autoencoder neural network (DAENN) algorithm that has been developed in our group for computing collective variables (CVs) and can be used with enhanced sampling methods to reconstruct free energy surfaces of chemical reactions. DeepCV can be used to conveniently calculate molecular features, train models, generate CVs, validate rare events from sampling, and analyze a trajectory for chemical reactions of interest. We use DeepCV in an example study of the conformational transition of cyclohexene, where metadynamics simulations are performed using DAENN-generated CVs. The results show that the adopted CVs give free energies in line with those obtained by previously developed CVs and experimental results. DeepCV is open-source software written in Python/C++ object-oriented languages, based on the TensorFlow framework and distributed free of charge for noncommercial purposes, which can be incorporated into general molecular dynamics software. DeepCV also comes with several additional tools, i.e., an application program interface (API), documentation, and tutorials.</p>
Data and code from: Integrating genomics, collections, and community science to delimit species clarifies the taxonomy of a variable monitor lizard (<em>Varanus tristis</em>)
Open the record for dataset details and reuse information.
Data from: Multi-objective optimization for plant germplasm collection conservation of genetic resources based on molecular variability
Germplasm collections play a significant role among strategies for conservation of diversity. It is common to select a core collection to represent the genetic diversity of a germplasm collection, in order to minimize the cost of conservation, while ensuring the maximization of genetic variation. We aimed to solve two main problems: (1) to select a set of individuals, from an in situ data set, that is genetically complementary to an existing germplasm collection, and (2) to define a core collection for a germplasm collection. We proposed a new multi-objective optimization (MOO) approach based on principles of systematic conservation planning (SCP) incorporating heterozygosity information; therefore, optimization takes genotypic diversity and variability patterns into account as well. As a case study, we used Dipteryx alata microsatellite loci information from two sources, an ex situ germplasm collection located at the Agronomy School of the Federal University of Goiás (UFG-AS), and an in situ data set composed of 642 sampled individual trees. We were able to identify within a population of several individuals, the exact accessions/samples that should be chosen in order to preserve the species diversity. We found that material from nine in situ individual trees are enough to complement the UFG-AS germplasm collection as it is, and that it is possible to define a core collection of 20 individual trees representing all studied genetic diversity. Moreover, we defined a method (a protocol) to deal with large amounts of accessions in the context of MOO. The proposed approach can be used to help constructing collections with maximal allelic richness and can also be extended to the in situ conservation. As far as we know, this is the first time that principles of SCP and the MOO approach are applied to the problem of complementing a germplasm collection and of finding a core collection for a germplasm collection.
Data from: Sneeze to leave: African wild dogs (Lycaon pictus) use variable quorum thresholds facilitated by sneezes in collective decisions.
In despotically driven animal societies, one or a few individuals tend to have a disproportionate influence on group decision-making and actions. However, global communication allows each group member to assess the relative strength of preferences for different options amongst their group-mates. Here, we investigate collective decisions by free-ranging African wild dog packs in Botswana. African wild dogs exhibit dominant-directed group living and take part in stereotyped social rallies: high energy greeting ceremonies that occur before collective movements. Not all rallies result in collective movements, for reasons that are not well understood. We show that the probability of rally success (i.e. group departure) is predicted by a minimum number of audible rapid nasal exhalations ('sneezes'), within the rally. Moreover, the number of sneezes needed for the group to depart (i.e. the quorum) was reduced whenever dominant individuals initiated rallies, suggesting that dominant participation increases the likelihood of a rally's success, but is not a prerequisite. As such, the 'will of the group' may override dominant preferences when the consensus of subordinates is sufficiently great. Our findings illustrate how specific behavioural mechanisms (here, sneezing) allow for negotiation (in effect, voting) that shapes decision-making in a wild, socially complex animal society.
Atmospheric pollutant concentrations and leaf chemistry variables collected along gradients of median household income and traffic density in Salt Lake Valley, UT
<p>We utilize traffic density and <i>Convolvulus arvensis </i>leaf chemistry<i> </i>to understand spatial patterns linking atmospheric pollution and household income in the Salt Lake City metropolitan area, USA. We hypothesize that traffic density will explain variation in atmospheric NO<sub>x</sub> and O<sub>3</sub> concentrations. In addition, we expect foliar <span>%N and nitrogen isotope ratios (</span>δ<sup>15</sup>N) to be elevated and carbon isotope ratios (δ<sup>13</sup>C) to be depleted on high traffic density roads<span>. These hypotheses were supported: we found the</span><span> highest</span><span> NO<sub>x</sub> and lowest O<sub>3</sub> concentrations on high-traffic density roads. Also, NO<sub>x</sub> concentrations were higher in low-income neighborhoods. Low-income neighborhoods contained a greater density of high-traffic roads than high-income neighborhoods. Foliar %N was highest in low-income neighborhoods and was correlated with NO<sub>x</sub> and O<sub>3</sub></span>, while δ<sup>15</sup>N was more depleted with increasing O<sub>3</sub>. These findings indicate that the distribution of high-traffic density roads plays a significant role in inequities in pollution exposure between high- and low-income neighborhoods, which is reflected in leaf chemistry.</p>
Supplementary material 5 from: Van Der Pas J, Poppe L, Van Waveren IM (2017) Ontogenetic variability in old and new collections of Dicranophyllum gallicum Grand'Eury from the late Palaeozoic of Europe. PhytoKeys 88: 123-149. https://doi.org/10.3897/phytokeys.88.14042
Measurements of seeds co-occurring with Dicranophyllum gallicum. : Explanation note: Measurements of co-occurring seeds: seeds length and width and nucellus length and width in mm.
Supplementary material 4 from: Van Der Pas J, Poppe L, Van Waveren IM (2017) Ontogenetic variability in old and new collections of Dicranophyllum gallicum Grand'Eury from the late Palaeozoic of Europe. PhytoKeys 88: 123-149. https://doi.org/10.3897/phytokeys.88.14042
Measurements of Dicranophyllum gallicum axillary shoots. : Explanation note: Measurements of Dicranophyllum gallicum axillary shoots: maximal length, maximal width, apex width in mm.
Supplementary material 2 from: Van Der Pas J, Poppe L, Van Waveren IM (2017) Ontogenetic variability in old and new collections of Dicranophyllum gallicum Grand'Eury from the late Palaeozoic of Europe. PhytoKeys 88: 123-149. https://doi.org/10.3897/phytokeys.88.14042
Measurements on Dicranophyllum gallicum stem. : Explanation note: Measurements on Dicranophyllum gallicum stem: stem width, leaf scar length and width, leaf cushion length and width and apical and basal leaf cushion length in mm and leaf scar density in number per cm2.
Supplementary material 3 from: Van Der Pas J, Poppe L, Van Waveren IM (2017) Ontogenetic variability in old and new collections of Dicranophyllum gallicum Grand'Eury from the late Palaeozoic of Europe. PhytoKeys 88: 123-149. https://doi.org/10.3897/phytokeys.88.14042
Measurements of Dicranophyllum gallicum leaves. : Explanation note: Measurements of Dicranophyllum gallicum leaves: length second segment, width first, second and third segment in mm.
Supplementary material 1 from: Van Der Pas J, Poppe L, Van Waveren IM (2017) Ontogenetic variability in old and new collections of Dicranophyllum gallicum Grand'Eury from the late Palaeozoic of Europe. PhytoKeys 88: 123-149. https://doi.org/10.3897/phytokeys.88.14042
List of samples holding the Dicranophyllum gallicum specimen considered in present analysis. : Explanation note: List of samples holding the Dicranophyllum gallicum specimen considered in present analysis. The samples are listed by collection, specimen number and locality.
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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.