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311 results for “function dataset”
Dataset of Rainy years counteract negative effects of drought on taxonomic, functional, and phylogenetic diversity: resilience in annual plant communities
<p>Data used in the article: </p> <p><strong>Rainy years counteract negative effects of drought on taxonomic, functional, and phylogenetic diversity: resilience in annual plant communities</strong></p> <p><strong>Abstract</strong></p> <p>1- Climate models forecast changes in the amounts and distribution of rain, which may affect ecosystems worldwide, especially in drylands where water is already the limiting factor for plant life. Annual plant communities are common in drylands where they can complete their entire life cycle during the rainy period while avoiding the dry season. Moreover, seed dormancy allows them to disperse over time by remaining in the seed bank for long periods. However, the extent to which these communities will be able to tolerate increasing drought is uncertain.</p> <p>2- We performed a five-year rainfall reduction treatment under field conditions and determined its effects on annual plant communities in a Mediterranean gypsum ecosystem. We assessed the taxonomic, functional, and phylogenetic diversity of these communities each year for five years.</p> <p>3-The taxonomic and functional diversity decreased under the rainfall reduction treatment whereas the phylogenetic diversity increased. Moreover, the relative importance of species with drought-resistant functional designs increased in the community assemblages. However, after a rainy season with above average rainfall, all of the diversity values recovered completely even under the rainfall reduction treatment.</p> <p>4- Our results provide important insights into the responses of these plant communities under a climate change scenario, where they indicate high losses of diversity during drought events but rapid recovery in milder years.</p> <p><em>Synthesis</em> Our findings highlight the great resilience of annual plant communities in drylands, which may allow them to tolerate increased drought under the present climate change scenario.</p>
Dataset for "Intra-intestinal analysis of the functional activity of microbiomes and its application to the common marmoset intestine"
<p>Dataset:</p> <p>data1_ExpressionProfile.xlsx: gene expression profile</p> <p>data2_AnnotationProfile.xlsx: gene annotation profile</p>
Project 2021/05/X/ST8/00114: Introduction of moisture content as a parameter of the breakage probability function of granular biomass - Dataset
<p>This dataset contains the results of research conducted at Purdue University, Agricultural&Biological Engineering during research stay in the period 15.11.2021 - 14.02.2022. The aim of the research was to investigate and analyze the breakage probability of different types of grains for various moisture content levels: 10%, 14%, 18%, 22% and 26 % and particle sizes. The experimental part involves compression tests of selected grains (rice, corn) and specific breakage energy determination. In the result the breakage probability equations in dependance of moisture content and particle size were developed.</p> <p>This dataset contains:</p> <ol> <li>the results of initial moisture content measurement,</li> <li>the results of moisture content measurement after wetting,</li> <li>The results of bulk density measurement,</li> <li>the results of compression tests for low compression rate (1.25 mm/min)</li> <li>the results of compression tests for high compression rate (125 mm/min)</li> </ol>
Dataset to "Hydrogen in tungsten trioxide by membrane photoemission and density functional theory modeling"
<p>Dataset to "Hydrogen in tungsten trioxide by membrane photoemission and density functional theory modeling" as published in Physical Review B, 103 (2021), 205304</p>
(DATASET) Functionalized boron–nitride nanotubes: First-principles calculations.
<p>Boron nitride nanotubes (BNNTs), a type of nanomaterial that was first made in 1995, have gained attention in the last two and a half decades, having been characterized as promising inorganic nanoparticles for the application and development of devices in nanomedicine (such as drug delivery systems), and chemical sensors, among other applications. With the use of density functional theory (DFT) calculations, we study the effect of functionalizing the surface of a BNNT with hydroxyl (-OH) and carboxyl (-COOH) organic groups at the N and B sites. The results indicate that the -OH radical remains adsorbed in the B site whereas it is detached from the surface when added to the N site. Very differently, the -COOH remains attached for both adsorption sites. Both functionalizations induced a magnetic moment, produced spin-polarized electronic bands, created flat impurity-like bands, decreased the band gaps, and modified the electron density of the nanotubes. All these changes can be used to control and modify the interaction of BNNTs with other molecules of interest like drugs, heavy metals, and greenhouse gasses, among other substances.</p>
Extreme weather events threaten biodiversity and functions of river ecosystems: dataset for conducting the meta-analysis
<p>This repository contains the code and dataset to replicate the meta-analysis conducted by Sabater et al. entitled "Extreme weather events threaten biodiversity and functions of river ecosystems: evidence from a meta-analysis"</p> <p>Metadata:</p> <p>- metaanalysis_GlobalEvidenceRivers_Rscript.R - R Script to conduct the meta-analysis</p> <p>- structural_resp.csv - table with data to perform the species richness, density, and biomass meta-analysis. It includes the mean, SD (or SE), and sample number of the studies included in the meta-analysis, as well as information on the paper authors, year of publication, and type of study (experimental or observational). It also includes co-variates and the author who subtracts the information from the paper.</p> <p>- functional_resp.csv - table with data to perform the primary productivity, respiration, and decomposition meta-analysis. It includes the mean, SD (or SE), and sample number of the studies included in the meta-analysis, as well as information on the paper authors, year of publication, and type of study (experimental or observational). It also includes co-variates and the author who subtracts the information from the paper.</p> <p>-refMap.csv - Geographical information of the papers included in the meta-analysis.</p>
Micro-CT Imaging Dataset on ex-vivo Ovine Functional Spinal Segments as Healthy, Injured and Treated with Cement Discoplasty
<p>General information:</p> <p>- This dataset contains micro-CT images and mechanical test data from ovine functional spinal units (FSU). <br> - The micro-CT data was produced using a Bruker SkyScan 1172. The settings for the scans are given in the '.log' files in each folder. <br> - The compression testing was conducted on an MTS 858 Mini Bionix T/II. The settings for each test can be found in test '.txt' files.<br> - In short, every FSU was mechanically tested in compression under different conditions. Before and after every test, the FSUs were scanned to ensure there was no damage<br> to the sample. More information can be found in the related publication: <br> - The mechanical testing data is arranged in folders with consecutive cycles. It is highly recommended to use the last three cycles for analysis. </p> <p>Data set notation:</p> <p>- All the datasets are noted by Sheep number. Sh7 = Sheep 7; Sh8 = Sheep 8; Sh9 = Sheep 9. In the publication, the numbers were switched to 1,2,3 respectively.<br> - files denoted with '_rec' contain the reconstruction of the projection images. <br> - 'Tested' or 'After test' files refers to the scan after mechanical testing. </p>
Dataset of pollinator functional traits and interaction networks in neotropical mangroves: effects of patch size and surrounding land use
<p>This is the dataset of the manuscript entitled "Pollinator functional traits and interaction networks in neotropical mangroves: effects of patch size and surrounding land use", which was submitted for publication. The dataset include the functional traits of 162 insect pollinator species and 315 interactions with the mangrove species <em>Avicennia germinans, Conocarpus erectus, Laguncularia racemosa,</em> and <em>Rhizophora</em> <em>mangle</em>. The manuscript evaluates the effects of mangrove patch size and surrounding land use on pollinator functional diversity and plant-pollinator interactions in seven mangrove patches from the Colombian Caribbean region. Data variables are pollinator order, family, species, functional traits (pollinator guilds, body size, feeding preference, sociality, and nesting site) and frequency, interacting mangrove species, mangrove patch name, coordinates and size (ha), surrounding land use areas (urban areas, croplands, conserved dry forest, degraded vegetation areas, beach and water) and landscape diversity (Shannon H').</p>
patteRNA: transcriptome-wide search for functional RNA elements via structural data signatures, Datasets.
<p>Datasets, code and results supporting the manuscript:</p> <p>Ledda M. & Aviran S., patteRNA: transcriptome-wide search for functional RNA elements via structural data signatures</p>
Dataset for "Solving deep-learning density-functional theory via variational autoencoder"
<p>The dataset contains the ground state energies, the ground state density profiles, and the external potentials of a 3D single particle system with a Gaussian-like external potential.<br>The number of grid points for each dimension is \(N_g=18\), the linear length of the box is \(L=a_0\) with \(a_0\) the unit of length. The unit of energy is \(E_0=\frac{ \hbar^2}{(m a_0^2)}\).</p> <p> </p> <p> </p> <p>The dataset is zip file of a Python npz file with the following keys:</p> <p>- "density" that corresponds to the ground state density profile.<br>- "potential" is the external potential.<br>-"energy" is the ground state energy.</p> <p><br>The number of instances is 36000. </p> <p>-3D_gaussian.zip -> 3D_gaussian.npz</p> <p> a dictionary with three keys -density, potential, energy-.<br> The dimension of both potential and density is \([N_d,N_g,N_g,N_g]\).<br> The shape of energy is \([N_d]\).<br> \(N_d=36000\)</p> <p>-3D_gaussian_transfer_test_1.npz</p> <p> a dictionary with three keys -density, potential, energy-.<br> The dimension of both potential and density is \([N_d,N_g,N_g,N_g]\).<br> The shape of energy is \([N_d]\).<br> \(N_d=500\)</p> <p>-3D_gaussian_transfer_test_2.npz</p> <p> a dictionary with three keys -density, potential, energy-.<br> The dimension of both potential and density is \([N_d,N_g,N_g,N_g]\).<br> The shape of energy is \([N_d]\).<br> \(N_d=500\)</p>
Dataset of Reaction Times for the Study of Differential Functional Changes in Visual Performance During Acute Exposure to Microgravity Analogue and their Potential Links with Spaceflight-Associated Neuro-Ocular Syndrome
<p><strong>Title</strong>: "Dataset of Reaction Times for the Study of Differential Functional Changes in Visual Performance During Acute Exposure to Microgravity Analogue and their Potential Links with Spaceflight-Associated Neuro-Ocular Syndrome"<br>Zenodo DOI: 10.5281/zenodo.11840654</p> <p><strong>Contains</strong>: simple-reaction-times-VBRHDT-data.csv<br>Dateset of SRT (simple reaction time) values to visual stimuli in different positions in visual field, binocularly observed, in a microgravity analogue study, in four body positions (vertical, horizontal, -6 deg tild, -15 deg tilt). <br>Total records contained: 3584.</p> <p><strong>Institutional Review Board Statement</strong>: The study was conducted in accordance with the Declaration of Helsinki, and approved by the Ethics Committee “Carol Davila” University of Medicine and Pharmacy Bucharest, Romania, 14877/26.05.2023. Data was collected in SpaceMed Laboratory , CIeH (Center for Innovation and eHealth) of UMF Carol Davila Bucharest, Romania.</p> <p><strong>Citation and</strong> <strong>Detailed description:</strong> see "<em>Differential functional changes in visual performance during acute exposure to microgravity analogue and their potential links with Spaceflight-Associated Neuro-Ocular Syndrome</em>", 2024, by Iftime A, Tofolean IT, Pintilie V, Călinescu O, Busnatu S, Papacocea IR, Diagnostics ,2024; 14(17):1918. doi: 10.3390/diagnostics14171918 <br>https://pubmed.ncbi.nlm.nih.gov/39272703/</p> <p><strong>Structure</strong>: Dataset is in CSV (Comma-Separated Values) format, UTF-8 encoded, text field delimited with quotation marks, in tidy format; one row is one record from the SRT task, variables values are in columns). The first row is the variable name. The variable are:</p> <p>1) "live_row"<br>- type: integer numbers, sequential;<br>- values: the index (order) of each SRT measurement performed in a body position, by a participant (ID). The value is C-based (first measurement is "0", second measurement is "1", etc).</p> <p>2) "response_time"<br>- type: real numbers, continuous values;<br>- values: response time recorded from the participant; values in miliseconds.</p> <p>3) "target_position_x_deg"<br>- type: real numbers, categorical (4 values: +/- 18.478, +/- 0.75);<br>- values: horizontal visual angle, in visual degrees in the visual field, of the position of the stimulus. Screen coordinates are computed from "0" position, foveal fixation, positive values to the right, negative values to the left.</p> <p>4) "target_position_y_deg"<br>- type: real numbers, categorical (2 values: -0.75, -7.654);<br>- values: vertical visual angle, in visual degrees in the visual field, of the position of the stimulus. Screen coordinates are computed from "0" position, foveal fixation, positive values downward, negative values upward.<br>-Note: For the equivalent polar coordinates (as in planimetry testing) see Figure 2 of the mentioned paper. </p> <p>5) "Contrast_Weber_calibrated"<br>- type: real numbers, categorical (2 values: 50.58, 99.3);<br>- values: Measured Weber contrast of the visual stimulus shown, values in percents.</p> <p>6) "hand"<br>- type: categorical, 1 value ("right");<br>- values: hand used by the participant during SRT task.</p> <p>7) "body_position"<br>- type: categorical (4 values: "vertical (90 deg)", "horizontal (0 deg)", "inclined (-6 deg)", "inclined (-15 deg)" );<br>- values: Body position during the SRT task.</p> <p>8) "ID(anon)"<br>- type: integer number, categorical, 8 values;<br>- values: anonymized ID of the participants in the study (8 persons).</p>
Example Datasets for Functional Enrichment Analysis
<p>This dataset contains a set of example data for a functional enrichment tutorial.</p>
Dataset related to article "Pentraxin 3 regulates synaptic function by inducing AMPA receptor clustering via ECM remodeling and β1-integrin"
<p>This record contains raw data related to article "Pentraxin 3 regulates synaptic function by inducing AMPA receptor clustering via ECM remodeling and β1-integrin"</p> <p>Abstract</p> <p>Control of synapse number and function in the developing central nervous system is critical to the formation of neural circuits. Astrocytes play a key role in this process by releasing factors that promote the formation of excitatory synapses. Astrocyte-secreted thrombospondins (TSPs) induce the formation of structural synapses, which however remain post-synaptically silent, suggesting that completion of early synaptogenesis may require a two-step mechanism. Here, we show that the humoral innate immune molecule Pentraxin 3 (PTX3) is expressed in the developing rodent brain. PTX3 plays a key role in promoting functionally-active CNS synapses, by increasing the surface levels and synaptic clustering of AMPA glutamate receptors. This process involves tumor necrosis factor-induced protein 6 (TSG6), remodeling of the perineuronal network, and a β1-integrin/ERK pathway. Furthermore, PTX3 activity is regulated by TSP1, which directly interacts with the N-terminal region of PTX3. These data unveil a fundamental role of PTX3 in promoting the first wave of synaptogenesis, and show that interplay of TSP1 and PTX3 sets the proper balance between synaptic growth and synapse function in the developing brain.</p> <p> </p>
DataSET for: Control of spintronic and electronic properties of bimetallic and vacancy-ordered vanadium carbide MXenes via surface functionalization
<p>This data set contains the minimal file necessary to reproduce the DFT calculations contained in the publication:<br> Control of spintronic and electronic properties of bimetallic and vacancy-ordered vanadium carbide MXenes via surface functionalization.</p> <p>the dataset is available on GitLab: <a href="https://gitlab.com/praguelab/shuo2019_work1">https://gitlab.com/praguelab/shuo2019_work1</a> (Project ID: 13583566) Final Latest tag at moment of submission: <a href="https://gitlab.com/praguelab/shuo2019_work1/-/tags/Accepted_manuscript">https://gitlab.com/praguelab/shuo2019_work1/-/tags/Accepted_manuscript</a></p> <p>The paper has been received for review on 16th October 2019, and accepted for publication 11th November 2019 in Journal of Physical Chemistry Chemical Physics</p> <p>DOI: 10.1039/c9cp05638f</p> <p>Preprint available on arXiv <a href="https://arxiv.org/abs/1910.01509">https://arxiv.org/abs/1910.01509</a></p> <p>The work has been financed by Grantova´ Agentura, Univerzita Karlova (Grantova´ Agentura, Univerzita Karlova), OP VVV ‘‘Excellent Research Teams’’, project CUCAM, and International Mobility of Researchers at Charles University (CZ.02.2.69/0.0/0.0/16_027/0008495)</p>
Dataset - Targeted social immunity is associated with a pathogen-specific erosion of individual immune function in the black garden ant
<p>Datasets and code used to generate the figures. Files sorted by figure panel number. <a href="../api/records/12820609/draft/files/Videos_grooming_.zip/content" target="_blank" rel="noopener noreferrer">Videos_grooming_.zip</a> contains the original videos used for the grooming analysis. </p>
The dataset of article "Early Detection of Cognitive Impairment in End-Stage Renal Disease Patients Undergoing Hemodialysis: Insights from Resting-State Functional Connectivity Analysis"
<p>This is a file as dataset of the article "Early Detection of Cognitive Impairment in End-Stage Renal Disease Patients Undergoing Hemodialysis: Insights from Resting-State Functional Connectivity Analysis".</p> <p>It includes fMRI brain imaging data of subjects included in the case group (ESRD group) and healthy control group (HC group).</p>
Dataset for: Dopamine neurons that inform Drosophila olfactory memory have distinct, acute functions driving attraction and aversion
<p>The brain must guide immediate responses to beneficial and harmful stimuli while simultaneously writing memories for future reference. While both immediate actions and reinforcement learning are instructed by dopamine, how dopaminergic systems maintain coherence between these two reward functions is unknown. Through optogenetic activation experiments, we showed that the dopamine neurons that inform olfactory memory in Drosophila have a distinct, parallel function driving attraction and aversion (valence). Sensory neurons required for olfactory memory were dispensable to dopaminergic valence. A broadly projecting set of dopaminergic cells had valence that was dependent on dopamine, glutamate, and octopamine. Similarly, a more restricted dopaminergic cluster with attractive valence was reliant on dopamine and glutamate; flies avoided opto-inhibition of this narrow subset, indicating the role of this cluster in controlling ongoing behavior. Dopamine valence was distinct from output-neuron opto-valence in locomotor pattern, strength, and polarity. Overall our data suggest that dopamine’s acute effect on valence provides a mechanism by which a dopaminergic system can coherently write memories to influence future responses while guiding immediate attraction and aversion.</p>
Dataset of the cross-correlation functions and 3-D Vs model in the central and western NCC
<p>The file "CCFs_NCC.dat" contains all ZZ components cross-correlation fuctions for all available station pairs.</p> <p>The file "Vs_NCC.dat" contains the 3D crustal and uppermost mantle model of central and western NCC via multimodal dispersion inversion. </p>
(DATASET) (10,0) carbon nanotubes functionalized with carboxyl and hydroxyl organic groups
<p>Starting from a (10,0) carbon nanotube, 10 000 structures where randomly generated for both functionalizations (carboxyl, -COOH, and hydroxyl, -OH) and for 5 concentrations of the surface being funcionalized (5%, 10%, 15%, 20% and 25%). Then, the entropy of all system was calculated. The structures with highest entropy on each group/percentage where selected as representative of each functionalization.</p> <p>Here are the structures of functionalized (10,0) carbon nanotubes in MOL2 and XYZ formats.</p> <p>These systems were used in the following publications:</p> <ul> <li>M.S. Ribeiro, A.L. Pascoini, W.G. Knupp, I. Camps. <em>Effects of surface functionalization on the electronic and structural properties of carbon nanotubes: A computational approach</em>. Applied Surface Science 426 (2017) 781–787. DOI: <a href="http://dx.doi.org/10.1016/j.apsusc.2017.07.162">10.1016/j.apsusc.2017.07.162</a></li> <li>W.G. Knupp, M.S. Ribeiro, M. Mir, I. Camps. <em>Dynamics of hydroxyapatite and carbon nanotubes interaction</em>. Applied Surface Science 495 (2019) 143493. DOI: <a href="https://doi.org/10.1016/j.apsusc.2019.07.235">10.1016/j.apsusc.2019.07.235</a></li> </ul>
Brut dataset for Drivers of taxonomic, functional and phylogenetic diversities in dominant ground-dwelling arthropods of coastal heathlands
<p>Brut dataset used in Drivers of taxonomic, functional and phylogenetic diversities in dominant ground-dwelling arthropods of coastal heathlands.</p>
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.