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1,079 results for “source data”
Source data for figures in "Light-Controlled Multiconfigurational Conductance Switching in a Single 1D Metal-Organic Wire"
<p>Data from both experiment and simulation shown as figures in the paper "Source data for figures in Light-Controlled Multiconfigurational Conductance Switching in a Single 1D Metal-Organic Wire", by A. Cahlík et al., to be published in ACS Nano. The data are uploaded as a single *.zip archive. The names of subfolders inside the archive indicate which figure of the paper the data sets belong to.</p>
Data source for the ReMap REST API
<h2>Content</h2> <p>This Zenodo contains the ReMap BED files in <code>bgzip</code> format with the <code>TABIX</code> indexes for the 2022, 2020, 2018 and 2015 ReMap releases.</p> <p>It contains all three data types (all peaks, non-redundant peaks and CRMs), except for 2015 (only all peaks, and non-redundant peaks available). </p> <h2>Format </h2> <p>The files formats for BGZIP BED files and TABIX indexes are as follow : </p> <ul> <li><code><strong>remap2018_all_macs2_hg38_v1_2.bed.gz</strong></code></li> <li><code><strong>remap2018_all_macs2_hg38_v1_2.bed.gz.tbi</strong></code></li> </ul> <ol> <li><strong>remap2018</strong> : ReMap release number (2015, 2018, 2020 or 2022)</li> <li><strong>all</strong> : data types (all= all peaks, nr= non-redundant peaks, crm=CisRegulatoryModules)</li> <li><strong>macs2 </strong>: peak caller used (always macs2)</li> <li><strong>hg38</strong> : assembly version (hg19, hg38, mm10 etc..)</li> <li><strong>v1.2</strong> : version patches</li> </ol> <p>The versioning number (eg. v1.2, v1.0) which varies between ReMap releases have been normalized with symlinks pointing to <strong><code>*latest*</code></strong> files. e.g.</p> <ul> <li><strong>remap2018_all_macs2_hg38_<code>v1_2</code>.bed.gz --> remap2018_all_macs2_hg38_<code>latest</code>.bed.gz</strong></li> </ul> <h2>Folder architecture </h2> <p>The architecture is as follow : </p> <p><code>.</code></p> <p><code>├── 2015</code></p> <p><code>│ ├── hg19</code></p> <p><code>│ └── hg38</code></p> <p><code>├── 2018</code></p> <p><code>│ ├── hg19</code></p> <p><code>│ └── hg38</code></p> <p><code>├── 2020</code></p> <p><code>│ ├── TAIR10</code></p> <p><code>│ ├── hg19</code></p> <p><code>│ └── hg38</code></p> <p><code>└── 2022</code></p> <p><code> ├── TAIR10</code></p> <p><code> ├── dm6</code></p> <p><code> ├── hg19</code></p> <p><code> ├── hg38</code></p> <p><code> ├── mm10</code></p> <p><code> └── mm39</code></p>
Source data for manuscript(De novo protein design with a denoising diffusion network independent of pre-trained structure prediction models)
<p>This respository contains the source data for figure and supplementary figure in manuscript(SCUBA-D).</p>
Source data for manuscript(De novo protein design with a denoising diffusion network independent of pre-trained structure prediction models)
<p>This respository contains the source data for figure and supplementary figure in manuscript(SCUBA-D).</p>
Source Data for Infralimbic activity during REM sleep facilitates fear extinction memory
<p>Source data for the manuscript Infralimbic activity during REM sleep facilitates fear extinction memory</p>
Image distortion data from "An open-source MRI compatible frame for multimodal presurgical mapping in macaque and capuchin monkeys"
Open the record for dataset details and reuse information.
Data archive for the peer-reviewed journal article "Major source categories of PM2.5 oxidative potential in wintertime Beijing and surroundings based on online dithiothreitol-based field measurements"
<p>This data archive accompanying the article "Major source categories of PM2.5 oxidative potential in wintertime Beijing and surroundings based on online dithiothreitol-based field measurements", which was accepted in April 2024 in the peer-reviewed journal <strong><em>Science of the Total Environment</em></strong>. This data archive contains the processed OPvDTT measurements, chemical speciation of PM2.5, and source contribution used in the manuscript.</p>
Source Data for the publication "Sub-100-fs energy transfer in coenzyme NADH is a coherent process assisted by a charge-transfer state"
<p>Molecular Structures for solvated NADH. </p> <p>The folder "QMMM_OPTIMIZED_STRUCTS" contains the pdb files of the six representatives for the three conformational clusters obtained after REMD used in the Supplementary Information.</p> <p>The folder "SOLVENT_ENSEMBLE_AROUND_FIXED_SOLUTE" conatins AMBER RESTART files for 200 solvent configurations around two cluster reps displayed in Figure 2 of main manuscript. </p> <p>The folder "PARAMETERS_FOR_MLMCTDH" contains the input file, operator file and parameters for ML-MCTDH dynamics for the structures shown in Main Manuscript and Supplementary. </p>
Syntalos Publication Figure Source Data
<p>This dataset contains the sources for all figures in our publication "<em>Syntalos: A software for precise synchronization of simultaneous multi-modal data acquisition and closed-loop interventions</em>".</p> <p>The synchronization performance validation can be replicated using the scripts in thie dataset as well as data from the separate resource "Syntalos Sync Validation Example Datasets" at <a href="https://zenodo.org/records/13862969">zenodo.org/records/13862969</a>.</p> <p> </p>
Source data of the lithologic indicators of climate for NC
<p>Source data are the ~290 Ma (Figure 4a) and ~280 Ma (Figure 4b) lithologic indicators of climate from Boucot et al. (2013).</p>
Source Data for figures in "Emergence of steady quantum transport in a superconducting processor"
<p>Experimental and numerical data for figures in "Emergence of steady quantum transport in a superconducting processor".</p>
Source data of the MultiSTAAR manuscript "A statistical framework for multi-trait rare variant analysis in large-scale whole-genome sequencing studies".
<p>This dataset serves as the source data for Figures 2-3 and Extended Data Figures 1-2 of the MultiSTAAR manuscript titled "A statistical framework for multi-trait rare variant analysis in large-scale whole-genome sequencing studies". MultiSTAAR is a statistical framework and computationally-scalable analytical pipeline for functionally-informed multi-trait rare variant analysis in large-scale WGS studies.<br><br><strong>Figure 2.</strong> Manhattan plots and Q-Q plots for unconditional gene-centric coding, noncoding and ncRNA multi-trait analysis of low-density lipoprotein cholesterol (LDL-C), high-density lipoprotein cholesterol (HDL-C) and triglycerids (TG) using TOPMed data (<em>n</em> = 61,838).<br><br><strong>Figure 3.</strong> TOPMed genetic region (2-kb sliding window) unconditional multi-trait analysis results of low-density lipoprotein cholesterol (LDL-C), high-density lipoprotein cholesterol (HDL-C) and triglycerides (TG) using TOPMed data (<em>n</em> = 61,838).<br><br><strong>Extended Data Figure 1.</strong> Manhattan plots and Q-Q plots for unconditional gene-centric coding, noncoding and genetic region (2-kb sliding window) multi-trait analysis of fasting glucose (FG) and fasting insulin (FI) using TOPMed data (<em>n</em> = 21,731).<br><br><strong>Extended Data Figure 2.</strong> Manhattan plots and Q-Q plots for unconditional gene-centric coding, noncoding and genetic region (2-kb sliding window) multi-trait analysis of C-reactive protein (CRP), interleukin 6 (IL-6), lipoprotein-associated phospholipase A2 (Lp-PLA2) activity, and lipoprotein-associated phospholipase A2 (Lp-PLA2) mass using TOPMed data (<em>n</em> = 9,380).</p>
MnM Source Data
Open the record for dataset details and reuse information.
PMC_visualisation_and_source_data_SS_v1.0.6_copy
<p>This is an erronous copy of the original submission of code and data for:</p> <p>"Public health impact of current and proposed age-expanded perennial malaria chemoprevention: a modelling study"</p> <p>Please refer to DOI <a href="https://doi.org/10.5281/zenodo.12722070">10.5281/zenodo.12722070 </a></p>
MD Source Data for "Subunit-specific conductance of single HCN pacemaker channels at femtosiemens resolution"
<p>This dataset is the MD source data for the research paper ''Subunit-specific conductance of single HCN pacemaker channels at femtosiemens resolution''. It includes the following parts:</p> <ol> <li>Figures.zip. This file provides high resolution MD related figures, including main figures and supplementary figures.</li> <li>Figure_source_data.zip. This is the source data for the figures in the paper.</li> <li>Homology_Modelling_result.zip. This file provides the input (rHCN4, PDB ID: 7NP3) and output files (mHCN1-4, hHCN4) of homology modelling.</li> <li>MD_input.zip. This is the MD setup input data. It includes starting structure, topology file, .mdp file and force field file. Due to the limitation of storage space (50 GB), it is a pity we couldn't upload all trajectories files (~180 GB). But these files are enough for rerunning the MD simulations.</li> <li>Movie 1. K+ permeation in mHCN2 channel during a 250 ns trajectory.</li> </ol>
Experimental source data for "A photosensitiser-polyoxometalate dyad that enables the decoupling of light- and dark-reactions for delayed on-demand solar hydrogen production"
<p>Experimental data for the manuscript "A photosensitiser-polyoxometalate dyad that enables the decoupling of light- and dark-reactions for delayed on-demand solar hydrogen production"</p>
Source data for: Human monoclonal antibodies against Staphylococcus aureus surface antigens recognize in vitro biofilm and in vivo implant infections
<p class="CxSpFirst">Implant-associated <i>Staphylococcus aureus</i> infections are difficult to treat because of biofilm formation. Bacteria in a biofilm are often insensitive to antibiotics and host immunity. Monoclonal antibodies (mAbs) could provide an alternative approach to improve the diagnosis and potential treatment of biofilm-related infections. Here we show that mAbs targeting common surface components of <i>S. aureus</i> can recognize clinically relevant biofilm types. The mAbs were also shown to bind a collection of clinical isolates derived from different biofilm-associated infections (endocarditis, prosthetic joint, catheter). We identify two groups of antibodies: one group that uniquely binds <i>S. aureus </i>in biofilm state and one that recognizes <i>S. aureus </i>in both biofilm and planktonic state. Furthermore, we show that a mAb recognizing wall teichoic acid (WTA; clone 4497) specifically localizes to a subcutaneously implanted pre-colonized catheter in mice. In conclusion, we demonstrate the capacity of several human mAbs to detect <i>S. aureus</i> biofilms<i> in vitro</i> and <i>in vivo</i>.</p>
Proteomic source data archive
<p>Source data from proteomic analysis performed in manuscript "<strong>Mitochondrially targeted tamoxifen alleviates markers of obesity and type 2 diabetes mellitus" </strong>by<strong> </strong>Vacurova et al.</p>
Source data for "Drought self-propagation in drylands due to land–atmosphere feedbacks"
<p>Source data for the analysis performed for "Drought self-propagation in drylands due to land–atmosphere feedbacks". Please refer to https://doi.org/10.5281/zenodo.5839819 for the code.</p>
Supplementary material for "Spatio-temporal modelling of abundance from multiple data sources in an integrated spatial distribution model"
<p><strong>Abstract</strong></p> <p><strong>Aim:</strong> In biodiversity monitoring, observational data are often collected in multiple, disparate schemes with greatly varying degrees of standardization and possibly at different spatial and temporal scales. Technical advances also change the type of data over time. The resulting heterogeneous data sets are often deemed to be incompatible. Consequently, many available data sets may be ignored in practical analyses. Here, we propose a more efficient use of disparate biodiversity data to assess species distributions and population trends.<br> <br> <strong>Location:</strong> Switzerland (Europe)<br> <br> <strong>Taxon:</strong> Birds</p> <p><strong>Methods: </strong>We developed an integrated, hierarchical species distribution model with a joint likelihood for all data sets using a shared state process (e.g., latent species abundance or occurrence), but distinct observation process for each data set. We show how the abundance submodel of a binomial N-mixture model can fuse four different data types (count, detection/non-detection, presence-only, and absence-only data) and enable improved inferences about spatio-temporal patterns in abundance. As case studies, we use data from multiple avian biodiversity monitoring schemes. In the first, the goal is estimating abundance-based species distribution maps. In the second, we infer trends in population abundance across time.</p> <p><strong>Results: </strong>Accuracy and precision of abundance estimates increased when combining data from different sources compared to using a single data source alone. This is particularly valuable when data from each single data source is too sparse for reliable parameter estimation.<br> Main conclusions: We show that exploiting the complementary nature of "cheap", but abundant, citizen-science data and less abundant, but more information-rich, data from structured monitoring programs might be ideal to estimate distribution and population trends more accurately, especially for rare species. Joint likelihoods allow to include a wide variety of different data sets to (1) combine all the available information and to (2) mitigate weaknesses of one by the strength of another.</p> <p> </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.