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15,022 results for “differentiation”
Differential brain mechanisms of selection and maintenance of information during working memory (MEG data)
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Data and software: Stress and heat flux via automatic differentiation
<h4><strong>glp-archive</strong></h4><h2><strong>Code and Data for "Stress and heat flux with automatic differentiation"</strong></h2><p>This repository contains data, code, and related artefacts supporting the following publication (<a href="https://arxiv.org/abs/2305.01401">preprint</a>):</p><p>Stress and heat flux via automatic differentiation</p><p>by Marcel F. Langer, J. Thorben Frank, and Florian Knoop</p><p><i>J. Chem. Phys.</i> 159, 174105 (2023) <a href="https://doi.org/10.1063/5.0155760">doi:10.1063/5.0155760</a></p><p>This repository is available at <a href="https://github.com/sirmarcel/glp-archive">https://github.com/sirmarcel/glp-archive</a>. Selected versions are archived on Zenodo, under <a href="https://doi.org/10.5281/zenodo.7852529">doi:10.5281/zenodo.7852529</a>.</p><h2><strong>Overview</strong></h2><p>Each subfolder in this repository contains a README.md with additional information. The subfolders are:</p><ul><li>results/: Data and code that produced the figures in the manuscript</li><li>work/: Computational workflows, models, etc.</li><li>infra/: Project-specific infrastructure code</li><li>meta/: Scripts for assembling this archive; can be ignored but is retained for transparency.</li></ul><h2><strong>Related external code</strong></h2><p>The work in this repository relies on a few tools that the authors maintain separately:</p><ul><li><a href="https://github.com/sirmarcel/glp">glp</a> implements the quantities discussed in the manuscript</li><li><a href="http://github.com/thorben-frank/mlff">mlff</a> implements the so3krates model</li><li><a href="https://github.com/flokno/tools.mlff">tools.mlff</a> provides tools for the equation of state experiments</li></ul><p>These tools were developed during the work in the manuscript. The following versions/tags reflect what was used to obtain results:</p><ul><li>glp @ v0.1.0 (tag)</li><li>mlff @ v1.0 (branch)</li><li>mlff.tools @ v0.0.1</li></ul><p>We additionally note that the GK-MD functionality has been factored out into <a href="https://github.com/sirmarcel/gkx">gkx</a>.</p><h2><strong>Versions</strong></h2><ul><li>v1.1: published version, archived at <a href="https://doi.org/10.5281/zenodo.8406532">doi:10.5281/zenodo.8406532</a></li><li>v1.0: arXiv submission v1, archived at <a href="https://doi.org/10.5281/zenodo.7852530">doi:10.5281/zenodo.7852530</a></li></ul>
Differential gene expression data of commercial compounds used to assess the performance of human TeraTox assay
<p>The dataset supplements the publication `Optimization of the <em>TeraTox</em> assay for preclinical teratogenicity assessment`. </p> <ul> <li>2022-02-18-TeraTox-commercial-logFC.gct: log2FC matrix of genes by compounds (in concentration ranges)</li> <li>2022-02-18-TeraTox-commercial-pScore.gct: p-scores (log 10 transformed p-values with the sign of logFC) of genes by compounds</li> <li>2022-02-18-TeraTox-commercial-featureData.txt: feature annotation in TSV format</li> <li>2022-02-18-TeraTox-commercial-phenoData.txt: sample annotation in TSV format</li> <li>2021-06-10-gcGeneFactorAnno-withPositiveCoefs.tsv: gene membership of germ-layer factors, with germ-layer annotation and average expression in copies per million (cpm).</li> </ul> <p>Citation: Jaklin, Manuela, Jitao David Zhang, Nicole Schäfer, Nicole Clemann, Paul Barrow, Erich Küng, Lisa Sach-Peltason, Claudia McGinnis, Marcel Leist, and Stefan Kustermann. “Optimization of the TeraTox Assay for Preclinical Teratogenicity Assessment.” <em>Toxicological Sciences</em> 188, no. 1 (July 1, 2022): 17–33. <a href="https://doi.org/10.1093/toxsci/kfac046">https://doi.org/10.1093/toxsci/kfac046</a>.</p>
iPlacenta: hIPSC placenta-on-a-chip RNAseq data from 3D vs 2D, day 0 vs day 4 differentiation
<p>RNAseq data from hIPSC dervived trophoblasts seeded in 3D (OrganoPlate) or 2D surface at day 0 or day 4 differentiation. </p> <p>Description of file names found below</p> <table> <tbody> <tr> <td> <p><strong>SampleID/File name</strong></p> </td> <td> <p><strong>Condition- Differentiation day</strong></p> </td> </tr> <tr> <td> <p>iPSC-THB-2D-D0-1</p> </td> <td> <p>2D-Day0</p> </td> </tr> <tr> <td> <p>iPSC-THB-2D-D0-2</p> </td> <td> <p>2D-Day0</p> </td> </tr> <tr> <td> <p>iPSC-THB-2D-D0-3</p> </td> <td> <p>2D-Day0</p> </td> </tr> <tr> <td> <p> </p> </td> <td> <p> </p> </td> </tr> <tr> <td> <p>iPSC-THB-2D-D4-4</p> </td> <td> <p>2D-Day4</p> </td> </tr> <tr> <td> <p>iPSC-THB-2D-D4-5</p> </td> <td> <p>2D-Day4</p> </td> </tr> <tr> <td> <p>iPSC-THB-2D-D4-6</p> </td> <td> <p>2D-Day4</p> </td> </tr> <tr> <td> <p> </p> </td> <td> <p> </p> </td> </tr> <tr> <td> <p>iPSC-THB-3D-D0-7</p> </td> <td> <p>3D-Day0</p> </td> </tr> <tr> <td> <p>iPSC-THB-3D-D0-8</p> </td> <td> <p>3D-Day0</p> </td> </tr> <tr> <td> <p>iPSC-THB-3D-D0-9</p> </td> <td> <p>3D-Day0</p> </td> </tr> <tr> <td> <p> </p> </td> <td> <p> </p> </td> </tr> <tr> <td> <p>iPSC-THB-3D-D4-10</p> </td> <td> <p>3D-Day4</p> </td> </tr> <tr> <td> <p>iPSC-THB-3D-D4-11</p> </td> <td> <p>3D-Day4</p> </td> </tr> <tr> <td> <p>iPSC-THB-3D-D4-12</p> </td> <td> <p>3D-Day4</p> </td> </tr> <tr> <td> <p>iPSC-THB-3D-D4-13</p> </td> <td> <p>3D-Day4</p> </td> </tr> </tbody> </table>
Retrieval practice facilitates memory updating by enhancing and differentiating medial prefrontal cortex representations
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Differential contributions of ventral striatum subregions in the motivational and hedonic components of the affective response to reward
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Raw spectra measurements of scattered sunlight collected using a MAX-DOAS (Multi-Axis Differential Optical Absorption Spectroscopy) instrument in the austral summer of 2016/17 during the Antarctic Circumnavigation Expedition (ACE).
<p><strong>Dataset abstract</strong></p> <p>To achieve the objectives of the project, we installed a MAX-DOAS (Multi-AXis Differential Optical Absorption Spectroscopy) instrument on the vessel “Akademik Tryoshnikov”. This instrument is based on the DOAS technique, which is used to measure trace gas concentrations in the atmosphere. The method consists of the analysis of the spectral absorption lines that each trace gas produces in the solar spectra. The DOAS technique uses the narrowband features that every trace gas has in their spectral absorption coefficients. This differential cross section is unique and acts like a fingerprint for the trace gases, allowing to differentiate between them and to estimate their concentrations (for further details see Platt and Stutz, 2008).</p> <p>In the past decades, atmospheric chemists have come to realize that halogen species (like Cl, Br or I and their oxides ClO, BrO and IO) exert a powerful influence on the chemical composition of the troposphere and through that influence affect the evolution of pollutants, hence having a significant impact on climate. These reactive halogen species are potent oxidizers for organic and inorganic compounds throughout the troposphere. In particular, halogen cycles can act on several compounds (such as methane, ozone, particles…), all of which are climate forcing agents through direct and indirect radiative effects. Dynamic exchange of halogens between the ocean, sea ice, snowpack and atmosphere is the main driver for the frequent occurrence of Ozone Depletion Events (ODEs) and Atmospheric Mercury Depletion Events (AMDEs) (Saiz-Lopez and von Glasow, 2012).</p> <p>In this dataset we present the raw spectra measurements of scattered sunlight recorded by the MAX-DOAS onboard a research vessel in the Southern Ocean and Atlantic Ocean. Included are position and vessel inclination data. Data coverage is from December 2016 to April 2017.</p> <p><strong>Dataset contents</strong></p> <ul> <li>ace_maxdoas_gps.zip</li> <li>GPS_JDDD.txt, data file, ASCII text</li> <li>ace_maxdoas_inclination.zip</li> <li>Inclination_JDDD.txt, data file, ASCII text</li> <li>ace_maxdoas_spectra-YYYY-MM.zip</li> <li>- MAXDOAS<br> - - WWW<br> - - - JDDD<br> - - - - LiveInfo_DDDhhmmss.WWW, data file, ASCII text<br> - - - - Atmos<br> - - - - - DDDhhmmss_90.WWW, data file, ASCII text<br> - ZENITH<br> - - WWW<br> - - - JDDD<br> - - - - LiveInfo_DDDhhmmss.WWW, data file, ASCII text<br> - - - - Atmos<br> - - - - - DDDhhmmss_90.WWW, data file, ASCII text</li> <li>README.txt, metadata, text</li> <li>data_file_header_gps.txt, metadata, text</li> <li>data_file_header_inclination.txt, metadata, text</li> <li>data_file_header_spectra_atmos.txt, metadata, text</li> <li>data_file_header_spectra_liveinfo.txt, metadata, text</li> </ul> <p>where YYYY is the year and MM is the month. JDDD is the day of the year (Julian day) YYYY in which the file was recorded. hhmmss is the time. WWW is the central wavelength of the measured spectrum in the UV or VIS region.</p> <p><strong>Dataset license</strong></p> <p>This dataset of raw spectra of scattered sunlight measurements from ACE is made available under the Creative Commons Attribution 4.0 International License (CC BY 4.0) whose full text can be found at https://creativecommons.org/licenses/by/4.0/</p>
Bromine monoxide (BrO) measurements made using a MAX-DOAS (Multi-AXis Differential Optical Absorption Spectroscopy) instrument in the austral summer of 2016/17 during the Antarctic Circumnavigation Expedition (ACE).
<p><strong>Dataset abstract</strong></p> <p>To achieve the objectives of the project, we installed a MAX-DOAS (Multi-AXis Differential Optical Absorption Spectroscopy) instrument on the vessel “Akademik Tryoshnikov”. This instrument is based on the DOAS technique, which is used to measure trace gas concentrations in the atmosphere. The method consists of the analysis of the spectral absorption lines that each trace gas produces in the solar spectra. The DOAS technique uses the narrowband features that every trace gas has in their spectral absorption coefficients. This differential cross section is unique and acts like a fingerprint for the trace gases, allowing to differentiate between them and to estimate their concentrations (for further details see Platt and Stutz, 2008).</p> <p>In the past decades, atmospheric chemists have come to realize that halogen species (like Cl, Br or I and their oxides ClO, BrO and IO) exert a powerful influence on the chemical composition of the troposphere and through that influence affect the evolution of pollutants, hence having a significant impact on climate. These reactive halogen species are potent oxidizers for organic and inorganic compounds throughout the troposphere. In particular, halogen cycles can act on several compounds (such as methane, ozone, particles…), all of which are climate forcing agents through direct and indirect radiative effects. Dynamic exchange of halogens between ocean, sea ice, snowpack and atmosphere is the main driver for the frequent occurrence of Ozone Depletion Events (ODEs) and Atmospheric Mercury Depletion Events (AMDEs) (Saiz-Lopez and von Glasow, 2012).</p> <p>In this dataset we present the mixing ratio and vertical column density of bromine monoxide (BrO) recorded in the austral summer of 2016/2017 in the Southern Ocean and Atlantic Ocean, averaged over one-hour time periods.</p> <p><strong>Dataset contents</strong></p> <ul> <li>ace_bromine_monoxide_atmospheric_measurements.csv, data file, comma-separated values</li> <li>data_file_header.txt, metadata, text</li> <li>README.pdf, metadata, PDF/A-1a</li> <li>README.txt, metadata, text</li> </ul> <p><strong>Dataset license</strong></p> <p>This dataset of atmospheric bromine monoxide measurements from ACE is made available under the Creative Commons Attribution 4.0 International License (CC BY 4.0) whose full text can be found at https://creativecommons.org/licenses/by/4.0/</p>
Iodine monoxide (IO) measurements made using a MAX-DOAS (Multi-AXis Differential Optical Absorption Spectroscopy) instrument in the austral summer of 2016/17 during the Antarctic Circumnavigation Expedition (ACE).
<p><strong>Dataset abstract</strong></p> <p>To achieve the objectives of the project, we installed a MAX-DOAS (Multi-AXis Differential Optical Absorption Spectroscopy) instrument on the vessel “Akademik Tryoshnikov”. This instrument is based on the DOAS technique, which is used to measure trace gas concentrations in the atmosphere. The method consists of the analysis of the spectral absorption lines that each trace gas produces in the solar spectra. The DOAS technique uses the narrowband features that every trace gas has in their spectral absorption coefficients. This differential cross section is unique and acts like a fingerprint for the trace gases, allowing to differentiate between them and to estimate their concentrations (for further details see Platt and Stutz, 2008).</p> <p>In the past decades, atmospheric chemists have come to realize that halogen species (like Cl, Br or I and their oxides ClO, BrO and IO) exert a powerful influence on the chemical composition of the troposphere and through that influence affect the evolution of pollutants, hence having a significant impact on climate. These reactive halogen species are potent oxidizers for organic and inorganic compounds throughout the troposphere. In particular, halogen cycles can act on several compounds (such as methane, ozone, particles…), all of which are climate forcing agents through direct and indirect radiative effects. Dynamic exchange of halogens between ocean, sea ice, snowpack and atmosphere is the main driver for the frequent occurrence of Ozone Depletion Events (ODEs) and Atmospheric Mercury Depletion Events (AMDEs) (Saiz-Lopez and von Glasow, 2012).</p> <p>In this dataset we present the mixing ratio and vertical column density of iodine monoxide (IO) recorded in the austral summer of 2016/2017 in the Southern Ocean and Atlantic Ocean, averaged over one-hour time periods.</p> <p><strong>Dataset contents</strong></p> <ul> <li>ace_iodine_monoxide_atmospheric_measurements.csv, data file, comma-separated values</li> <li>data_file_header.txt, metadata, text</li> <li>README.pdf, metadata, PDF/A1-a</li> <li>README.txt, metadata, text</li> </ul> <p><strong>Dataset license</strong></p> <p>This dataset of atmospheric iodine monoxide measurements from ACE is made available under the Creative Commons Attribution 4.0 International License (CC BY 4.0) whose full text can be found at https://creativecommons.org/licenses/by/4.0/</p>
Radar measurements for the article "Dynamic differential reflectivity calibration using vertical profiles in rain and snow"
<p><strong>Dataset documentation</strong></p> <p>The archives in hdf5 format provided at this link contain the datasets used in the manuscript <em>Dynamic differential reflectivity calibration using vertical profiles in rain and snow</em>, submitted to <em>Remote Sensing</em> (MDPI) by Alfonso Ferrone and Alexis Berne in 2020.</p> <p> </p> <p><strong>File content</strong></p> <p>Each file is structured as a table, with each column referring to a specific variable and each row containing a different realization (in space or time). The set of available variables is campaign dependent, and the possibilities are:</p> <ul> <li> <p><strong>idx</strong>, and integer index that starts at 1 for the first scan of the dataset and increases by 1 for every successive scan;</p> </li> <li> <p><strong>t</strong>, the timestamp of the scan, in seconds since seconds since Jan 01, 1970;</p> </li> <li> <p><strong>r</strong> or <strong>rg</strong> (depending on the file), the distance from the radar in meters;</p> </li> <li> <p><strong>az</strong>, the azimuth angle in degrees;</p> </li> <li> <p><strong>el</strong>, the elevation angle in degrees;</p> </li> <li> <p><strong>zdr</strong>, the uncalibrated differential reflectivity, in dB;</p> </li> <li> <p><strong>zh</strong>, the horizontal reflectivity, in dBZ;</p> </li> <li> <p><strong>rhovh</strong> or <strong>rho</strong>, the co-polar correlation coefficient, unitless;</p> </li> <li> <p><strong>snr_h</strong> or <strong>snr</strong>, the signal to noise ratio for the horizontal channel in dB;</p> </li> <li> <p><strong>snrv</strong>, the signal to noise ratio for the vertical channel, in dB,</p> </li> <li> <p><strong>ngates</strong>, the number of unique range gates.</p> </li> </ul> <p>For the comparison of the data collected by MXPol and DX50 during the PAYERNE campaign, two auxiliary variables were added to the archives:</p> <ul> <li> <p><strong>x</strong> the horizontal distance from the current radar, computed on a line passing through the location of two radars;</p> </li> <li> <p><strong>z</strong> the vertical distance from the current radar.</p> </li> </ul> <p> </p> <p><strong>Usage</strong></p> <p>The dataset are provided in the the Hierarchical Data Format version 5 (HDF5), an open source file format, supported by several programming language.</p> <p>They archives were created using the <em>vaex</em> library for Python 3:</p> <p>https://github.com/vaexio/vaex</p> <p>The function <em>vaex.open</em> from the same library can be used for accessing the archives and converting them to <em>vaex.DataFrame</em>.</p> <p> </p> <p><strong>Campaign-specific information</strong></p> <p>Some of the parameters associated to the variables included in the archives may change depending on the campaign. The following subsection provide a summary of these information.</p> <p> </p> <p><strong>dataframe_HYMEX_2013_from_20130907-040344_to_20131105-175944.hdf5</strong></p> <p>Contains PPI scans at 90° elevation for the HYMEX campaign.</p> <p>Location information:</p> <ul> <li> <p>Latitude: 44.61° N</p> </li> <li> <p>Longitude: 4.55° E</p> </li> <li> <p>Altitude: 604 m.a.s.l.</p> </li> </ul> <p>Technical information:</p> <ul> <li> <p>Radar Frequency: 9.41 GHz</p> </li> <li> <p>Theoretical 3 dB angular beamwidth of the antenna: 1.45°</p> </li> </ul> <p>Scan setup:</p> <ul> <li> <p>Range resolution: 75 m</p> </li> <li> <p>Range to the first gate: 204.3 m</p> </li> </ul> <p>Processsing parameters:</p> <ul> <li> <p>Clutter filtering: OFF</p> </li> <li> <p>Minimum rhohv: 0.6</p> </li> <li> <p>Attenuation correction: Z-PHI method</p> </li> <li> <p>Note on reflectivity calibration: The original manufacturer calibration constant was 7.56 dBZ. The value used here derives from comparison with disdrometers during the HYMEX campaign.</p> </li> </ul> <p> </p> <p><strong>dataframe_PAYERNE_2014_from_20140321-160016_to_20140519-085808.hdf5</strong></p> <p>Contains PPI scans at 90° elevation performed by MXPol during the PAYERNE campaign.</p> <p>Location information:</p> <ul> <li> <p>Latitude: 46.81° N</p> </li> <li> <p>Longitude: 6.94° E</p> </li> <li> <p>Altitude: 496 m.a.s.l.</p> </li> </ul> <p>Technical information:</p> <ul> <li> <p>Radar Frequency: 9.41 GHz</p> </li> <li> <p>Theoretical 3 dB angular beamwidth of the antenna: 1.45°</p> </li> </ul> <p>Scan setup:</p> <ul> <li> <p>Range resolution: 75 m</p> </li> <li> <p>Range to the first gate: 204.3 m</p> </li> </ul> <p>Processsing parameters:</p> <ul> <li> <p>Clutter filtering: OFF</p> </li> <li> <p>Minimum rhohv: 0.6</p> </li> <li> <p>Attenuation correction: None</p> </li> </ul> <p> </p> <p><strong>dataframe_DAVOS_2014_from_20140704-090224_to_20141231-105720.hdf5</strong></p> <p>Contains PPI scans at 90° elevation for the DAVOS campaign.</p> <p>Location information:</p> <ul> <li> <p>Latitude: 46.82° N</p> </li> <li> <p>Longitude: 9.82° E</p> </li> <li> <p>Altitude: 2220 m.a.s.l.</p> </li> </ul> <p>Technical information:</p> <ul> <li> <p>Radar Frequency: 9.41 GHz</p> </li> <li> <p>Theoretical 3 dB angular beamwidth of the antenna: 1.45°</p> </li> </ul> <p>Scan setup:</p> <ul> <li> <p>Range resolution: 75 m</p> </li> <li> <p>Range to the first gate: 204.3 m</p> </li> </ul> <p>Processsing parameters:</p> <ul> <li> <p>Clutter filtering: OFF</p> </li> <li> <p>Minimum rhohv: 0.6</p> </li> <li> <p>Attenuation correction: None</p> </li> </ul> <p> </p> <p><strong>dataframe_APRES3_from_20151207-123944_to_20160129-125856.hdf5</strong></p> <p>Contains PPI scans at 90° elevation for the APRES3 campaign.</p> <p>Location information:</p> <ul> <li> <p>Latitude: 66.66 S</p> </li> <li> <p>Longitude: 140.00 E</p> </li> <li> <p>Altitude: 40 m.a.s.l.</p> </li> </ul> <p>Technical information:</p> <ul> <li> <p>Radar Frequency: 9.41 GHz</p> </li> <li> <p>Theoretical 3 dB angular beamwidth of the antenna: 1.45°</p> </li> </ul> <p>Scan setup:</p> <ul> <li> <p>Range resolution: 75 m</p> </li> <li> <p>Range to the first gate: 354.3 m</p> </li> </ul> <p>Processsing parameters:</p> <ul> <li> <p>Clutter filtering: OFF</p> </li> <li> <p>Minimum rhohv: 0.6</p> </li> <li> <p>Attenuation correction: None</p> </li> </ul> <p> </p> <p><strong>dataframe_VALAIS_2016_from_20161104-154312_to_20170306-195912.hdf5</strong></p> <p>Contains PPI scans at 90° elevation for the VALAIS campaign.</p> <p>Location information:</p> <ul> <li> <p>Latitude: 46.12 N</p> </li> <li> <p>Longitude: 7.10 E</p> </li> <li> <p>Altitude: 460 m.a.s.l.</p> </li> </ul> <p>Technical information:</p> <ul> <li> <p>Radar Frequency: 9.41 GHz</p> </li> <li> <p>Theoretical 3 dB angular beamwidth of the antenna: 1.27°</p> </li> </ul> <p>Scan setup:</p> <ul> <li> <p>Range resolution: 30 m</p> </li> <li> <p>Range to the first gate: 226.95 m</p> </li> </ul> <p>Processsing parameters:</p> <ul> <li> <p>Clutter filtering: OFF</p> </li> <li> <p>Minimum rhohv: 0.6</p> </li> <li> <p>Attenuation correction: None</p> </li> </ul> <p> </p> <p><strong>dataframe_DX50_from_20140501-020000_to_20140524-015752.hdf5</strong></p> <p>Contains PPI scans at 90° elevation performed by DX50 during the PAYERNE campaign.</p> <p>Location information:</p> <ul> <li> <p>Latitude: 46.84° N</p> </li> <li> <p>Longitude: 6.92° E</p> </li> <li> <p>Altitude: 450 m.a.s.l.</p> </li> </ul> <p>Technical information:</p> <ul> <li> <p>Radar Frequency: 9.459 GHz</p> </li> <li> <p>Theoretical 3 dB angular beamwidth of the antenna: 1.273°</p> </li> </ul> <p>Scan setup:</p> <ul> <li> <p>Range resolution: 75 m</p> </li> <li> <p>Range to the first gate: 0.0 m</p> </li> </ul> <p>Processsing parameters:</p> <ul> <li> <p>Clutter filtering: OFF</p> </li> <li> <p>Minimum rhohv: 0.0</p> </li> <li> <p>Attenuation correction: None</p> </li> </ul> <p> </p> <p><strong>dataframe_DX50_RHI_201405.hdf5</strong></p> <p>Contains RHI scans from DX50 the PAYERNE campaign.</p> <p>The remaining information equal to the ones listed for <em>dataframe_DX50_from_20140501-020000_to_20140524-015752.hdf5</em>.</p> <p> </p> <p><strong>dataframe_MXPol_RHI_201405.hdf5</strong></p> <p>Contains RHI scans from MXPol the PAYERNE campaign.</p> <p>The remaining information is equal to the ones listed for <em>dataframe_PAYERNE_2014_from_20140321-160016_to_20140519-085808.hdf5</em>.</p>
Supplementary Materials: A primer on gathering and analysing multi-level quantitative evidence for differential student outcomes in higher education
<p>Example data sets, syntax files and macros for the tutorials in: Balloo, K., & Winstone, N. E. (2021). A primer on gathering and analysing multi-level quantitative evidence for differential student outcomes in higher education.<em> Frontline Learning Research</em>. <a href="https://eur02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2F10.14786%2Fflr.v9i2.675&data=04%7C01%7Ck.balloo%40surrey.ac.uk%7C50bb47bb433744dc8da208d8c2116202%7C6b902693107440aa9e21d89446a2ebb5%7C0%7C0%7C637472728228002863%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=fyA0y2hUkHESUJ7sVJ3s42Re4Yqa5XbgwW7AvEyGDdk%3D&reserved=0">https://doi.org/10.14786/flr.v9i2</a><a href="https://eur02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fdoi.org%2F10.14786%2Fflr.v9i2.675&data=04%7C01%7Ck.balloo%40surrey.ac.uk%7C50bb47bb433744dc8da208d8c2116202%7C6b902693107440aa9e21d89446a2ebb5%7C0%7C0%7C637472728228002863%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C1000&sdata=fyA0y2hUkHESUJ7sVJ3s42Re4Yqa5XbgwW7AvEyGDdk%3D&reserved=0">.675</a> </p> <p><strong>The data for all examples are fictional, and have only been designed to simulate the possible behaviour of institutional data for the purposes of demonstrating the analytical approaches in the primer. No inferences or conclusions should be drawn from the findings of these examples, because the results are not real. </strong></p> <p>We anticipate that readers can use the example data sets as templates and substitute in their own data.</p>
Neurothreads: development of supportive carriers for mature dopaminergic neuron differentiation and implantation
<p>Raw data for the publication:</p> <p><strong>Neurothreads: development of supportive carriers for mature dopaminergic neuron differentiation and implantation</strong></p>
differential dust extinction towards SNR RX J1713.7-3946
<p>The dataset contains 6 approximate posterior sample of differential dust extinction towards the supernova remnant RX J1713.7-3946 .</p>
xPore: Identification of differential RNA modifications from nanopore direct RNA sequencing
<p>xPore is a Python package for identification and quantification of differential RNA modifications from direct RNA sequencing.</p> <p>The detailed usage is documented at <a href="https://xpore.readthedocs.io/en/latest/">https://xpore.readthedocs.io/en/latest</a>, while all scripts and source code are available at <a href="https://github.com/GoekeLab/xpore">https://github.com/GoekeLab/xpore</a>.</p> <p>All the preprocessed datasets used in the paper are provided here. </p> <p>Please cite our paper below when using these data.<br> Ploy N. Pratanwanich et al. "Detection of differential RNA modifications from direct RNA sequencing of human cell lines." bioRxiv (2020).</p>
Lethality datasets for "A comparative study of endoderm differentiation in humans and chimpanzees"
<p>These datasets were used to evaluate the embryonic lethality of 3 categories of genes: genes with shared reduction of variation in gene expression levels, genes with reduction of variation in only one species, and genes without a reduction of variation in either species.To obtain the data, we took the gene list of each of the 3 categories of genes and ran it through the Mammalian Phenotype database from Jackson Lab: <a href="http://www.informatics.jax.org/batch/summary">http://www.informatics.jax.org/batch/summary</a> in January 2018.</p>
De Obaldia et al. Differential mosquito attraction to humans is associated with skin-derived carboxylic acid levels
<p>These supplementary files accompany the manuscript by De Obaldia et al. entitled "Differential mosquito attraction to humans is associated with skin-derived carboxylic acid levels." This includes all raw data in the paper, supplementary data, and instructions for the mosquito behavioral assays.</p> <p> </p> <p>On January 2, 2023 we added one new data file and a .readme to explain changes between the original pre-print and the published peer-reviewed version of the paper https://pubmed.ncbi.nlm.nih.gov/36261039/</p>
Repetition of Computer Security Warnings Results in Differential Repetition Suppression Effects as Revealed with Functional MRI
Open the record for dataset details and reuse information.
Inference based decisions in a hidden state foraging task: differential contributions of prefrontal cortical areas
<p>Tabular dataset of behavioral data in the hidden state foraging task. The data is stored as a unique table, with one row per "attempt", i.e. a poke for mice and a tap for humans.</p> <p>The table includes four distinct experiments, encoded in the Experiment column. Experiment "Learning" refers to Fig. 2, experiment "VaryingParameters" refers to Fig. 2h and Fig.3. Experiment "LearningAndVaryingParameters" refers to Fig. 4. Experiment "OptogeneticInactivation" refers to Fig. 5.</p> <p>The column "TestingSession" defines whether those sessions were used for the analysis. It is used to exclude adaptation sessions to a new protocol for rodents in the "VaryingParameters" and "OptogeneticInactivation" experiments.</p> <p>In the human case, after an incorrect transition the subject receives an error cue and does not tap. This is considered a "trial" (and also a "streak") but not an attempt. This causes the StreakNumber and PokeNumber columns to increase by 2 after an error cue.</p>
Differential Interferogram of the Lefkada 17 November 2015 Earthquake
<p>On the 17th of November 2015, an earthquake of Mw 6.4 hit the western Greek island of Lefkada, located in Ionian Sea, an area that is well known for its active tectonics. A second earthquake of Mw 5.0 successively followed. These events induced rock falls and landslides having as consequences two life losses and extensive damages to roads and buildings.<br /> Shortly after the events, BEYOND acquired a set of Sentinel-1 TOPSAR scenes, one before and one after the event. The images were combined to form an interferogram that depicts ground deformation due to the earthquake events.<br /> The fringes of the preliminary interferometric results, which are under further elaboration, reveal ground deformation of the order of ~20cm along the Line of Sight at the western part of Lefkada Island. As smaller deformation field is also apparent at the northern part of Cephalonia Island.</p>
Fully differentiable, fully distributed River Discharge Prediction: data sets
<p>This repository contains the data sets used in: Scholz et al. (2025). Fully differentiable, fully distributed River Discharge Prediction.</p> <ul> <li><code>dem_1000.h5</code> based on EU-DEM v1.1, reprojected to RADOLAN grid: <a href="https://sdi.eea.europa.eu/catalogue/srv/api/records/3473589f-0854-4601-919e-2e7dd172ff50">https://sdi.eea.europa.eu/catalogue/srv/api/records/3473589f-0854-4601-919e-2e7dd172ff50</a></li> <li><code>efas.h5</code> based on EFAS historical: <a href="https://ewds.climate.copernicus.eu/datasets/efas-historical?tab=overview">https://ewds.climate.copernicus.eu/datasets/efas-historical?tab=overview</a></li> <li><code>era5_ssrd_neckar*.nc</code> based on ERA5 provided by ECMWF, reprojected to RADOLAN grid: <a href="https://www.ecmwf.int/en/forecasts/dataset/ecmwf-reanalysis-v5">https://www.ecmwf.int/en/forecasts/dataset/ecmwf-reanalysis-v5</a></li> <li><code>radolan_neckar_*.h5</code> based on RADOLAN rw product provided by the Deutsche Wetterdienst: <a href="https://opendata.dwd.de/climate_environment/CDC/grids_germany/hourly/radolan/">https://opendata.dwd.de/climate_environment/CDC/grids_germany/hourly/radolan/</a></li> </ul> <p>Due to copyright, the discharge data has to be downloaded manually from the Global Runoff Data Centre (<a href="https://grdc.bafg.de/">https://grdc.bafg.de/</a>), and then preprocessed with the provided <code>bafg_parser.py</code> python script. We use the following stations in our work:</p> <ul> <li>6335290: STEIN</li> <li>6335291: GAILDORF</li> <li>6335565: BAD IMNAU</li> <li>6335600: ROCKENAU SKA</li> <li>6335601: LAUFFEN</li> <li>6335602: PLOCHINGEN</li> <li>6335603: ROTTWEIL</li> <li>6335604: KIRCHENTELLINSFURT</li> <li>6335620: MOSBACH</li> <li>6335660: PFORZHEIM</li> <li>6335665: DENKENDORF</li> <li>6335671: ALTENSTEIG</li> <li>6335675: MURR</li> <li>6335676: OPPENWEILER</li> <li>6335680: SCHWABSBERG</li> <li>6335681: UNTERGRIESHEIM</li> <li>6335690: NEUSTADT</li> </ul> <p>To preprocess the discharge data, additionally the river network data "Fließgewässer (AWGN)" provided by the Landesanstalt für Umwelt Baden-Württemberg (LUBW) is required: <a href="https://rips-metadaten.lubw.de/trefferanzeige?docuuid=7251515f-6aed-4555-8319-ab6314155ab1">https://rips-metadaten.lubw.de/trefferanzeige?docuuid=7251515f-6aed-4555-8319-ab6314155ab1</a></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.