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11,506 results for “Dynamics”
Molecular dynamics simulation trajectory data for "Permeability and ammonia selectivity in aquaporin TIP2;1: linking structure to function"
<p>Trajectories and input files corresponding to entries in Supplementary Table S1.</p>
Test Model for GTT Computational Fluid Dynamics Simulation by TransAT
<p>This archive contains the model and associated code need to run the GTT benchmark test for TransAT.</p>
Brownian Dynamics simulations of yeast Nuclear Pore Complex FG repeats
<p>The files in this folder can be used to reproduce the Brownian Dynamics simulations of FG repeats using IMP as described in Kim et al., 2018.</p>
Supplementary material 5 from: Schmidt M, Lischeid G, Nendel C (2018) Data on and methodology for measurements of microclimate and matter dynamics in transition zones between forest and adjacent arable land. One Ecosystem 3: e24295. https://doi.org/10.3897/oneeco.3.e24295
Explanation of header and data: Dist is the distance to the zero line (edge) into the forest in m; Month is the period of time before litterfall was sampled (see "Litterfall" for details); DryMass is the weight of the dried litter in g, Site is either west-facing or east-facing (see "Measurement site" for details).
Supplementary material 3 from: Schmidt M, Lischeid G, Nendel C (2018) Data on and methodology for measurements of microclimate and matter dynamics in transition zones between forest and adjacent arable land. One Ecosystem 3: e24295. https://doi.org/10.3897/oneeco.3.e24295
Explanation of header and data: Dist is the distance from the zero line (edge) into the arable land in m, 0 is the zero line; Crop refers to the species (see "Biomass of crops" for more details); DryMass is given in g per m2.
Supplementary material 4 from: Schmidt M, Lischeid G, Nendel C (2018) Data on and methodology for measurements of microclimate and matter dynamics in transition zones between forest and adjacent arable land. One Ecosystem 3: e24295. https://doi.org/10.3897/oneeco.3.e24295
Explanation of header and data: Site is either west-facing or east-facing site (see "Measurement site"); Dist is the distance from the zero line (edge) to the forest interior in m, 0 is the zero line; Tree number refers to a unique tree (number) in the plot (letter); Perimeter is measured at 1.30 m from the ground and is given in cm; BHD is derived from the perimeter and given in cm; Height is the measured height of the trees in m.
Supplementary material 6 from: Schmidt M, Lischeid G, Nendel C (2018) Data on and methodology for measurements of microclimate and matter dynamics in transition zones between forest and adjacent arable land. One Ecosystem 3: e24295. https://doi.org/10.3897/oneeco.3.e24295
Explanation of header and data: Site is either west-facing or east-facing (see "Measurement site"); DistToEdge is the distance to the zero line (edge) in m, negative values are in the forest, positive values are in the arable land, zero is the edge; Repetition is the number of repetitions in the lab; Depth is measured in cm and is the depth of soil sampling ±3 cm; Ctot is the percentage (%) of total soil carbon content in the tested soil sample; Ntot is the percentage (%) of total soil nitrogen content in the tested soil sample and pH is the numeric scale to specify the acidity or basicity of the soil sample in solution.
Supplementary material 2 from: Schmidt M, Lischeid G, Nendel C (2018) Data on and methodology for measurements of microclimate and matter dynamics in transition zones between forest and adjacent arable land. One Ecosystem 3: e24295. https://doi.org/10.3897/oneeco.3.e24295
Measured values are indicated in the header by the variable (e.g. "SoilMoist") followed by the distance to the zero line (e.g. 30, indicated by XX in the description below). Date.Time is given as YYYY-MM-DD HH:MM:SS; SoilMoistXX is the soil moisture given in cm3 cm-3; SoilTempXX is the soil temperature given in °C; RelHumXX is the relative humidity given as dimensionless number; AirTempXX is the air temperature in °C; AirPressXX is the barometric air pressure given in kPa; SolarRadXX is the solar radiation given in W m-2; WindAvgXX is the average wind speed given in m s-1; WindMaxXX is the maximum wind speed given in m s-1; WindDirXX is the direction of the wind given in °; PrecXX is the precipitation given in mm; DistXX is the distance to the zero line (edge), positive values are in the arable land, negative values are in the forest, zero is the edge. For more details see "Microclimate". The data was edited according to "Data converting". Timezone: Central European Time (CET).
Supplementary material 1 from: Schmidt M, Lischeid G, Nendel C (2018) Data on and methodology for measurements of microclimate and matter dynamics in transition zones between forest and adjacent arable land. One Ecosystem 3: e24295. https://doi.org/10.3897/oneeco.3.e24295
Measured values are indicated in the header by the variable (e.g. "SoilMoist") followed by the distance to the zero line (e.g. 30, indicated by XX in the description below). Date.Time is given as YYYY-MM-DD HH:MM:SS; SoilMoistXX is the soil moisture given in cm3 cm-3; SoilTempXX is the soil temperature given in °C; RelHumXX is the relative humidity given as dimensionless number; AirTempXX is the air temperature in °C; AirPressXX is the barometric air pressure given in kPa; SolarRadXX is the solar radiation given in W m-2; WindAvgXX is the average wind speed given in m s-1; WindMaxXX is the maximum wind speed given in m s-1; WindDirXX is the direction of the wind given in °; PrecXX is the precipitation given in mm; DistXX is the distance to the zero line (edge), positive values are in the arable land, negative values are in the forest, zero is the edge. For more details see "Microclimate". The data was edited according to "Data converting". Timezone: Central European Time (CET).
Molecular dynamic trajectory for the article "The Binding Mechanism between Inositol Phosphate (InsP) and the Jasmonate Receptor Complex: A Computational Study"
<p>Molecular dynamic trajectory preparation file of Jasmonate receptor complex. We set up six systems. </p> <p>Each system contains PSF file and PDB file.</p>
Table. Effects of sea animal colonization on the coupling between dynamics and activity of soil ammonia-oxidizing bacteria and archaea in maritime Antarctica.
<p> In this study, we chose active seal colony tundra soils (STS), penguin colony soil (PTS) and its adjacent penguin-lacking tundra soils (PLS), tundra marsh soils (MS), and background tundra soils (BS), to investigate the effects of sea animal colonization on the abundance, activity and diversity of AOA and AOB in maritime Antarctica. </p>
Metal Binding to Amyloid Beta 1-42: A Ligand Field Molecular Dynamics Study
<p>DL_POLY Classic inputs and trajectories (PDB format) for 3 x free, Cu and Pt simulations</p>
Molecular basis for the increased affinity of an RNA recognition motif with re-engineered specificity: A molecular dynamics and enhanced sampling simulations study- Part 3
<p>Trajectories and input files for the simulations of the Rbfox·pre-miR20b complex.</p>
Molecular basis for the increased affinity of an RNA recognition motif with re-engineered specificity: A molecular dynamics and enhanced sampling simulations study- PART 2
<p>Trajectories and input files of the simulations of the free pre-miR20b.</p>
Dataset of measured binaural room impulse responses for use in an position-dynamic auditory augmented reality application
<p>The dataset includes measured binaural room impluse responses (BRIRs) using a head and torso simulator (KEMAR). The measurements are realized for six loudspeaker positions. Five loudspeakers are placed in a standardized five-channel surround setup with the left and right speaker at +/-30° from the center speaker. The left-surround and right-surround speaker are placed at +/-120°. The distance to the midpoint of this setup is 3.5 m. The sixth loudspeaker is placed 1.35 m from the midpoint and 150° to the right side of the setup. Loudspeakers of type Geithain R906 are used.</p> <p>The BRIRs are measured at nine positions within the loudspeaker setup. For each position the artificial head is turned 360° in the horizontal plane with a step size of 5°. Next to the midpoint position of the setup, frontal, backward, and lateral positions are measured. The covered plane size is 4m x 4m. The figure 'scheme.png' gives an overview about the names and setup (included in the download of the dataset).</p> <p>A TV studio at the Technische Universität Ilmenau is used as room for the measurements. The figure 'studio.jpg' (included in the download of the dataset) shows the room in a prior configuration as a TV studio (the left wall as scenery setting is removed). The setup is build up in the left side of the room (gray floor area). The room has a total size of 19.5m x 11.5m x 5.5m. The reverberation time (RT60 from 80 Hz to 18 kHz) is approx. 0.7 s. The C50 and C80 are 15dB and 17dB.</p> <p>The BRIR dataset is used for the synthesis of new BRIRs at diffferent positions in the room using methods described and evaluated in [1] and [2]. Please feel free to use the measured BRIRs for your research and your project! </p> <p>---<br> [1] Brandenburg, K., Cano, E., Klein, F., Köllmer, T., Lukashevich, H., Neidhardt, A., Sloma, U., and Werner, S., “Plausible Augmentation of Auditory Scenes Using Dynamic Binaural Synthesis for Personalized Auditory Realities”, to be published in Proc. of: Conference of the Audio Engineering Society (AES) Audio for Virtual and Augmented Reality, USA, 2018.</p> <p><br> [2] Werner, S., Neidhardt, A., Klein, F., and Brandenburg, K., “Comparison of Different Methods to Create an Interactive Augmented Auditory Reality Scenario Using Sparse Binaural Room Impulse Response Measurements”, in Proc. of DAGA 2018, Garching, Germany, 2018.</p> <p> </p>
FVM 1.0: A nonhydrostatic finite-volume dynamical core for the IFS
<p>Simulation output data used to produce the figures in the paper.</p> <p>Four different files are provided. These refer to the IFS-FVM and IFS-ST results for the dry and moist configurations of the baroclinic instability benchmark.</p> <p>The paper is available at: https://doi.org/10.5194/gmd-12-651-2019</p>
Molecular basis for the increased affinity of an RNA recognition motif with re-engineered specificity: A molecular dynamics and enhanced sampling simulations study-PART 7
<p>Simulations of the Rbfox*-miR20b and of the Rbfox-mir20b* complexes.</p>
Physical controls on the spatial and temporal biogenic gas dynamics in two subtropical wetland ecosystems in Florida
<p>The spatial and temporal distribution of biogenic gas accumulation and release within peatland soils and their controls (i.e. both physical and environmental) remain highly uncertain. While several recent studies show the importance of the pore structure when defining gas dynamics, and particularly when modeling rapid gas releases (i.e. ebullition), it is unclear how different ecosystems (and particularly for subtropical systems) may show differences on such dependence. The study presented here investigates the spatial and temporal variability in biogenic gas accumulation and release in two 38-liter peat monoliths from two different wetland ecosystems in central Florida (pine flatwoods and emergent wetlands) at the laboratory scale. An array of non-invasive hydrogeophysical methods (using ground-penetrating radar, GPR) was combined with gas traps, time-lapse cameras, and direct measurements (i.e. porosity and bulk density) to explore gas content variability (i.e. build-up and release) within the peat matrix over a period of five months. The results show that specific physical soil properties for different types of wetland ecosystems play a critical role at controlling the dynamics of gas accumulation and release from peat soils. Furthermore, these differences are consistent with results on soils from other studies within similar ecosystems. This work has implications for better understanding how different types of ecosystem in subtropical systems may contribute differently to the production, accumulation, and release of greenhouse gases.</p>
A 2D hyperspectral library of mineral reflectance, from 900 to 2500nm - High dynamic range data
<p>Each <strong>zip</strong> file contains the text description file: <strong>description.txt</strong>. It also contains the data of one or two measurement, <strong>A</strong> and possibly B. The files are named as follows (<strong>####</strong> is the sample ID, <strong>@</strong> the letter of the measurement):</p> <ul> <li><strong>####-@.ply</strong> and <strong>####-@.png</strong>: 3D reconstruction in Stanford PLY format, and associated texture file.</li> <li><strong>@-im-000.jpg</strong>, <strong>@-im-010.jpg</strong>, ..., <strong>@-im-360.jpg</strong>: JPEG images of the sample, the angle is in degrees. 0 degree correspond to the position used during scanning.</li> <li><strong>@.hdr.h5</strong>: HDF5 file containing the HDR scan data.</li> </ul> <p>The zip files correspond to the sample IDs, according to the following table:</p> <pre><code>Mineral Sample IDs Datapoints ---------------------------------------------------------------- Actinolite 0020, 0021, 0064 56840 Albite 0107 22521 Almandine 0025, 0026, 0073, 0074 17425 Andalusite 0014 18862 Anhydrite 0004 30832 Apatite 0089(2), 0090(2) 69062 Aragonite 0061 40111 Arsenopyrite 0087(2) 66333 Augite 0038 8503 Barite 0006 37130 Beryl 0075(2) 37743 Biotite 0049(2), 0050 45400 Blende 0086(2) 15596 Bronzite 0112 50452 Bytownite 0103 14666 Calcite 0010, 0011, 0052, 0078, 0079 112501 Cassiterite 0119, 0120 38535 Celestite 0000, 0001, 0002 56075 Chalcedony 0108(2), 0109(2) 96431 Chalcopyrite 0106 19375 Chlorite 0013 75802 Clinochlore 0126 45301 Coal 0081, 0082 44664 Copper 0101 14556 Diopside 0069 58959 Dolomite 0091(2), 0092(2) 76810 Enstatite 0047 31072 Epidote 0023, 0024 47306 Fluorite 0003(2), 0012(2) 98638 Galena 0053, 0054 17931 Garnet 0115 27331 Glaucophane 0016, 0017, 0076, 0077 200830 Goethite 0114 10717 Graphite 0083, 0084 20047 Grossular 0030, 0031 46592 Gypsum 0005(2), 0007, 0063 159829 Halite 0008, 0056 66201 Halloysite 0121, 0122 102028 Hematite 0039(2), 0085(2), 0095, 0096 165228 Hornblende 0046 9175 Hypersthene 0111 62932 Ilmenite 0116 16256 Kaolinite 0113 20764 Kyanite 0029 12320 Labradorite 0088(2), 0104(2) 62762 Limonite 0128, 0129 64550 Magnetite 0055, 0072 7103 Microcline 0071 60699 Montmorillonite 0123, 0124, 0125 87986 Muscovite 0034 62481 Nepheline 0097(2) 51930 Olivine 0065 7965 Omphacite 0019, 0067 108032 Opal 0102 34404 Orthoclase 0057 49824 Phlogopite 0045, 0070 105119 Pyrite 0042, 0048 31598 Pyrolusite 0117, 0118 45534 Pyrrhotite 0051 21572 Quartz 0009(2), 0035 126760 Rutile 0093 4959 Sanidine 0099(2) 49260 Serpentine 0018, 0068 78937 Siderite 0080 11651 Silicified wood 0127(2) 92935 Sillimanite 0032, 0033 70546 Sodalite 0043, 0060 61852 Sphalerite 0105 27485 Staurolite 0027, 0028, 0066 30628 Sulfur 0036, 0037 34751 Talc 0022, 0040, 0041, 0058, 0059 138317 Titanite 0094 4121 Tourmaline 0044, 0062 68419 Tremolite 0098(2), 0100 70913 Zircon 0110(2) 5110 </code></pre>
A 2D hyperspectral library of mineral reflectance, from 900 to 2500nm - Masked high dynamic range data
<p>Each <strong>zip</strong> file contains the text description file: <strong>description.txt</strong>. It also contains the data of one or two measurement, <strong>A</strong> and possibly B. The files are named as follows (<strong>####</strong> is the sample ID, <strong>@</strong> the letter of the measurement):</p> <ul> <li><strong>####-@.ply</strong> and <strong>####-@.png</strong>: 3D reconstruction in Stanford PLY format, and associated texture file.</li> <li><strong>@-im-000.jpg</strong>, <strong>@-im-010.jpg</strong>, ..., <strong>@-im-360.jpg</strong>: JPEG images of the sample, the angle is in degrees. 0 degree correspond to the position used during scanning.</li> <li><strong>@.mhdr.h5</strong>: HDF5 file containing masked HDR raw scan data. Masked values are represented by nan.</li> </ul> <p>The zip files correspond to the sample IDs, according to the following table:</p> <pre><code>Mineral Sample IDs Datapoints ---------------------------------------------------------------- Actinolite 0020, 0021, 0064 56840 Albite 0107 22521 Almandine 0025, 0026, 0073, 0074 17425 Andalusite 0014 18862 Anhydrite 0004 30832 Apatite 0089(2), 0090(2) 69062 Aragonite 0061 40111 Arsenopyrite 0087(2) 66333 Augite 0038 8503 Barite 0006 37130 Beryl 0075(2) 37743 Biotite 0049(2), 0050 45400 Blende 0086(2) 15596 Bronzite 0112 50452 Bytownite 0103 14666 Calcite 0010, 0011, 0052, 0078, 0079 112501 Cassiterite 0119, 0120 38535 Celestite 0000, 0001, 0002 56075 Chalcedony 0108(2), 0109(2) 96431 Chalcopyrite 0106 19375 Chlorite 0013 75802 Clinochlore 0126 45301 Coal 0081, 0082 44664 Copper 0101 14556 Diopside 0069 58959 Dolomite 0091(2), 0092(2) 76810 Enstatite 0047 31072 Epidote 0023, 0024 47306 Fluorite 0003(2), 0012(2) 98638 Galena 0053, 0054 17931 Garnet 0115 27331 Glaucophane 0016, 0017, 0076, 0077 200830 Goethite 0114 10717 Graphite 0083, 0084 20047 Grossular 0030, 0031 46592 Gypsum 0005(2), 0007, 0063 159829 Halite 0008, 0056 66201 Halloysite 0121, 0122 102028 Hematite 0039(2), 0085(2), 0095, 0096 165228 Hornblende 0046 9175 Hypersthene 0111 62932 Ilmenite 0116 16256 Kaolinite 0113 20764 Kyanite 0029 12320 Labradorite 0088(2), 0104(2) 62762 Limonite 0128, 0129 64550 Magnetite 0055, 0072 7103 Microcline 0071 60699 Montmorillonite 0123, 0124, 0125 87986 Muscovite 0034 62481 Nepheline 0097(2) 51930 Olivine 0065 7965 Omphacite 0019, 0067 108032 Opal 0102 34404 Orthoclase 0057 49824 Phlogopite 0045, 0070 105119 Pyrite 0042, 0048 31598 Pyrolusite 0117, 0118 45534 Pyrrhotite 0051 21572 Quartz 0009(2), 0035 126760 Rutile 0093 4959 Sanidine 0099(2) 49260 Serpentine 0018, 0068 78937 Siderite 0080 11651 Silicified wood 0127(2) 92935 Sillimanite 0032, 0033 70546 Sodalite 0043, 0060 61852 Sphalerite 0105 27485 Staurolite 0027, 0028, 0066 30628 Sulfur 0036, 0037 34751 Talc 0022, 0040, 0041, 0058, 0059 138317 Titanite 0094 4121 Tourmaline 0044, 0062 68419 Tremolite 0098(2), 0100 70913 Zircon 0110(2) 5110 </code></pre> <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.