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1,899 results for “Running”
HiFiBGC run output on four datasets
<p>This dataset contains select files/folders from output of HiFiBGC run on four HiFi metagenomic datasets. This dataset is used for the analyses available here https://github.com/ay-amityadav/HiFiBGC_analyses. </p>
Large Grid of Non-Grey Global Circulation Models Run With SPARC/MiTgcm
<p>Data from a large grid of non-grey Global Circulation Models run with SPARC/MiTgcm. This includes: pressure-temperature profiles, spectra and phase curves. A python tool for visualising the grid data is also included.</p> <p>Detailed information on the model and grid setup used to produce this data can be found and at: <a href="https://doi.org/10.1093/mnras/stae984">https://doi.org/10.1093/mnras/stae984</a> and <a href="https://3dsim.oca.eu/fr/hot-jupiters-3d-models">https://3dsim.oca.eu/fr/hot-jupiters-3d-models</a></p> <p>In addition to the drag free models described in <a href="https://doi.org/10.1093/mnras/stae984">https://doi.org/10.1093/mnras/stae984</a> additional models with varying rayleigh drag timescales are also included.</p> <p>Pressure-temperature profile files include the following information for each pressure level, latitude and longitude: temperature (K), potential temperature (K), longitudinal wind speed U (m/s), latitudinal wind speed V (m/s), vertical Wind speed (Pa/s), vertical wind speed (m/s) and vertical gas density (kg/m^3).</p> <p>Spectra files include the following information for each phase and wavelength (Microns): flux (Fp/Fs), flux (erg/cm^2/sr/hz/s).</p> <p>Phase curve files include the flux in a number of different instrument bandpasses for each phase.</p> <p>More information on the data files, including wavelength ranges for the different phase curve bandpasses, can be found within the Data_README.txt file.</p> <p>We additionally provide a data visualiser in the form of a python script. Information about it can be found in Slider_README.txt file.</p> <p>(V1 was missing a couple of pressure-temperature profiles for models with drag, these have been added to V2.)</p>
Data: relation between soft tissue energy dissipation and leg stiffness in running at different step frequencies
<p>Data set - paper: <span>Relation between soft tissue energy dissipation and leg stiffness in running at different step frequencies </span></p>
Minimal dataset to run CAUSEWAY - 5 eQTLGen genes, PLINK european bfiles and 1 Depression MTAG sumstats
Open the record for dataset details and reuse information.
Replication package for: The Long-Run Labor Market Effects of the Canada-U.S. Free Trade Agreement
<p>Replication package for: The Long-Run Labor Market Effects of the Canada-U.S. Free Trade Agreement, published in the Review of Economic Studies. The replication package includes all publicly available data and all code required to replicate the results in the paper.</p>
Quantification of RNAseq and CUT&RUN from MeCP2 adult knockout hippocampus
Open the record for dataset details and reuse information.
An evidence map of research assessing the effects of timber harvesting on water quality, biotic and biodiversity indicators in running waters: Data and R code
<p>These are the data and R code that accompany the Forest Ecology and Management publication titled "An evidence map of research assessing the effects of timber harvesting on water quality, biotic and biodiversity indicators in running waters". </p>
Simulation of HLVK Configuration for O5 and O6 Observation Runs: Gravitational Wave Detection Rates, Skymaps, and Multimessenger Parameters (November 2024 edition)
<p>We conducted a simulation of the<strong> HLVK </strong>configuration for the upcoming O5 and O6 observing runs, estimating the expected gravitational wave (GW) detection rates based on a signal-to-noise (S/N) <strong>threshold of 10</strong>. This dataset includes skymap files and essential parameters for multimessenger studies. Additionally, a Python script is provided to facilitate the separation of BNS, BBH, and NSBH events based on mass, with a default recommendation of setting neutron star (NS) mass to <3 solar masses and black hole (BH) mass to ≥3 solar masses. Previous simulations for the O4 and O5 runs used an <strong>S/N of 8</strong> and can be found here: <a href="https://doi.org/10.5281/zenodo.7026209" target="_new" rel="noopener">https://doi.org/10.5281/zenodo.7026209</a>. </p>
Distribution. Angola, DR Congo, Malawi, Mozambique, Tanzania, and Zambia. Description. Head-body 46:5-47-8 cm (males), 44-45-5 cm (females), tail 40-43 cm (males), 38-39 cm (females), hindfoot 8:7-9-8 cm (males), 8-9 cm (females), ear 4-7-5-4 cm (males), 5-1-5-8 cm (females); weight 1-3-2 kg. The coat color is pale ocher, with brownish or grayish tones; melanistic individuals are quite common. The throat and chest are blackish, and the ventral pelage varies from creamy white to dirty white. The stripes and spots on the body vary from different hues of brown to black. The nuchal stripes run as two parallel lines from the nape to the shoulders, where they diverge and enlarge towards the elbows; they are not so conspicuously marked as in other genet species. Below them, a pair of thinner stripes and small spots are scattered on the shoulders and sides of the neck. A third pair of thinner, parallel stripes runs down the neck between the nuchal stripes, extending to about one fourth of the mid-dorsal line, where they vanish or diverge as the first row of flank spots. The black mid-dorsal line is continuous and is flanked on each side by four rows of oblong to squared spots, and by a few small-scattered spots below. There is a dorsal erectile crest. The face has a dark mask and a pair of white sub-ocular spots. The tail has seven to nine black rings, alternating with pale rings; the intervening white spaces are pigmented with a brownish tinge on the dorsal midline. The width of the pale rings relative to the dark rings in the middle of the tail is 50-75%; the tip of the tail is dark. The hindlimbs and forelimbs are black; there are white hairs on the metacarpals and metatarsals. [he posterior parts of the feet are dark. There are two pairs of teats. The posterior chamber of the auditory bulla is not ventrally inflated and has a continuous curve line on the external side. The ratio between the inter-orbital constriction and frontal width is 1-00 + 0-12. Dental formula: 13/3, C1/1,P 4/4, M 2/2 = 40. in Viverridae
Distribution. Angola, DR Congo, Malawi, Mozambique, Tanzania, and Zambia. Description. Head-body 46:5-47-8 cm (males), 44-45-5 cm (females), tail 40-43 cm (males), 38-39 cm (females), hindfoot 8:7-9-8 cm (males), 8-9 cm (females), ear 4-7-5-4 cm (males), 5-1-5-8 cm (females); weight 1-3-2 kg. The coat color is pale ocher, with brownish or grayish tones; melanistic individuals are quite common. The throat and chest are blackish, and the ventral pelage varies from creamy white to dirty white. The stripes and spots on the body vary from different hues of brown to black. The nuchal stripes run as two parallel lines from the nape to the shoulders, where they diverge and enlarge towards the elbows; they are not so conspicuously marked as in other genet species. Below them, a pair of thinner stripes and small spots are scattered on the shoulders and sides of the neck. A third pair of thinner, parallel stripes runs down the neck between the nuchal stripes, extending to about one fourth of the mid-dorsal line, where they vanish or diverge as the first row of flank spots. The black mid-dorsal line is continuous and is flanked on each side by four rows of oblong to squared spots, and by a few small-scattered spots below. There is a dorsal erectile crest. The face has a dark mask and a pair of white sub-ocular spots. The tail has seven to nine black rings, alternating with pale rings; the intervening white spaces are pigmented with a brownish tinge on the dorsal midline. The width of the pale rings relative to the dark rings in the middle of the tail is 50-75%; the tip of the tail is dark. The hindlimbs and forelimbs are black; there are white hairs on the metacarpals and metatarsals. [he posterior parts of the feet are dark. There are two pairs of teats. The posterior chamber of the auditory bulla is not ventrally inflated and has a continuous curve line on the external side. The ratio between the inter-orbital constriction and frontal width is 1-00 + 0-12. Dental formula: 13/3, C1/1,P 4/4, M 2/2 = 40.
Data from: Genomic region associated with run-timing has similar haplotypes and phenotypic effects across three lineages of Chinook salmon
<p><span><span><span><span><span><span><span><span><span><span><span>Conserving life history variation is a stated goal of many management programs, but the most effective means by which to accomplish this are often far from clear. Early, premature migrating and late, mature migrating forms of Chinook salmon face unequal pressure from natural and anthropogenic forces. These forces may result in the diminishment of migration variation in some stocks because migration timing is known to be highly heritable. Genomic regions of chromosome 28 are known to be strongly associated with migration variation in adult Chinook salmon, but it remains unclear whether there is consistent association among the diverse populations of Chinook salmon. Therefore, application of this association for management may be premature. We examined the association of genetic variation in 28 markers on chromosome 28 surveyed with high-throughout genotyping (GT-seq) with individual run timing characteristics gleaned from passive integrated transponder recordings of over 5,000 Chinook salmon from the three phylogeographic lineages that inhabit the Columbia River Basin. Despite the strong genetic differences among them, the three lineages exhibited very similar genetic variants in the chromosome 28 region and moderate to strong association of these variants and run timing phenotypes. This is particularly notable for the interior stream-type lineage, which exhibits an earlier and more constrained migration of fish than the other lineages and which are exclusively premature when they enter freshwater. In both interior stream-type and interior-ocean type Chinook salmon, heterozygotes of the most strongly associated linkage groups are largely intermediate to homozygotes in migration timing, and while we make no robust conclusions about dominance, results indicate codominance or marginal partial dominance of the early migrating allele. Our results lend support to the cautious utilization of chromosome 28 variation in tracking and predicting run timing in these Chinook salmon.</span></span></span></span></span></span></span></span></span></span></span></p>
Summary Report of the GenX and PowerGenome runs for generating Price Series (for ARPA-E FLECCS Project)
<p>The present work describes the different sensitivity scenarios and simulated conditions under which we conduct the capacity expansion planning studies using GenX, a highly reconfigurable Mixed-Integer Linear Programming (MILP) based capacity-expansion planning model. In this set of simulations, we consider </p>
R code and data for running models in "Rapid Growth of the Swainson's Hawk Population in California since 2005"
<p>By 1979 Swainson's Hawks (<em>Buteo swainsoni)</em> had declined to as low as 375 breeding pairs throughout their summer range in California. Shortly thereafter the species was listed as threatened in the state. To evaluate the hawk's population trend since then, we analyzed data from 1,038 locations surveyed throughout California in either 2005, 2006, 2016, or 2018. We estimated a total statewide population of 18,810 breeding pairs (95CI: 11,353–37,228) in 2018, and found that alfalfa (<em>Medicago sativa</em>, lucerne) cultivation, agricultural crop diversity, and the occurrence of non-agricultural trees for nesting were positively associated with hawk density. We also concluded that California's Swainson's Hawk summering population grew rapidly between 2005 and 2018 at a rate of 13.9% per year (95CI: 7.8–19.2%). Despite strong evidence that the species has rebounded overall in California, Swainson's Hawks remain largely extirpated from Southern California where they were historically common. Further, we note that the increase in Swainson's Hawks has been coincident with expanded orchard and vineyard cultivation which is not considered suitable for nesting. Therefore, we recommend more frequent, improved surveys to monitor the stability of the species' potential recovery and to better understand the causes. Our results are consistent with increasing raptor populations in North America and Europe that contrast with overall global declines, especially in the tropics.</p>
West Atlantic simulation input files and run
<p>Dataset to reproduce runs in Irrmann, G. et al.: <em>Improving Ocean Modelling Software NEMO 4.0 benchmarking and communication efficiency</em>, Geosci. Model Dev (https://doi.org/10.5194/gmd-15-1-2022).</p> <p><a href="https://zenodo.org/api/files/fdfef221-a04f-49bc-8bdb-5a7e84c0e989/IAS24_light.tar?versionId=b6e40319-d3c9-4b56-a2eb-f406f11b4ed2">IAS24_light.tar</a> contains input files needed to reproduce runs of the West Atlantic simulation.</p> <p><a href="https://zenodo.org/api/files/fdfef221-a04f-49bc-8bdb-5a7e84c0e989/19940101_19940103.tar?versionId=ea8757ef-65ce-4fd5-9f90-86122bf22117">19940101_19940103.tar</a> is an example of a run of the West Atlantic simulation, the <em>timing.output </em>file contains data to reproduce a plot of computing time per time step.</p>
Amyloid-beta 16-22 peptide monomer simulation with the CHARMM-Drude force field and OpenMM (Run 2)
<p>Amyloid-beta 16-22 peptide (monomer) simulations with the CHARMM-Drude force field and OpenMM. This is the second independent simulation runs out of 3.</p> <p>Part 1-2 are 200 ns long, 3-8 are 100 ns each. Total trajectory length is 1 microseconds. Frame saving frequency is 10 ps.</p> <p>The system contains ~ 150 mM NaCl.</p>
Amyloid-beta 16-22 peptide monomer simulation with the CHARMM-Drude force field and OpenMM (Run 3)
<p>Amyloid-beta 16-22 peptide (monomer) simulations with the CHARMM-Drude force field and OpenMM. This is the last independent simulation runs out of 3.</p> <p>Part 1-2 are 200 ns long, 3-8 are 100 ns each. Total trajectory length is 1 microseconds. Frame saving frequency is 10 ps.</p> <p>The system contains ~ 150 mM NaCl.</p>
Amyloid-beta 16-22 peptide monomer simulation (without salt) with the CHARMM-Drude force field and OpenMM (Run 1)
<p>Amyloid-beta 16-22 peptide (monomer) simulations with the CHARMM-Drude force field and OpenMM. Initial structures are obtained from CHARMM-GUI. This is the first independent simulation runs out of three. The system does not contain any ions.</p> <p>Total trajectory length is 1 microseconds. Frame saving frequency is 10 ps.</p> <p>All the simulation parameters and force field files are uploaded into this repository. Simulations are done with OpenMM v. 7.5.1.</p> <p> </p>
Amyloid-beta 16-22 peptide dimer simulation (150 mM NaCl) with the CHARMM-Drude force field and OpenMM (Run 2)
<p>MD simulations of the Amyloid-beta 16-22 dimer at 150 mM NaCl concentration with CHARMM-Drude force field and OpenMM. Initial structure is obtained from CHARMM-GUI. In the initial configuration, two amyloid-beta 16-22 monomers are not interacting. This repository contains the second out of three independent runs.</p> <p>All the simulation parameters and force field files are uploaded into this repository. Simulations are done with OpenMM v. 7.5.1.</p> <p>The trajectory is divided into 7 parts: part_1-2 are each 200 ns long; part_3-6 are each 100 ns long, and part_7 is 640 ns long. Frames are saved in every 10 ps.</p>
Amyloid-beta 16-22 peptide monomer simulation (without salt) with the CHARMM-Drude force field and OpenMM (Run 2)
<p>Amyloid-beta 16-22 peptide (monomer) simulations with the CHARMM-Drude force field and OpenMM. Initial structures are obtained from CHARMM-GUI. This is the second independent simulation run out of three. The system does not contain any ions.</p> <p>Total trajectory length is 1 microseconds. Frame saving frequency is 10 ps.</p> <p>All the simulation parameters and force field files are uploaded into this repository. Simulations are done with OpenMM v. 7.5.1.</p> <p> </p>
Amyloid-beta 16-22 peptide dimer simulation (150 mM NaCl) with the CHARMM-Drude force field and OpenMM (Run 1)
<p>MD simulations of the Amyloid-beta 16-22 dimer at 150 mM NaCl concentration with CHARMM-Drude force field and OpenMM. Initial structure is obtained from CHARMM-GUI. In the initial configuration, two amyloid-beta 16-22 monomers are not interacting. This repository contains the first out of three independent runs.</p> <p>All the simulation parameters and force field files are uploaded into this repository. Simulations are done with OpenMM v. 7.5.1.</p> <p>The trajectory is divided into 7 parts: part_1-2 are each 200 ns long; part_3-6 are each 100 ns long, and part_7 is 640 ns long. Frames are saved in every 10 ps.</p>
Amyloid-beta 16-22 peptide dimer simulation (150 mM NaCl) with the CHARMM-Drude force field and OpenMM (Run 3)
<p>MD simulations of the Amyloid-beta 16-22 dimer at 150 mM NaCl concentration with CHARMM-Drude force field and OpenMM. Initial structure is obtained from CHARMM-GUI. In the initial configuration, two amyloid-beta 16-22 monomers are not interacting. This repository contains the third out of three independent runs.</p> <p>All the simulation parameters and force field files are uploaded into this repository. Simulations are done with OpenMM v. 7.5.1.</p> <p>The trajectory is divided into 7 parts: part_1-2 are each 200 ns long; part_3-6 are each 100 ns long, and part_7 is 640 ns long. Frames are saved in every 10 ps.</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.