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24,550 results for “key”
Ecological Survey of Central Arizona: a survey of key ecological indicators in the greater Phoenix metropolitan area and surrounding Sonoran desert, ongoing since 1999
The Ecological Survey of Central Arizona (ESCA) is an extensive field survey and integrated inventory designed to capture key ecological indicators of the CAP LTER study area consisting of the urbanized, suburbanized, and agricultural areas of metropolitan Phoenix, and the surrounding Sonoran desert. The survey, formerly known as the survey 200 and renamed to ESCA in 2015, assesses conditions at approximately 200 sample plots (30m x 30m) that were located randomly using a tessellation-stratified dual-density sampling design. Beginning in 2000, the study is conducted every five years except the 2020 survey, which was conducted in 2023 owing to delays to due Covid. Study plots cover habitats throughout the CAP LTER study area ranging from native Sonoran desert sites to residential yards to an airport tarmac. Measurements include an inventory of all plants (identified to the lowest possible taxonomic unit, typically species), plant biovolume, soil coring for physicochemical properties, arthropod sweep-net sampling, photo documentation, and a visual survey of site and area characteristics. The objectives of the survey are to (1) characterize patches in terms of key biotic, physical, and chemical variables, and (2) examine relationships among land use, general plant diversity, native plant diversity, plant biovolume, soil nutrient status, and social-economic indices along an indirect urban gradient. A pilot survey was conducted in 1999, and the first full ESCA was conducted in 2000. The maiden survey in 2000 featured a suite of measurements that were not assessed in later surveys, including data from a portable weather station set up during the field survey at each location, organic matter decomposition, pollen, and mycorrhizae. In 2010, the survey was expanded to include an assessment of one of the residential parcels overlapping the survey plot at sites in residential areas. Many of the same variables that are measured in the 30m x 30m survey plot are measured in the p
Ecological Survey of Central Arizona: a survey of key ecological indicators in parcels of residential areas in the greater Phoenix metropolitan area, ongoing since 2010
The Ecological Survey of Central Arizona (ESCA) is an extensive field survey and integrated inventory designed to capture key ecological indicators of the CAP LTER study area consisting of the urbanized, suburbanized, and agricultural areas of metropolitan Phoenix and the surrounding Sonoran desert. The survey is conducted every five years at approximately 200 sample plots (30m x 30m) that were located randomly using a tessellation-stratified, dual-density sampling design. Study plots cover habitats throughout the CAP LTER study area ranging from native Sonoran desert sites to residential yards to an airport tarmac. In 2010, the survey was expanded to include an assessment of residential parcels overlapping the survey plot at sites in residential areas. Many of the same variables that are measured in the 30m x 30m survey plot are measured in the parcel, including an inventory of perennial plants, and the biovolume of trees. In addition, a detailed assessment of characteristics of the parcel is performed. Investigators interested in data from the broader Ecological Survey of Central Arizona that includes all survey plots can find those data in the Environmental Data Initiative data repository at [this](https://portal.edirepository.org/nis/mapbrowse?scope=knb-lter-cap&identifier=652) link.
MCR LTER: Coral Reef: Modeling the effects of selectively fishing key functional groups of herbivores on coral resilience; data for Cook et al., 2023 Ecosphere
These data and code were generated in support of the manuscript: Cook DT, Schmitt RJ, Holbrook SJ, and HV Moeller, Ecosphere. To investigate the impacts of selectively harvesting functional groups of herbivorous fishes on coral resilience, we used a dynamic model that is grounded by the coral reef system in Moorea, French Polynesia. Our model simulates the fraction of a reef occupied through time by classes of key benthic spaceholders (coral, two stages of macroalgae, and turf). Benthic and fishing dynamics are linked through the harvesting of two functional groups of herbivorous fishes. We utilize data collected on the abundance of fishes on the reef and in the catch in Moorea, French Polynesia to inform our model and to empirically explore patterns of fishing selectivity. These data and code were published in Ecosphere and were a part of the thesis of D. Cook (2023). This manuscript uses data collected by the U.S. National Science Foundation's (NSF) Moorea Coral Reef Long Term Ecological Research (MCR LTER) site under Grant No. OCE 2224354 (and earlier awards). Additional financial support to the MCR LTER site was provided through a generous gift from the Gordon and Betty Moore Foundation. Research was completed under permits issued by the French Polynesian Government (Délégation à la Recherche) and the Haut-commissariat de la République en Polynésie Francaise (DTRT) (Protocole d'Accueil 2005-2023).
MCR LTER: Coral Reef: Dead coral skeletons impair key recovery processes following coral bleaching; data for Kopecky et al., 2024 Global Change Biology
The data included in this data package were collected on the North shore of Moorea, French Polynesia, from 2015-2023 to explore how dead coral skeletons (e.g,, left after coral bleaching events) influence critical processes tied to coral reef resilience. Together, these various datasets were used for analyses in the manuscript entitled "Changing disturbance regimes, material legacies, and stabilizing feedbacks: dead coral skeletons impair key recovery processes following coral bleaching", published in Global Change Biology. These data are in support of a publication Kopecky et al. (2024) Global Change Biology, and were a part of the thesis of K. Kopecky. The manuscript title and author list are as follows: Changing disturbance regimes, material legacies, and stabilizing feedbacks: dead coral skeletons impair key recovery processes following coral bleaching. Kai Kopecky, Russell J. Schmitt, Sally J. Holbrook. This material is based upon work supported by the U.S. National Science Foundation under Grant No. OCE 22-24354 (and earlier awards) as well as a generous gift from the Gordon and Betty Moore Foundation. Research was completed under permits issued by the French Polynesian Government (Délégation à la Recherche) and the Haut-commissariat de la République en Polynésie Francaise (DTRT) (Protocole d'Accueil 2005-2024). This work represents a contribution of the Moorea Coral Reef (MCR) LTER Site.
Dataset to Manuscript: Key drivers of pyrogenic carbon redistribution during a simulated rainfall event, Bellè et al. 2021 (Biogeosciences)
<p>Dataset to manuscript: Bellè, S-L., Berhe, A., Hagedorn, F., Santin, C., Schiedung, M., van Meerveld, I. and Abiven, S.: Key drivers of pyrogenic carbon redistribution during a simulated rainfall event, Biogeosciences, https://doi.org/10.5194/bg-2020-361, 2021. </p> <p>All parameters and variables are described in the "var_names" file.</p>
Orbicella faveolata and O. franksi coral metagenome assemblies from the Lower Florida Keys region of Florida, USA
<div> <p>The enclosed files include mostly <em>Orbicella faveolata</em> and three <em>Orbicella franksi</em> coral metagenome assemblies collected from the Lower Keys in Florida’s Coral Reef, USA. Metadata for the files is included in this repository. Apparently healthy coral tissue cores were collected between May 28 and June 21, 2021. The DNA was extracted from the host and associated microorganisms and sequenced in a paired-end 150 bp format on an Illumina NovaSeq. Trimming and quality filtering of DNA sequence reads proceeded, followed by host and photoendosymbiotic dinoflagellate DNA removal. The host-cleaned reads were assembled individually by coral sample into longer contigs using MegaHit v1.1.4. The “Assembly_Fastas” zipped file contains 41 metagenome assemblies from the individual <em>Orbicella faveolata</em> corals and 3 assemblies from the individual <em>Orbicella franksi </em>colonies for a total of 44 assemblies. In addition, these assemblies were annotated with eggnog-mapper v2.1.6 to generate both predicted gene regions and annotation output files. The “Predicted_Gene_Fastas” zipped file contains nucleotide fasta files of the predicted gene regions for all 44 coral metagenome assemblies. The fasta header of each gene includes the contig ID it originated from in the associated “Assembly_Fasta”. The “Predicted_Gene_Annotations” zipped file contains either .csv or .xlsx files with the eggnog-mapper-based annotations. These files contain a “query contig” that corresponds to the contig ID in the fasta header of the “Predicted_Gene_Fasta”. </p> <p>In addition to individual assemblies, a co-assembly was generated that included all 41 <em>Orbicella faveolata</em> coral samples. Prior to co-assembly, further removal of eukaryotic DNA proceeded by splitting the indiviudual assemblies into eukaryotic and prokaryotic content with the program EukRep v0.6.7, followed by mapping of the host-clean reads to the eukaryotic DNA to remove them. The eukaryote-clean reads from all 41 corals were input into MegaHit to generate a co-assembly. The co-assembly is included (FLK_OFAV_MG_coassembly_final.contigs.fa). Predicted genes from the co-assembly were generated with Prodigal v2.6.3 and the nucleotide fasta of the output is included in this repository (FLK_OFAV_MG_pred.fna). Like with the indiviudal assemblies, eggnog-mapper was used to generate annotations of the predicted genes from Prodigal (FLK_OFAV_MG.emapper.annotations.xlsx). Additionally, the abundance of each predicted gene was generated using Salmon to map the eukaryote-clean reads to the predicted genes. The number of reads (counts) for each gene across each coral sample were aggregated as integers into one table and included in this repository (FLK_OFAV_MG_pred_NumReads.tsv). </p> </div> <div> <p>These data were processed and generated by Julie Meyer’s Lab at the University of Florida, using funding from the Florida Department of Environmental Protection. </p> </div>
Dataset for the tutorial "pinpoint key pathways with Heinz"
<p> The dataset for the tutorial "pinpoint key pathways with Heinz" in Galaxy training network. </p>
Dataset of "Anomaly Detection in Industrial Networks: Current State, Classification, and Key Challenges"
<p>Industrial networks are adapted to their specific requirements, especially in terms of industrial processes. To ensure sufficient security in these networks, it is necessary to set and use security policies that complement government regulations, recommendations, and relevant security standards. This paper aims to provide an in-depth analysis of the anomalies occurring within the networks and propose a structure for collecting valuable data from the experimental site based on dividing anomalies into three main categories:<br>security, operational, and service anomalies (and regular traffic recognition). We present a proof-of-concept solution/design aggregating data in industrial networks for advanced anomaly classification. Multiple data sources such as industrial communication, sensor data (additional sensors controlling device behavior), and HW status data are used as data sources. A total of three scenarios (using a physical testbed) were implemented, where we achieved an accuracy of 0.8540/0.9972 in advanced anomaly classification.</p>
Data for "Breaking the Paywall: The role of Open Journal System as key Open Science infrastructure"
<h3><strong>Context</strong></h3> <p>This research was conducted within the NSF-SEEKCommons Project, a research initiative dedicated to supporting Open Science and Open Access in disciplinary research. The project has a special interest in understanding the role that critical infrastructure has in supporting open initiatives. The Open Journal System (OJS) serves as a long-standing fundamental piece for Open Access throughout the globe. Hence, it provides valuable information about experiences developing, deploying, and maintaining open technologies. </p> <h3><strong>Methods<br></strong></h3> <div> <div>We used mixed methods for our research, triangulating repository data, installation data, interviews, and documentary analysis. We collected repository data using a report generator (Kopp [2018] 2024) that uses repository metadata to present general statistics about a Git project. The resulting information was manually curated, disambiguated, and annotated to have a homogeneous set of developers with information about their institutional affiliation and country. </div> <div> </div> <div>Names are normalized based on the information in qualitative interviews and by browsing the full-extent commits in the GitHub repository. Other sources for this were the institutional materials (available in current and archived versions of the PKP website), meeting minutes, the user forum, and further project documentation available online. GitHub handles are homologated to their most comprehensive version. For institutional and country affiliation, we resorted to GitHub profiles, PKP documentation and forums, institutional domains available in emails, and researchers' ORCID IDs. </div> </div> <h3><strong>Available files</strong></h3> <ol> <li><strong>Information about the codebase</strong> (number of files, lines of code, and timestamp) organized by <strong>month, quarter, and semester. </strong><br>See file: OJS_GitStats_04-24.csv</li> <li>Information about the historical evolution of the codebase (number of files, lines of code, and timestamp), including <strong>a description of the top committers for each month</strong>. Commiters are described by including their institutional affiliation and country of origin. <br>See file: OJS_DevStats_Institution-Country_1.tsv</li> <li>Information about the <strong>historical evolution of the codebase </strong>focusing on <strong>top committers</strong>, along with their institution and country. This file is formatted to map the co-occurrence of developers and attributes by month between 2004-2024.<br>See file: OJS_DevStats_Institution-Country_2.tsv</li> <li>Selected fields to describe<strong> working and regularly maintained plugins for OJS as of October 2024.</strong> Includes name of the plugin, homepage, description, maintainer, and institutional affiliation. <br>See file: OJS_Plugins_2024_Processed.tsv</li> <li>Details of the aggregated <strong>information</strong> included in <strong>Table</strong> <strong>5</strong> of the article.<br>See file: OJS_Plugins_2024_Table5.tsv</li> <li><strong>Snapshot</strong> to XML information of the <strong>plugin gallery of OJS </strong>(October 21) retrieved from PKP website (Smecher 2024)<br>See file: OJS_Plugins_2024.csv</li> </ol> <h3>Funding</h3> <p><span>The SEEKCommons Project is funded by the U.S. National Science Foundation (NSF), grant #2226425</span></p>
NOAA Monthly Mean Sea Level Summary Data for the Key West Water Level Station (NOAA/NOS Co-OPS ID 8724580), Florida, USA, January 1913 - ongoing
Monthly Mean Sea Level Summary Data for the Key West, Florida, Water Level Station (NOAA/NOS CO-OPS ID 8724580). Data is in meters relative to the STND-Key West Station Datum.
Evaporation Estimates for Long Key C-MAN Weather Station, Florida Bay (FCE) from July 1998 to May 2004
This file contains data from the National Data Buoy Office Coastal-Meteorological Automated Network (C-MAN) weather station near Long Key, in Florida Bay (LONF1, 24deg 50min 36sec N, 80deg 51min 42sec W). The time period is 1600 EST February 6, 2004 through 0700 EST May 28, 2004. The record is a combination of NDBO data (wind speed, air pressure, air temperature water temperature) and Harbor Branch data (relative humidity) needed to calculate evaporative water loss. The file is one of several from this location. Together, they can be used to estimate of hourly, daily, monthly, seasonal and annual evaporation rates. Calculations include hourly water loss and cumulative water loss. Times are Eastern Standard.
Radiation measurements at Key Largo Ranger Station, South Florida (FCE) for July 2001
Basic radiation data, including Infra-red canopy temperatures, collected as 1 minute averages from a 5 m tower at Key Largo Ranger Station, South Florida, near Everglades National Park.
Meteorological measurements at Key Largo Ranger Station, South Florida (FCE) for July 2001 to August 2001
Basic radiation data, including Infra-red canopy temperatures, collected as 1 minute averages from a 5 m tower at Key Largo Ranger Station, South Florida, near Everglades National Park.
Mangrove leaf physiological response to local climate at Key Largo, Watson River Chickee, Taylor Slough, and Little Rabbit Key, South Florida (FCE) from July 2001 to August 2001
Determine the red mangrove leaf physiological response to the local climate to understand the local controls on plant physiology. Data were collected in the Key Largo Ranger Station, Watson River Chickee and Taylor Slough research Sites, South Florida.
Rubisco limited photosynthesis rates of Red mangrove leaves at Key Largo, Watson River Chickee, Taylor Slough, and Little Rabbit Key, South Florida (FCE) from July 2001 to August 2001
Determine the Rubisco limited carboxylation rates of red mangrove ( species Rhizophora mangle) leaves. This information will be used to model carbon sequestration by Red mangroves.
Light limited carboxylation rates of Red mangrove leaves at Key Largo, Watson River Chickee, Taylor Slough, and Little Rabbit Key, South Florida (FCE) from July 2001 to August 2001
Our goal is to determine light limited carboxylation rates of red mangrove (specie sRhizophora mangle) leaves. This information will be used to model carbon sequestration by Red mangroves.
Gastropod Biomass and Densities found at Rabbit Key Basin, Florida Bay (FCE) from March 2000 to April 2001
Grazing gastropod biomass and shell morphology were measured from 1 m2 plots within Thalassia seagrass meadow in Rabbit Key Basin, Florida Bay, Everglades National Park.
Seagrass Epiphyte Accumulation: Epiphyte Loads on Thalassia testudinum in Rabbit Key Basin, Florida Bay (FCE) from March 2000 to April 2001
Total epiphyte and epiphyte chlorophyll-a loads and leaf nutrients were measured on Thalassia seagrass short-shoots from Rabbit Key Basin, Florida Bay.
Thalassia leaf morphology and productivity measurements from arbitrary plots located in a Thalassia seagrass meadow in Rabbit Key Basin, Florida Bay (FCE) from March 2000 to April 2001
Thalassia leaf morphology and productivity were measured from six arbitrary 200 cm2 plots within a Thalassia seagrass meadow in Rabbit Key Basin, Florida Bay.
Annual Water Quality in Everglades National Park, Florida Bay, West Florida Shelf, and Florida Keys National Marine Sanctuary, Florida, USA: 1994-2019
Annual (water year basis) geometric mean concentrations of total phosphorus (TP), soluble-reactive phosphorus (SRP), total nitrogen (TN), dissolved inorganic nitrogen (DIN; calculated as nitrate + nitrite + ammonia), chlorophyll-a (Chl-a), and total organic carbon (TOC) concentrations across Everglades National Park (ENP), Florida Keys National Marine Sanctuary (FKNMS), West Florida Shelf and Florida Bay. This dataset is composed of data from multiple sources including Florida Coastal Everglades, Florida International University Southeast Research Center (FIU SERC), South Florida Water Management District (SFWMD), and National Oceanic and Atmospheric Administration Atlantic Oceanographic and Meteorological Laboratory (NOAA AOML). All values reported less than the laboratory minimum detection limit (MDL) were set to one-half the MDL. Annual geometric mean concentrations were computed for monitoring locations with greater than five years of data and four samples per year with a minimum of one sample in the wet and dry seasons. This dataset was created to evaluate long-term spatial and temporal trends in nutrients, chlorophyll-a, and total organic carbon at the landscape scale relative to freshwater and marine ecosystems.
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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.