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Covid-19 Vaccine Monitoring project (CVM)-Electronic Health Record data sources Codelist
<p>This is the code list that was used to identify outcomes and covariates (those tagged as in narrow) in electronic health records of participating data sources in the the CVM study which was addressing the following questions</p> <p> </p> <p>1)<strong> To create and assess readiness of electronic health record data sources for rapid evaluation of safety signals by </strong></p> <ul> <li> <p>Providing an overview of the methods for identification of COVID-19 vaccine exposure in the data sources </p> </li> <li> <p>Monitoring the number of individuals exposed to any COVID-19 vaccine and to compare this to COVID-19 vaccine exposure (benchmark: ECDC vaccine tracker)1 </p> </li> <li> <p>Generation of updated background rates for AESIs </p> </li> </ul> <p><strong>2) To conduct rapid safety assessment studies using electronic healthcare records and support EMA safety assessments. </strong></p> <p>The protocol for this study is publicly available www.encepp.eu/encepp/viewResource.htm?id=42637. The report with results using the code list is publicly available on Zenodo as well. </p> <p> </p> <p> </p> <p> </p>
High Temporal Resolution Records of Hansbreen Ice Flow Velocity for Years 2006-2019
<p>This repository contains the datasets of the positions of 16 mass balance stakes, horizontal velocity (m/yr) and accuracy of velocity (m/yr) for Hansbreen, a tidewater glacier in southern Svalbard. Data were derived from GNSS measurements conducted in the period 2006-2019. Stake positions are given in UTM zone 33X, and elevation in geoidal height (EGM96). Additionally, we provide files with annual, summer and winter velocities (m/yr) with a standard deviation of velocity, estimated for the hydrological year. The file „Hansbreen_preprocessing_code_stakes.zip” contains the code used for the velocity estimation.</p>
Alien Species First Records Database
<p>The Alien Species First Records data set contains years (first records) when an established alien species was first recorded in a region (mostly countries, but also sub-national units).</p><p>The first records were gathered in a collaborative effort involving >50 researchers worldwide from various sources consisting of online databases, scientific publications, reports and personal collections. A full list of data sources is provided in the data set and the data are described in more detail in the (compilation of data, list of data sources, delineation of continents, analyses etc.) in the following publication, which can be downloaded with free access:</p><p>Seebens, H., Blackburn, T. M., Dyer, E. E., Genovesi, P., Hulme, P. E., Jeschke, J. M., … Essl, F. (2017). No saturation in the accumulation of alien species worldwide. Nature Communications, 8(1), 14435. https://doi.org/10.1038/ncomms14435</p><p>The data set was revised and further extended in version 1.2, which was introduced by:</p><p>Seebens, H., Blackburn, T. M., Dyer, E. E., Genovesi, P., Hulme, P. E., Jeschke, J. M., … Essl, F. (2018). Global rise in emerging alien species results from increased accessibility of new source pools. Proceedings of the National Academy of Sciences, 115(10), E2264–E2273. https://doi.org/10.1073/pnas.1719429115</p><p>One of the above references needs to be cited in case of using the data set.</p><p>Note that single years of first records were generated from original records in cases latest years (e.g., '<1920', 'pre-1920') or ranges (e.g., '1920s', 1920-1930') were provided in the original document following these rules:</p><ul><li>If latest years were provided (e.g., '<1920'), this year was taken (e.g., '1920')</li><li>If ranges of years larger 20 years were provided in the original source, these records were removed.</li><li>If ranges of years equal or less than 20 years were provided in the original document, a random year was selected from this time period. This was done to avoid artificial peaks at e.g. the mean value or the first year of that period.</li></ul><p>Consequently, some records represent years randomly drawn from the original time period, which makes the column 'FirstRecord' different from the original data source. The original first record as provided in the source is provided in the column 'FirstRecord_orig' of the data set.</p>
Predicted Surficial Blue Carbon Maps for Blackbird Creek and St. Jones River Tidal Salt Marshes using 2014-2023 Landsat-8 OLI records
These data tables reflect the predictions of a gradient boosted trees model for predicting soil organic matter (SOM) in the surficial layer of tidal marsh soils. The model was trained on soil core data related to its corresponding spectral characteristics from decadal Landsat-8 Operational Land Imager data (see associated publication Warner et al. "Leveraging a decade of Landsat-8 spectral records for mapping blue carbon storage in tidal salt marshes"). This is a modeled data product designed to illustrate spatial patterns of organic matter storage as predicted by satellite data.
Precipitation record from Old Headquarters, Black Rock Forest, Cornwall, NY 1960 - 2025
Black Rock Forest has been measuring precipitation using an aluminum bucket gauge since 1960. Total rainfall is measured after each event to the nearest hundredth of an inch. Snow depth is measured adjacent to the bucket and snow in the collection bucket is melted to determine the snow water equivalent. The gauge is located in a meadow at 129 Continental Road, Cornwall, New York.
Sound Recording and Ethological Data on Vitelline Warblers (S. vitellina) on Little Cayman Island, 2023
The Vitelline Warbler (Setophaga vitellina) is an understudied species endemic to a few islands in the western Caribbean. Little is known beyond its phylogenetic relationship to other New World warblers. We used island-wide surveys and bioacoustic recordings to investigate the distribution, vocalizations, and ecology of S. vitellina across a significant portion of the species’ range on Little Cayman Island. We recorded 417 songs from 91 individuals and analyzed the length, frequency, and shape of various song components. We observed and characterized high variation in the composition and character of songs.
Native seedlings recorded on field plots with and without invasive buffel grass during the monsoon season of 2013 near Tucson, Arizona, USA
Although buffel grass (Cenchrus ciliaris) invasions on several continents have significant ecological impacts, little information is available on its effect on seedling emergence and establishment of native vegetation. In highly impacted areas of the Sonoran Desert of North America, perennial plants are particularly vulnerable during their seedling stage. We studied the impact of buffel grass on the emergence and early survival of native seedlings in a field experiment. We marked out 2m x 2m field plots at three locations near Tucson, Arizona, with and without buffel grass. We removed the buffel grass from half of those with the invasion, and censused and marked native perennial seedlings that emerged in each plot for ten weeks during July-September (monsoon season) of 2013. Emergence and survival of native perennials in the field were both significantly higher where mature buffel grass was removed or had never invaded than where it remained. Our results highlight the need for more manipulative studies of density to improve mechanistic understanding of population dynamics, and to forecast how populations and communities will respond in the long term to perturbations such as invasion.
Total and diffuse photosynthetically active radiation (PAR) recorded by a beam fraction (BF3) sensor during the summer of 2012 in vicinity of Toolik Lake, Alaska.
This file contains irradiance (PAR) and diffuse light data logged from a beam fraction (BF3) sensor near Toolik Lake, Alaska during the summer of 2012. The data comes from a compilation of automated datalogger readings as well as measurements taken during the field season in conjunction with the Delta-T SunScan wand to measure PAR in tall shrub canopies dominated by Betula nana or Salix pulchra species. The sensor was leveled and mounted to a 2m tripod in each location, and programmed to record instantaneous readings in 30 second to 5 minute intervals.
Long-term record of wetted area, substrate type, and plant features in Sycamore Creek, Arizona, USA (2010-2020)
The primary objective of this project is to understand how long-term climate variability and change influence the structure and function of desert streams via effects on hydrologic disturbance regimes. Climate and hydrology are intimately linked in arid landscapes; for this reason, desert streams are particularly well suited for both observing and understanding the consequences of climate variability and directional change. Researchers try to (1) determine how climate variability and change over multiple years influence stream biogeomorphic structure (i.e., prevalence and persistence of wetland and gravel-bed ecosystem states) via their influence on factors that control vegetation biomass, and (2) compare interannual variability in within-year successional patterns in ecosystem processes and community structure of primary producers and consumers of two contrasting reach types (wetland and gravel-bed stream reaches). This dataset was collected to understand changes of biota patch cover in different sites and reaches of Sycamore Creek and the transition of different algal and plant communities in post-flood succession.
Calling activity of Birds in the White Mountain National Forest: Audio Recordings (2016 and 2018)
We collected 410 10-minute sound recordings of birds in and near the Hubbard Brook Experimental Forest in New Hampshire. Recordings, which encompassed most of the bird breeding season in each of two years, included 130,776 vocalizations from 46 taxa. In the associated publication, we report species lists, rarefaction curves, and vocalization descriptions. We also provide analyses of habitat associations, phenology, and spatial patterning in vocalization activity. These data were gathered as part of the Hubbard Brook Ecosystem Study (HBES). The HBES is a collaborative effort at the Hubbard Brook Experimental Forest, which is operated and maintained by the USDA Forest Service, Northern Research Station.
Mammal species recorded within the Hubbard Brook Experimental Forest and vicinity (1963-2020; updated January 2021).
This dataset contains confirmed observations of mammal species at the Hubbard Brook Experimental Forest and adjacent Mirror Lake. The original list was published in Holmes, R. T. and G. E. Likens. 1999. Organisms of the Hubbard Brook Valley, New Hampshire. USDA Forest Service, Northeastern Research Station, General Tech. Report NE-257. 32 pp. The list is updated here (January 2021) to include additional species observed since the original publication, with annotated comments by R.T. Holmes, H. ter Hofstede (bats) and L. Christenson (from motion-detecting cameras, 2014-2019).
Calling activity of Birds in the White Mountain National Forest: Manifest of 99,778 acoustic recordings from bird plots in the Hubbard Brook Forest: 2016 - 2023
During 2016 - 2023, during the bird breeding season, we collected 99,778 files of bioacoustic recordings in and near the Hubbard Brook Experimental Forest in New Hampshire. Here, we provide a manifest of the sound files. Most files are one-hour recordings collected at 32 kHz and saved in FLAC format (~ 25 MB per file, ~ 13 TB total). Typical recording configuration was 05:00 - 08:00 and 17:30 - 20:30 local time. The full sound files have been saved in three respositories: two copies at Dartmouth College (Ayres lab) and one copy at the Macauley Library, Cornell Laboratory of Ornithology. The full sound files are available upon request. The file attributes within the manifest include date, start time, and recorder group: e.g., Main, 10ha, Oven, VW, AshBirch, and Ridge. Each recorder group had 5 - 20 recorders at plots separated by >100 m. Coordinates of each recorder are associated with plot names within metadata. The bird species expected to occur in these recordings are those from Holmes et al. (2021). These data were gathered as part of the Hubbard Brook Ecosystem Study (HBES). The HBES is a collaborative effort at the Hubbard Brook Experimental Forest, which is operated and maintained by the USDA Forest Service, Northern Research Station. Holmes, R., S. Sillett, and M. Hallworth. 2021. Bird species recorded within the Hubbard Brook Experimental Forest and vicinity (1963-2020; updated January 2021). ver 1. Environmental Data Initiative. https://doi.org/10.6073/pasta/da6cbb1ed8142d52a9d72762983742d8 (Accessed 2024-10-24).
WSI01 Long-term water (stream, groundwater, precipitation) stable isotope records at Konza Prairie
Long-term oxygen and hydrogen stable isotope (δ18O and δ2H) records for precipitation, stream water, and groundwater at Konza Prairie Biological Station.
APT02 Monthly temperature and precipitation records from Manhattan, KS
Data set contains the monthly values of maximum, minimum and average temperatures and monthly total precipitation for Manhattan, KS since 1891. Data are in three separate files, one for each measurement. Data comes from the Weather Data Library (https://www.ncdc.noaa.gov/cdo-web/search?datasetid=GHCND) in the computer system office of the Cooperative Extension Service of Kansas State University, Manhattan Kansas. 211 Umberger Hall, (785) 532-6270.
Precipitation data for A1 chart recorder, 1952 - 1964.
Precipitation data were collected from a ridgetop climate station east of Niwot Ridge (A1 at 2195 m) throughout the year using chart recorders. Initially, instrumentation consisted of an 8-inch metal rain gauge with the receiving rim about 3 feet above the ground and measurements were made on an approximately weekly basis. More recently, instrumentation consisted of a Fergusson-type weighing rain gauge. Precipitation was caught in a bucket containing ethylene glycol (to melt snow) and light oil (to prevent evaporation). As the weight of the bucket increased, the pen moved up via a spring mechanism and recorded on a rotating chart. Precipitation was recorded on a continuous basis.
Precipitation data for B1 chart recorder, 1952 - 1964.
Precipitation data were collected from a ridgetop climate station east of Niwot Ridge (B1 at 2591 m) throughout the year using a chart recorder. Initially, instrumentation consisted of an 8-inch metal rain gauge with the receiving rim about 3 feet above the ground and measurements were made on an approximately weekly basis. More recently, instrumentation consisted of a Fergusson-type weighing rain gauge. Precipitation was caught in a bucket containing ethylene glycol (to melt snow) and light oil (to prevent evaporation). As the weight of the bucket increased, the pen moved up via a spring mechanism and recorded on a rotating chart. Precipitation was recorded on a continuous basis.
Climate data for C1 chart recorder, 1952 - 1982.
Climatological data were collected from a Niwot Ridge climate station (C1 at 3018 m) throughout the year. Parameters measured were temperature, relative humidity, solar radiation, precipitation, barometric pressure, and wind speed. The station was initially instrumented with a thermohygrograph (regularly calibrated and checked with maximum and minimum thermometers and psychrometers), which was equipped with a Bourdon tube (to measure temperature) and a banjo-spread hair element (to measure relative humidity). The thermohygrograph was situated in a white, all wood, louvered Stevenson screen which is oriented with the door facing north. The station was initially instrumented with a standard 8-inch precipitation gauge installed with the rim 1 m above ground. A recording precipitation gauge was installed in 1962, with the installation in the clearing positioned so that the gauge rim subtended an angle of 45 degrees to the tree crowns although the most effective angle is 30 degrees according to Leaf (1962). Precipitation was caught in a bucket containing ethylene glycol (to melt snow) and light oil (to prevent evaporation). As the weight of the bucket increased, a pen moved up via a spring mechanism and recorded on a rotating chart. Solar radiation was recorded on a bimetalic strip mechanical actinometer. Ninety percent of solar radiation from 360 to 2000 nm was transmitted through the instrument's glass dome. Barometric pressure was recorded on a Friez microbarograph at the Mountain Research Station at 2880 m. The instrument was calibrated against a full-range mercurial, Fortin-type barometer. The station was initially instrumented with a totalizing anemometer (approximately 0.7 m above the general level of tree crowns). Wind speed (peak gust) was subsequently measured with a 3-cup, AC-generating anemometer that continuously recorded onto an Esterline Angus strip chart recorder. Wind direction was recorded as a pen position on a continuously recording strip chart. The t
Climate data for C1 chart recorder, 1982 - 1988.
Climatological data were collected from a Niwot Ridge climate station (C1 at 3018 m) throughout the year. Parameters measured were temperature, relative humidity, solar radiation, barometric pressure, wind speed, and run of wind. The station was instrumented with a thermohygrograph (regularly calibrated and checked with maximum and minimum thermometers and psychrometers), which was equipped with a Bourdon tube (to measure temperature) and a banjo-spread hair element (to measure relative humidity). The thermohygrograph was situated in a white, all wood, louvered Stevenson screen which was oriented with the door facing north. Solar radiation was recorded on a bimetalic strip mechanical actinometer. Ninety percent of solar radiation from 360 to 2000 nm was transmitted through the instrument's glass dome. Barometric pressure was recorded on a Friez microbarograph at the Mountain Research Station at 2880 m. The instrument was calibrated against a full-range mercurial, Fortin-type barometer. Wind speed (peak gust) was measured with a 3-cup, AC-generating anemometer that continuously recorded onto an Esterline Angus strip chart recorder. Average wind speed was calculated from the peak gust trace. Run of wind was measured with a Belford totalizing cup anenometer with a counter (at a height of approximately 3 meters above ground). The thermohygrograph, actinometer, and microbarograph all used wind-up or battery-driven clock drives that rotated the recording chart on a right cylindrical drum with a fixed period between 24 h and 861 h depending on the gears used. These clock mechanisms were virtually identical and therefore completely interchangeable among the instruments.
Climate data for D1 chart recorder, 1982 - 1988.
Climatological data were collected from a Niwot Ridge climate station (D1 at 3743 m) throughout the year. Parameters measured were temperature, relative humidity, solar radiation, wind speed and run of wind. The station was instrumented with a thermohygrograph (regularly calibrated and checked with maximum and minimum thermometers and psychrometers), which was equipped with a Bourdon tube (to measure temperature) and a banjo-spread hair element (to measure relative humidity). The thermohygrograph was situated in a white, all wood, louvered Stevenson screen which was oriented with the door facing north. Solar radiation was recorded on a bimetalic strip mechanical actinometer. Ninety percent of solar radiation from 360 to 2000 nm was transmitted through the instrument's glass dome. Wind speed (peak gust) was measured with a 3-cup, AC-generating anemometer that continuously recorded onto an Esterline Angus strip chart recorder. Run of wind was measured with a Belford totalizing cup anenometer with a counter (at a height of approximately 3 meters above ground). Average wind speed was calculated from the peak gust trace. The thermohygrograph and actinometer both used wind-up or battery-driven clock drives that rotated the recording chart on a right cylindrical drum with a fixed period between 24 h and 861 h depending on the gears used. These clock mechanisms were virtually identical and therefore completely interchangeable among the instruments.
Climate data for Saddle chart recorder, 1981 - 1982.
Climatological data were collected from a Niwot Ridge climate station (Saddle, 3525 m) throughout the year. Parameters measured were temperature, relative humidity, solar radiation, and precipitation. Although wind speed, wind direction, and barometric pressure were originally listed as parameters for this data set, no values were actually found to be present in the data and these columns were therefore removed from the data set. The station was instrumented with a thermohygrograph (regularly calibrated and checked with maximum and minimum thermometers and psychrometers), which was equipped with a Bourdon tube (to measure temperature) and a banjo-spread hair element (to measure relative humidity). The thermohygrograph was situated in a white, all wood, louvered Stevenson screen which is oriented with the door facing north. The station was instrumented with a recording precipitation gauge. Precipitation was caught in a bucket containing ethylene glycol (to melt snow) and light oil (to prevent evaporation). As the weight of the bucket increased, a pen moved up via a spring mechanism and recorded on a rotating chart. A snow fence was placed around the gauge to give more accurate precipitation measurements during windy conditions. Solar radiation was recorded on a bimetalic strip mechanical actinometer. Ninety percent of solar radiation from 360 to 2000 nm was transmitted through the instrument's glass dome. Wind speed (peak gust) was measured with a 3-cup, AC-generating anemometer that continuously recorded onto an Esterline Angus strip chart recorder. Wind direction was recorded as a pen position on a continuously recording strip chart. The thermohygrograph, rain gauge, and actinometer all used wind-up or battery-driven clock drives that rotated the recording chart on a right cylindrical drum with a fixed period between 24 h and 861 h depending on the gears used. These clock mechanisms were virtually identical and therefore completely interchangeable among the instrum
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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.