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13,618 results for “biology”
Insect Population Dynamics on the Main Cropping System Experiment at the Kellogg Biological Station, Hickory Corners, MI (1989 to 2019)
Dataset Abstract Plant dwelling insect occurrence in the LTER main site (all treatments) of the KBS-LTER has been recorded since 1989 and in the successional and forest sites since 1993. The effort has focused on characterizing the temporal and spatial abundance and diversity of a set of insects representative of a higher order insect trophic level, the herbivore predators. The insect database contains more than 400,000 records and consists of counts of adult insects of fourteen species of Coccinellidae, one species of Chrysopidae, and one species of Lampyridae from 30 sample sites in each of the seven treatments in the LTER Main Site. The standard method used to measure these organisms is a yellow sticky trap. Sampling is conducted weekly during the growing season as described in the sampling protocol. original data source http://lter.kbs.msu.edu/datasets/26
Plant Carbon and Nitrogen Content at the Kellogg Biological Station, Hickory Corners, MI (1989 to 2018)
Dataset Abstract This dataset includes total carbon and total nitrogen measured for plants from the LTER Main Site and the Successional and Forested sites. Total C and N are analyzed at peak biomass for a given treatment. In some systems with multiple harvests or complex communities that have peaks occurring at different times of the year, measurements are taken at multiple times per year. Samples are combusted and measured on a CHN analyzer. original data source http://lter.kbs.msu.edu/datasets/32
Resource Gradient Experiment at the Kellogg Biological Station, Hickory Corners, MI (1999 to 2019)
Dataset Abstract This study provides a gradient of 9 different rates of nitrogen fertilization under rainfed and irrigated conditions. Irrigation began in 2003. Corn was grown from 2000-2005 and subsequently the crop rotation (wheat, corn, soybean) followed the crop of the LTER main site. Nitrogen applications differ by crop after 2007. The experiment was moved to its current location on the LTER main site in 2005. The experiment location/history are explained here. Plots are 5×30 m arranged in each of 4 replicate blocks . Crop yields, nitrous oxide and soil temperature, moisture and nitrogen data are available for this study. original data source http://lter.kbs.msu.edu/datasets/36
Main Cropping System Experiment Field Logs and treatment descriptions at the Kellogg Biological Station, Hickory Corners, MI (1988 to 2020)
Dataset Abstract This dataset includes information about the LTER main site treatments, agronomic practices carried out on the treatments and approved site use requests. Most long-term hypotheses associated with the KBS LTER site are being tested within the context of the main cropping systems study. This study was established on a 48 ha area on which a series of 7 different cropping systems were established in spring 1988, each replicated in one of 6 ha blocks. An eighth never-tilled successional treatment, is located 200 m off-site, replicated as four 0.06 ha plots. Cropping systems include the following treatments: T1. Conventional: standard chemical input corn/soybean/wheat rotation conventionally tilled (corn/soybean prior to 1992) T2. No-till: standard chemical input corn/soybean/wheat rotation no-tilled (corn/soybean prior to 1992) T3. Reduced input: low chemical input corn/soybean/wheat rotation conventionally tilled (ridge till prior to 1994) T4. Biologically based: zero chemical input corn/soybean wheat rotation conventionally tilled (ridge till prior to 1994) T5. Poplar: Populus clones on short-rotation (6-7 year) harvest cycle T6. Alfalfa: continuous alfalfa, replanted every 6-7 years (converted to switchgrass in 2018) T7. Early successional community: historically tilled soil T8. Mown grassland community: never-tilled soil. For specific crops in a given year see the Annual Crops Summary Table. In 1993 a series of forest sites were added to the main cropping system study to provide long-term reference points and to allow hypotheses related to substrate diversity to be tested. These include: TCF. Coniferous forest: three conifer plantations, 40-60 years old TDF. Decidious forest: three deciduous forest stands, two old-growth and one 40-60 years post-cutting TSF. Mid-successional forest: three old-field (mid-successional) sites 40+ years post-abandonment. All share a soil series with the main cropping system treatments, and are within 5 km of all other sit
Aerial Photographs of the KBS LTER and Environs at the Kellogg Biological Station, Hickory Corners, MI (1938 to 2020)
Dataset Abstract Aerial photography is considered an important management tool in agriculture. Aerial photography allows researchers to detect spatial variability and understand the causes of the variability such as planter skips, drought stress, weeds and water erosion. In agricultural research it allows researchers to differentiate healthy vegetation from unhealthy and access plant biomass and moisture levels. The photographs are also useful to document trends and changes in the landscape. original data source http://lter.kbs.msu.edu/datasets/44
Forest Increment Survey at the Kellogg Biological Station, Hickory Corners, MI (1991 to 2019)
Dataset Abstract In 1998, a new protocol was instituted for measuring the diameters of every tree greater than 5 cm dbh in the coniferous and deciduous forest plots. Trees are usually measured in January. Exponential equations are used to estimate tree mass for each year. The goal is to estimate wood production for any given time period (usually one year) as the difference between two estimates of mass. original data source http://lter.kbs.msu.edu/datasets/48
Tracegas fluxes in forests and old fields under enhanced nitrogen regimes at the Kellogg Biological Station, Hickory Corners, MI (2001 to 2020)
Dataset Abstract 10 m2 plots in the old field and forest ecosystems were fertilized with 2 rates of nitrogen. N2O, CO2 and CH4 measurements were made with a static chamber method original data source http://lter.kbs.msu.edu/datasets/53
KBS GLBRC Agronomic Yields at the Kellogg Biological Station, Hickory Corners, MI (2008 to 2021)
Dataset Abstract Agronomic yield record for Switchgrass Fertility Gradient at the KBS Great Lakes Biofuels Research Center (GLBRC) Intensive site and the GLBRC scale-up fields. This is a reduced dataset including the 0, 56 and 196 kg/ha N levels. Suggested Acknowledgement wording: "Support for this research was provided by the Great Lakes Bioenergy Research Center, U.S. Department of Energy, Office of Science, Office of Biological and Environmental Research (Award DE-SC0018409), by the National Science Foundation Long-term Ecological Research Program (DEB 2224712) at the Kellogg Biological Station, and by Michigan State University AgBioResearch" original data source http://lter.kbs.msu.edu/datasets/65
Soil Lake Inundation Moat Experiment (SLIME): Physical, chemical, and biological measurements from planktonic water columns, McMurdo Dry Valleys, Antarctica (2018-2020)
The Soil Lake Inundation Moat Experiment (SLIME) was developed by the McMurdo Dry Valleys Long Term Ecological Research (MCM LTER) project to investigate the ecological function of lake moats in Antarctica. These moats form during the austral summer when the margins of permanently ice-covered, closed-basin lakes melt, creating open-water zones, or ‘moats,’ between the shoreline and the thick (3-5 m) perennial ice cover. To study these habitats, sampling transects were established on the north and south shores of Lake Fryxell and the East Lobe of Lake Bonney. This data package includes three seasons of physical, chemical, and biological measurements from the planktonic water columns of these lakes, collected from SLIME transects between January 2018 and January 2020. Parameters include water temperature, conductivity, ion and nutrient concentrations, chlorophyll-a concentrations, as well as fluorescence and photochemical efficiencies for major algal classes. NCBI accession numbers are also provided for the microbial sequence data associated with each sample.
Spectral and biological characteristics of microbial mats and mosses across Fryxell Basin, Taylor Valley, Antarctica (2018-2019)
An intensive field campaign was conducted during the 2018-2019 austral summer to assess spectral and biological characteristics of multiple microbial mat types, as well as mosses, across nine ephemeral glacial meltwater streams in the Fryxell Basin of Taylor Valley, located in the McMurdo Dry Valleys region of Antarctica. In addition to biological sample collection, hyperspectral visible/near-infrared (VNIR) measurements were conducted using an ASD FieldSpec4 spectrometer, corrected and averaged across each mat, moss, and soil type, and downsampled to the multispectral resolution of the WorldView-2 satellite. This package contains a detailed sample archive, associated images, biological characteristics that include ash free dry mass (AFDM), chlorophyll-a, and pigment concentrations, as well as hyperspectral and multispectral reflectance spectra.
MCR LTER: Coral Reef: Porites growth, respiration, and photophysiology data in support of Edmunds 2012 Marine Biology, v159, 2149-2160
These data were generated from a one-time experiment in support of a coral ecophysiology manuscript; published in Marine Biology. Edmunds (2012) Marine Biology 159: 2149-2160 doi:10.1007/s00227-012-2001-y The hypothesis that was tested stated that high pCO2 (76.6 Pa and 87.2 Pa vs. 42.9 Pa) has no effect on the metabolism of juvenile massive Porites spp. after 11 days at 28 °C and 545 lmol quanta m-2 s-1. The response was assessed as aerobic dark respiration, skeletal weight (i.e., calcification), biomass, and chlorophyll fluorescence. Corals were collected from the shallow (3–4 m) back reef of Moorea, French Polynesia (17°28.6140 S, 149°48.9170 W), and experiments conducted during April and May 2011. An increase in pCO2 to 76.6 Pa had no effect on any dependent variable, but 87.2 Pa pCO2 reduced area-normalized (but not biomass-normalized) respiration 36 %, as well as maximum photochemical efficiency (Fv/Fm) of open RCIIs and effective photochemical efficiency of RCIIs in actinic light (DF/Fm0 ); neither biomass, calcification, nor the energy expenditure coincident with calcification (J g-1) was effected. These results do not support the hypothesis that high pCO2 reduces coral calcification through increased metabolic costs and, instead, suggest that high pCO2 causes metabolic depression and photochemical impairment similar to that associated with bleaching. Evidence of a pCO2 threshold between 76.6 and 87.2 Pa for inhibitory effects on respiration and photochemistry deserves further attention as it might signal the presence of unpredictable effects of rising pCO2. This material is based upon work supported by the U.S. National Science Foundation under Grant No. OCE 16-37396 (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 2
MCR LTER: Coral Reef: Coral size, temperature, and pCO2 data in support of Edmunds 2016 J Exp Biology
These coral size, temperature and pCO2 data support the publication Edmunds and Burgess, Size-dependent physiological responses of the branching coral Pocillopora verrucosa to elevated teperature and pCO2, J Exp Biology, 2016. Additional tank conditions data are provided. This study focuses on the response of a branching coral to high temperature and PCO2, and explores the implications for this response of metabolic scalingin a colonial modular design. For the manuscript published in the Journal of Experimental Biology (219, 3896-3906 doi:10.1242/jeb.146381), an incorrect Supplementary Information Table S1 was submitted for publication. A revised table has now been published and contains changes associated with correctly assigning conditions to treatment tanks and values averaged over the number of days that accurately reflects the duration of each trial. This correction does not affect the conclusions of the experimental work. The change only affects the data describing tank conditions in Trial 1 and 2.
MCR LTER: Coral Reefs: Coral bleaching and mortality in July 2019; data for Speare et al. 2021 Global Change Biology
These data are from field surveys conducted at seven sites at 10m depth on the outer reef of Mo’orea following a marine heatwave and coral bleaching event in the Austral Summer of 2019. These data describe the size, percent of the colony that was bleached, and the percent of the colony that recently dead for corals in the genera Acropora and Pocillopora. At six sites (LTER 1-6) coral colony size was quantified using ordinal size bins and observers collected data on all coral colonies > 5cm diameter. At one site on the north shore of Mo’orea (LTER Experimental Site) coral colony size was measured to the nearest centimeter. At this site researchers did two separate sets of surveys, one to collect data on all corals > 5cm diameter, and one to collect data on all individuals ≤ 5cm diameter. Additionally, data on survivorship of newly-settled coral recruits on coral settlement tiles are included. Tiles were deployed at 10m depth at one site on the outer reef of Moorea. Survivorship of coral recruits between March and July was assessed in 2017 and 2019. These data are in support of a publication Speare et al. (2021) Global Change Biology. The manuscript title and author list are as follows: Size-dependent mortality of corals during marine heatwave erodes recovery capacity of a coral reef. Kelly E. Speare, Thomas C. Adam, Erin M. Winslow, Hunter S. Lenihan, Deron E. Burkepile This material is based upon work supported by the U.S. National Science Foundation under Grant No. OCE 16-37396 (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 2005-2021). This work represents a contribution of the Moorea Coral Reef (MCR) LTER Site.
Data for "What have biological records ever done for us? A systematic scoping review"
<p>These files contain data used in "What have biological records ever done for us? A systematic scoping review" (Gaul et al. 2020). </p>
Raw data acquired necessary to produce the plots introduced in the scientific paper: "Upper-limb kinematic reconstruction during stroke robot-aided therapy" (Medical & Biological Engineering & Computing)
<p>These files contain the raw data acquired necessary to produce the plots introduced the Figure 6 of the scientific paper: “Upper-limb kinematic reconstruction during stroke robot-aided therapy” (Medical & Biological Engineering & Computing).</p> <p>Fig. 6 shows the data recorded from two patients performing five forward/backward movements at InMotion2 robot before and after rehabilitation treatment. Mean values of the five execution have been reported in Fig. 6.</p>
Data set for article Veto, P., Einhäuser, W., & Troje, N.F. (2017). Biological motion distorts size perception. Scientific Reports, 7, 42576.
<p>In this data set you find 3 files containing data from Experiments 1, 2 & 3 of Veto P, Einhauser W & Troje NF (2017) Biological motion distorts size perception. Scientific Reports, 7, 42576; doi: 10.1038/srep42576</p> <p><br> The data are freely available for academic use only. If you use these data for a publication, please cite the aforementioned article.<br> If you have any questions regarding the data, please do not hesitate to contact Peter Veto at vettop@gmail.com</p> <p>Each row of the files contain data from one trial.<br> Columns:</p> <p>Experiment 1<br> 1 - Participant number<br> 2 - Block number<br> 3 - Trial number<br> 4 - Target orientation (1: Upright; -1: Inverted)<br> 5 - Stimulus width<br> 6 - Stimulus height<br> 7 - Response width<br> 8 - Response height</p> <p>Experiment 2<br> 1-8 Same as Experiment 1<br> 9 - Condition: dynamic (1) or static (2) target</p> <p>Experiment 3<br> 1 - Participant number<br> 2 - Block number<br> 3 - Trial number<br> 4 - Walker orientation<br> (1: upper walker upright, lower walker inverted;<br> 2: upper walker inverted, lower walker upright)<br> 5 - Condition<br> (1: upper target larger (21%) than lower target;<br> 2: upper target larger (10.5%) than lower target;<br> 3: target sizes are identical;<br> 4: lower target larger (10.5%) than upper target;<br> 5: lower target larger (21%) than upper target)<br> 6 - Inter stimulus interval (from end of walker presentation to onset of target circles)<br> (1: 17ms; 2: 100ms)<br> 7 - Response<br> (1: upper target was larger;<br> 2: lower target was larger)</p>
Accompanying dataset; 'Agroforestry enhances biological activity, diversity and soil-based ecosystem functions in mountain agroecosystems of Latin America: A meta-analysis.'
<p>The database created as part of the meta-analysis is designed to facilitate the comparison of biological activity, diversity (BIAD), and ecosystem functions (EFs) between agroforestry systems (AFS) and other land-use types. It incorporates data extracted from selected studies, each record comprising a mean value, sample size, and a variance measure to compute standard deviation. The database also categorizes data according to 22 explanatory variables, including geographical coordinates, climate classification, soil type, AFS classification, and more, to characterize the sites and management systems involved. This detailed classification enables a nuanced analysis of how different factors might influence the BIAD and EFs in the context of AFS. The database supports the meta-analysis by allowing for the estimation of effect sizes using response ratios, which compare the relative difference in BIAD and EFs between AFS and other land uses. Data extraction from primary studies was meticulous, employing both direct and indirect methods such as graph digitizing software, and missing data were supplemented using reliable sources or direct communication with the original study authors. The comprehensive nature of this database ensures that the analysis can account for a wide range of variables that may affect the outcomes of interest in the meta-analysis. </p><p>For an in-depth exploration of the study's findings and methodology, refer to the comprehensive meta-analysis available in Global Change Biology (2024), entitled "<i>Agroforestry Enhances Biological Activity, Diversity, and Soil-Based Ecosystem Functions in Mountain Agroecosystems of Latin America: A Meta-Analysis</i>."</p>
Library size confounds biology in spatial transcriptomics data
<p>This dataset contains annotated sub-cellular localised spatial measurements from the Visium, Xenium and CosMx platforms. Specifically, it includes datasets analysed in the publication Bhuva et. al, 2023 titled "Library size confounds biology in spatial transcriptomics data". Raw transcript detections are presented. Data is best accessed through the accompanying <em>SubcellularSpatialData</em> R/Bioconductor package. Region files used to annotate individual transcript detections are presented in the form of <a href="https://geojson.org/">GeoJSON</a> files. </p>
Samples used for MeStanG Technical Note Publication in Biology MDPI
<p>Samples for MeStanG analysis as a resource for High throughput sequencing standard datasets generation for bioinformatic methods evaluation and validation.</p> <ul> <li>Sample_101 - Metagenomic Bacterial-only Sample simulated using MeStanG</li> <li>Samples_2.tar - 15 Samples resembling Host/Pathogen wheat plant sequencing outputs simulated using MeStanG</li> <li>Sample_301 - Metagenomic Bacterial-only Sample simulated using NanoSim</li> <li>Samples_4.tar - 15 Samples resembling Host/Pathogen wheat plant sequencing outputs simulated using NanoSim</li> <li>Sample_501.tar - 20 replicates for Pathogen absolute abundance 500</li> <li>Sample_502.tar - 20 replicates for Pathogen absolute abundance 100</li> <li>Sample_503.tar - 20 replicates for Pathogen absolute abundance 50</li> <li>Sample_504.tar - 20 replicates for Pathogen absolute abundance 10</li> <li>Sample_505.tar - 20 replicates for Pathogen absolute abundance 5</li> </ul> <p>All files are compressed in gzip format and all sequences in fasta format</p>
BALTRAD_VPTS - Vertical profiles of biological targets derived from European weather radars
<p><em>BALTRAD_VPTS - Vertical profiles of biological targets derived from European weather radars</em> is a vertical profile time series dataset published by the <a href="https://www.inbo.be/en">Research Institute for Nature and Forest (INBO)</a>. It contains animal movement data derived from 151 European weather radars in 18 countries, with varying coverage from 2012 to 2023. These data were created by processing weather radar data - provided by the Operational Programme for the Exchange of Weather Radar Information (<a href="https://www.eumetnet.eu/activities/observations-programme/current-activities/opera/">OPERA</a>) - with methods optimized for extracting bird targets. The resulting data are vertical profile time series (VPTS), containing the density, speed and direction of biological targets within a weather radar (<code>radar</code>) volume, grouped into altitude bins (<code>height</code>) and measured over time (<code>datetime</code>). The data are also available in the <a href="https://aloftdata.eu/browse/?prefix=baltrad/">Aloft bucket</a>.</p> <div> <div>See Desmet et al. (2025, <a href="https://doi.org/10.1038/s41597-025-04641-5">https://doi.org/10.1038/s41597-025-04641-5</a>) for a more detailed description of this dataset.</div> </div> <h2>Files</h2> <p>VPTS data in this deposit are organized per country (.tgz file), radar (directory), year (directory) and month (.csv.gz file). Fields in the data follow the <a href="https://aloftdata.eu/vpts-csv/">VPTS CSV</a> format and are described in <code>vpts-csv-table-schema.json</code>. An overview of what data are available is provided in <code>coverage.csv</code>. Radar metadata can be found at <a href="https://aloftdata.eu/radars/">https://aloftdata.eu/radars/</a>.</p> <ul> <li><strong>coverage.csv</strong>: coverage of the VPTS data, representing the number of unique hours, heights, source files and records for each radar and date combination.</li> <li><strong>vpts-csv-table-schema.json</strong>: technical description of the fields in the VPTS data.</li> <li><strong>be.tgz</strong>: VPTS data from 2 radars in Belgium.</li> <li><strong>ch.tgz</strong>: VPTS data from 5 radars in Switzerland.</li> <li><strong>cz.tgz</strong>: VPTS data from 2 radars in Czechia.</li> <li><strong>de.tgz</strong>: VPTS data from 20 radars in Germany.</li> <li><strong>dk.tgz</strong>: VPTS data from 5 radars in Denmark.</li> <li><strong>ee.tgz</strong>: VPTS data from 2 radars in Estonia.</li> <li><strong>es.tgz</strong>: VPTS data from 15 radars in Spain.</li> <li><strong>fi.tgz</strong>: VPTS data from 13 radars in Finland.</li> <li><strong>fr.tgz</strong>: VPTS data from 26 radars in France.</li> <li><strong>hr.tgz</strong>: VPTS data from 7 radars in Croatia.</li> <li><strong>il.tgz</strong>: VPTS data from 1 radar in Israel.</li> <li><strong>nl.tgz</strong>: VPTS data from 3 radars in the Netherlands.</li> <li><strong>no.tgz</strong>: VPTS data from 11 radars in Norway.</li> <li><strong>pl.tgz</strong>: VPTS data from 8 radars in Poland.</li> <li><strong>pt.tgz</strong>: VPTS data from 3 radars in Portugal.</li> <li><strong>se.tgz</strong>: VPTS data from 22 radars in Sweden.</li> <li><strong>si.tgz</strong>: VPTS data from 2 radars in Slovenia.</li> <li><strong>sk.tgz</strong>: VPTS data from 4 radars in Slovakia.</li> </ul> <h2>Acknowledgements</h2> <p>This dataset was processed using infrastructure provided by the University of Amsterdam, SURF Cooperative, Ghent University and the Research Institute for Nature and Forest (INBO). It was mainly supported by the <a href="https://globam.science/">GloBAM project</a>, funded through the 2017-18 Belmont Forum and BiodivERsA joint call for research proposals under the BiodivScen ERA-Net COFUND programme.</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.