Find research datasets worth reusing

opencc-by-4.0Oct 2023View details →

Systematic literature review of acoustic individual identification (AIID)

Citations and characteristics of manuscripts considered relevant to acoustic individual identification (AIID). To be included in the review, at minimum a paper was required to: 1) Use recorded vocalizations, regardless of the method, and 2) attempt to differentiate individuals by vocal signature as an objective or as a step towards more advanced application of acoustic IID. Detailed methods are available in the "AIIDLiteratureReviewMethods.docx".

opencc-zeroFeb 2024View details →

Data from: A randomized controlled safety and feasibility trial of floatation-REST in anxious and depressed individuals

<div> <div> <div> <div> Background: Reduced Environmental Stimulation Therapy via floatation (floatation- REST) is a behavioral intervention designed to attenuate exteroceptive sensory input to the nervous system. Prior studies in anxious and depressed individuals demonstrated that single sessions of floatation-REST are safe, well-tolerated, and associated with an acute anxiolytic and antidepressant effect that persists for over 48 hours. However, the feasibility of using floatation-REST as a repeated intervention in anxious and depressed populations has not been well-investigated. Methods: In this single-blind safety and feasibility trial, 75 individuals with anxiety and depression were randomized to complete six sessions of floatation-REST in different formats: pool-REST (weekly 1-hour float sessions), pool-REST preferred (float sessions with flexibility of duration and frequency), or an active comparator (chair- REST; weekly 1-hour sessions in a Zero Gravity chair). Feasibility (primary outcome) was assessed via an 80% rate of adherence to the assigned intervention; tolerability via study dropout and duration/frequency of REST utilization; and safety via incidence of adverse events and ratings about the effects of REST. Results: Of 1,715 individuals initially screened, 75 participants were ultimately randomized. Six-session adherence was 85% for pool-REST (mean, M=5.1 sessions; standard deviation, SD=1.8), 89% for pool-REST preferred (M=5.3 sessions; SD=1.6), and 74% for chair-REST (M=4.4 sessions; SD=2.5). Dropout rates at the end of the intervention did not differ significantly between the treatment conditions. Mean session durations were 53.0 minutes (SD=12.3) for pool-REST, 75.4 minutes (SD=29.4) for pool-REST preferred, and 58.4 minutes (SD=4.3) for chair-REST. There were no serious adverse events associated with any intervention. Positive experiences were endorsed more commonly than negative ones and were also rated at higher levels of intensity. Conclusions: Six sessions of floatation-REST appear feasible, well-tolerated, and safe in anxious and depressed individuals. Floatation-REST induces positively-valenced experiences with few negative effects. Larger randomized controlled trials evaluating markers of clinical efficacy are warranted. Clinical Trial Registration Identifier: NCT03899090 </div> </div> </div> </div>

opencc-by-3.0-usAug 2023View details →

Human Placental Lactogen (Human Chorionic Somataomammotropin) and Oxytocin during Pregnancy: Individual Patterns and Association with Maternal-Fetal Attachment, Anxiety, and Depression

Dataset from Human Placental Lactogen (Human Chorionic Somataomammotropin) and Oxytocin during Pregnancy:  Individual Patterns and Association with Maternal-Fetal Attachment, Anxiety, and Depression

opencc-by-4.0Mar 2024View details →

16S And WGS Feature Tables: Tryptophan Metabolites And Their Predicted Microbial Sources In Fecal Samples Of Healthy Individuals

The zip file contains 16S and WGS feature tables used in the following publication: Tryptophan Metabolites And Their Predicted Microbial Sources In Fecal Samples Of Healthy Individuals Cynthia L. Chappell, Kristi L. Hoffman, Philip L. Lorenzi, Lin Tan, Joseph F. Petrosino, Richard A. Gibbs, Donna M. Muzny, Harsha Doddapaneni, Matthew C. Ross, Vipin K. Menon, Anil Surathu, Sara J. Javornik Cregeen, Anaid G. Reyes, Pablo C. Okhuysen bioRxiv 2023.12.20.572622; doi: https://doi.org/10.1101/2023.12.20.572622

opencc-zeroMar 2024View details →

Data from: Drivers of intra-individual spatial variability in methane emissions from tree trunks in upland forest

CH4 emissions from tree trunks in upland forests should be scaled accurately in order to assess the role of tree trunks in the forest CH4 budget. As the chambers used to measure emissions cover only a small part of the tree trunks, it is necessary to understand the intra-individual spatial variability in trunk CH4 emissions. We measured trunk CH4 flux at nine locations per individual on four trees in a cool-temperate upland forest. To appreciate the origin of this variability and the underlying processes, we also measured the potential rate of CH4 production and CH4 concentration at sapwood and characterized wood and bark. Up to 15-fold spatial variation in CH4 fluxes were observed at the individual level. This variability can be highlighted by the variation in the sapwood CH4 concentration which was further explained by the variation in CH4 production rate. The radial CH4 diffusivity calculated from concentration gradients and emissions was not related to the measured characteristics of either wood or bark, raising the question of the diffusion pathway. We emphasized the importance of sampling trunk CH4 flux at multiple locations on the surface of a tree trunk to capture spatial variability, a prerequisite for estimating tree-level CH4 emissions.

opencc-by-4.0Mar 2024View details →

Table (A): Phase 3 Prior Testing Summary Table for Individual Source in Location Nine: Robert's Building Cafe

Summary table detailing the peak frequency before and after using the source with the corresponding non-ionising radiation levels. The final column details if there has been a significant or minimal change in the readings. For this testing, a variety of sources were used.

opencc-zeroMar 2024View details →

Long-term individual-based records of mountain goat mortality and terrain use in relation to avalanches in coastal Alaska during 2005-2022

Snow is a major, climate-sensitive feature of the Earth's surface and a catalyst of fundamentally important ecosystem processes. Understanding how snow influences sentinel species in rapidly changing mountain ecosystems is particularly critical. Whereas the effects of snow on food availability, energy expenditure, and predation are well documented, we report how avalanches exert major impacts on an ecologically significant mountain ungulate - the coastal Alaskan mountain goat (Oreamnos americanus). Using long-term GPS data and field observations across four populations (421 individuals over 17 years), we show that avalanches caused 23-65% of all mortality, depending on area. Deaths varied seasonally and were directly linked to spatial movement patterns and avalanche terrain use. Population-level avalanche mortality, 61% of which comprised reproductively important prime-aged individuals, averaged 8% annually and exceeded 22% when avalanche conditions were severe. Our findings reveal a widespread but previously undescribed pathway by which snow can elicit major population-level impacts and shape demographic characteristics of slow-growing populations of mountain-adapted animals.

opencc-zeroMar 2024View details →

Data from: Exploring the macroevolutionary impact of ecosystem engineers using an individual-based eco-evolutionary simulation

Ecosystem engineers can radically reshape ecosystems by modulating the availability of resources to other organisms through modifying either physical or biological aspects of the environment. The introduction or removal of ecosystem engineers from otherwise stable ecosystems can impact the diversity of co-occurring species, such as driving local extinctions of native taxa. While these impacts are well established over ecological timescales for a wealth of taxa, the macroevolutionary implications of the onset of ecosystem engineering behaviours are less clear. Despite this uncertainty, ecosystem engineering has been implicated in several major transitions in Earth's history including the appearance of extensive bioturbation during the Cambrian substrate revolution and associated Ediacaran-Cambrian turnover and the Great Oxygenation Event. Whether ecosystem engineers are frequently associated with turnover and extinction in deep time is not known. Here we investigate this with an eco-evolutionary simulation framework in which we assign lineages the ability to impact the fitness of co-occurring taxa through phenotype-environment feedback. We explore numerous conditions, including how frequently these feedbacks occur, and whether ecosystem engineers modify or create niches. We show that there is no general expected outcome from the introduction of ecosystem engineers. In a minority of runs, ecosystem engineering lineages completely dominate, rendering all others extinct, but in others, they persist (but do not dominate), or die out. We suggest that ecosystem engineers have complex impacts but possess the capacity to profoundly shape diversity, and it is appropriate to consider them alongside other exogenous extinction drivers in deep time.

opencc-zeroApr 2024View details →

Climate biogeography of Arabidopsis thaliana: Linking distribution models and individual variation

Patterns of individual variation are key to testing hypotheses about the mechanisms underlying biogeographic patterns. If species distributions are determined by environmental constraints, then populations near range margins may have reduced performance and be adapted to harsher environments. Model organisms are potentially important systems for biogeographical studies, given the available range‐wide natural history collections, and the importance of providing biogeographical context to their genetic and phenotypic diversity. We fit occurrence records to climate data and then projected the distribution of Arabidopsis under the last glacial maximum, current, and future climates. We confronted model predictions with individual performance measured on 2194 herbarium specimens, and we asked whether predicted suitability was associated with life history and genomic variation measured on ~900 natural accessions. The most important climate variables constraining the Arabidopsis distribution were winter cold in northern and high-elevation regions and summer heat in southern regions. Herbarium specimens from regions with lower habitat suitability in both northern and southern regions were smaller, supporting the hypothesis that the distribution of Arabidopsis is constrained by climate‐associated factors. Climate anomalies partly explained interannual variation in herbarium specimen size, but these did not closely correspond to local limiting factors identified in the distribution model. Late‐flowering genotypes were absent from the lowest suitability regions, suggesting slower life histories are only viable closer to the centre of the realized niche. We identified glacial refugia farther north than previously recognized, as well as refugia concordant with previous population genetic findings. Lower latitude populations, known to be genetically distinct, are most threatened by future climate change. The recently colonized range of Arabidopsis was well‐predicted by our native‐range model applied to certain regions but not others, suggesting it has colonized novel climates. Integration of distribution models with performance data from vast natural history collections is a route forward for testing biogeographical hypotheses about species distributions and their relationship with evolutionary fitness across large scales.

opencc-by-4.0Apr 2024View details →

Supplementary materials for the manuscript entitled: "Impacts of creatine on the health of elderly individuals: a bibliometric study"

These images/figures complement what was presented in the results of the manuscript "Impacts of creatine on the health of elderly individuals: a bibliometric study.

opencc-by-4.0Apr 2024View details →

Individual project on theme "Cervus L." (MOOC: CompTech in biology)

Данный кейс является результатом реализации индивидуального проекта Попова Игоря  по теме "Cervus L." в рамках онлайн курса "Компьютерные технологии в биологии" (автор – А.В. Ваганов) (https://stepik.org/course/60859/promo)

opencc-by-4.0Apr 2024View details →

Individual vs. Shared Responsibility

This is the artifact for the manuscript "Programmers Prefer Individually Assigned Tasks vs. Shared Responsibility" written by Adela Krylova, Roman Makarov, Sergey Pasynkov, Yegor Bugaenko. The file in the main directory <a href="https://github.com/rmakarovv/Responsibility_Study/blob/main/responsibility.csv">responsibility.csv</a> contains anonymized collected data in a csv format.

Number of individuals of each species monthly (from October, 2022 to October, 2023) collected at a shrubby Caatinga area, municipality of São José do Piauí, Piauí state, Brazil.

Dataset included in the manuscript "The orchid bee fauna (Hymenoptera, Apidae, Euglossina) from the Capadócia Nordestina, Piauí State, Brazil", submitted to Biota Neotropica.

Data from the journal article "Individual versus combined effects of warming, elevated CO2 and drought on grassland water uptake and fine root traits"

This data file contains all data used in the aforementioned article (DOI: 10.1111/pce.15274). The data was obtained in a long-term multifactor global-change experiment (‘ClimGrass’) in a managed (three cuts, fertilized) C3 grassland near the central European Alps in Styria, Austria (47°29′44.6″N, 14°5′54.6″E). Grassland plots were exposed to six treatments: (i) ambient conditions (control; n = 8); (ii) drought (n = 4); (iii) warming (n = 3); (iv) elevated CO2 (n = 3), (v) future conditions (warming and elevated CO2; n = 3); and (vi) drought in future conditions (warming, elevated CO2 and drought; n = 4). The experiment was conducted during the growing seasons of 2017, 2019, and 2020. The aim was to determine how warming, elevated CO2 and drought individually and interactively affected root water uptake (RWU, calculated from soil water dynamics) as well as the corresponding mass and key traits (specific root length (SRL); specific root area (SRA); mean diameter) of newly produced fine roots (extracted using ingrowth cores) and biomass allocation (fine-root-to-shoot production ratios; R/S ratios). Treatment effects on RWU were studied across varying conditions of soil water content (SWC) and vapour pressure deficit (VPD), referred to as dryness conditions. Fine root characteristics were compared to the maximum hourly in-situ RWU observed.  The following data is contained in this file (processed as described in the journal article and, importantly, in the supplementary information): - data_SWC: SWC and precipitation, used to calculate RWU (resolution: hourly; figures: 1) - data_RWU_daily: RWU for the main rooting horizon, fractions of total RWU across depth (resolution: daily; figures: 1, 2, 3) - data_RWU_hourly: RWU for the main rooting horizon, SWC, VPD (resolution: hourly; figures: 1, 4, 5) - data_FineRoots: Mass, traits (SRL, SRA, diameter) and maximum hourly RWU of newly produced fine roots across depth, R/S ratios (resolution: three samplings per growing season; figures: 6, 7) The metadata.xlsx file summarizes the contents of these datasets, including units and descriptions of the variables. Note below: the name of the project funded by the Austrian Academy of Sciences is ClimGrassHydro.

Dataset for Interactive Profiling Narrative (IPN) with Toxicity Tolerance Score of each individual user to different categories of toxicity

he dataset is the collection of the results of the Interactive Profiling Narrative that was developed as a part of the project Listener Aware Content Detoxification. It contains the toxicity tolerance scores of each individual user to different categories. High scores indicate that the user is extremely sensitive to the particular category where as low scores indicate that the user isn't that triggered by the category.Medium scores show moderate tolerance. Columns: 1.UserId: The unique id given to each user (helps preserve anonymity). 2.Race: The user's toxicity tolerance to the category race. High score means racist comment trigger them.  3.Sex: The user's toxicity tolerance to the category sexuality. High scores indicate sensitivity to comments on sexual identity. 4.Body_image: The user's sensitivity to comments regarding body image. High scores indicate that remarks on body appearance strongly affect the user. 5.Disability:The user's sensitivity to comments about disabilities. A high score means the user is highly sensitive to potentially ableist remarks. 6.Religion_culture: The user's sensitivity to content involving religion or culture. High scores show the user is easily triggered by insensitive comments about religious or cultural aspects. 7.Physical_abuse: User's sensitivity to comments regarding physical abuse. High scores indicate the user is strongly affected by remarks on physical abuse. 8.Mental_health: This measures the user's sensitivity to comments on mental health. High scores suggest that the user is particularly affected by comments stigmatizing mental health issues. 9.Politics:The user's sensitivity to political content. High scores indicate that political discussions or comments are likely to evoke a strong reaction in the user

opencc-by-nc-nd-4.0Nov 2024View details →

Individual tree dataset from airborne laser scanning data

<h1>General description</h1> Data about individual tree segments detected from the Finnish national 5 pt/m^2 airborne laser scanning data. The dataset contains 281304 individual trees from a test site of 3km x 3km located in Padasjoki, Finland. The ALS data has been collected in 2019. <h1>Data description</h1> The individual tree segment dataset has been published as a CSV file. The tree height, DBH, stem volume and above-ground biomass have been predicted using Random Forest Machine Learning models. The rest of the features have been calculated directly from the ALS point cloud. The CSV file contains the following columns: <ul> <li>LX and LY: tree location (location of max height in the canopy height model) in the ETRS-TM35FIN coordinate reference system (EPSG:3067)</li> <li>Hmax: tree height (based on highest returns)</li> <li>Gele: ground elevation at tree location (interpolated from ground points)</li> <li>lowBranch: height of lowest branch (limited accuracy)</li> <li>crownV: crown volume as 3D convex hull</li> <li>species: predicted species: 1 = pine, 2 = spruce, 3 = deciduous tree</li> <li>H: predicted tree height</li> <li>DBH: predicted diameter at breast height</li> <li>Volume: predicted stem volume</li> <li>Biomass: predicted above-ground biomass (dry mass)</li> </ul> <h1>Citation</h1> Any scientific publication using the data should cite the following paper: Hyyppä, M., Turppa, T., Hyyti, H., Yu, X., Handolin, H., Kukko, A., Hyyppä, J., & Virtanen, J. -P. (2024). Concepts Towards Nation-Wide Individual Tree Data and Virtual Forests. ISPRS International Journal of Geo-Information, 13(12), 424. https://doi.org/10.3390/ijgi13120424

Psarocolius decumanus roost site individual counts.

Datos de conteos en un dormidero de Psarocolius decumanus, en el que se evidenció Molothrus oryzivorus.  Count data at a roosting site of Psarocolius decumanus, where Molothrus oryzivorus was also observed.

opencc-by-4.0Dec 2024View details →

Live-Cell Imaging of MCF10A Cells Treated individually or in combination with EGF, OSM, or TGFB

MCF10A cell culture and experimental procedures were conducted based on established methodologies (10.1038/s42003-022-03975-9). For routine maintenance and passaging, cells were cultured in a growth medium composed of DMEM/F12 (Invitrogen, #11330-032) supplemented with 5% horse serum (Sigma, #H1138), 20 ng/ml EGF (R&D Systems, #236-EG), 0.5 µg/ml hydrocortisone (Sigma, #H-4001), 100 ng/ml cholera toxin (Sigma, #C8052), 10 µg/ml insulin (Sigma, #I9278), and 1% Penicillin/Streptomycin (Invitrogen, #15070-063). For experiments involving EGF perturbation, a growth factor-free medium was prepared using DMEM/F12, 5% horse serum, 0.5 µg/ml hydrocortisone, 100 ng/ml cholera toxin, and 1% Pen/Strep. Cells were cultured to 50–80% confluency before being detached with 0.05% trypsin-EDTA (Thermo Fisher Scientific, #25300-054). Subsequently, 20,000 cells were seeded into 24-well plates (Thermo Fisher Scientific, #267062) coated with collagen-1 (Cultrex, #3442-050-01) in growth medium.After an 18-hour incubation in the new media, cells were treated with single ligand or combinations of ligands in fresh growth factor-free media: 10 ng/ml EGF (R&D Systems #236-EG), 10 ng/ml OSM (R&D Systems #8475-OM), and 10 ng/ml TGFβ (R&D Systems #240-B). Phenotypic responses to individual and combination treatment with EGF, OSM, and TGFB treatment were assessed through live-cell imaging using the Incucyte S3 microscope (Essen BioScience, #4647), which captured images every 30 minutes over a 24-hour period. The dataset includes an Excel spreadsheet that documents the experimental conditions for each imaged well. Companion RNAseq can be accessed from the Gene Expression Omnibus: GSE282654.

opencc-by-4.0Jun 2024View details →

Mobile phone video of individual ancient oak trees stems from the SCATTER project

This repository contains video data recorded of tree stems as part of the <a href="https://doi.org/10.5281/zenodo.11658042">SCATTER project</a>. See <a href="https://zenodo.org/records/11658042">https://zenodo.org/records/11658042</a> for a list of trees and other available datasets.  Individual video files are in .mp4 format and were recorded with a Google Pixel 7 phone.  <h2>Funding, licence and usage</h2> This research was funded by the Woodland Trust Conservation Research Programme. By accessing or using this dataset, you agree to the terms of the relevant licence agreement(s). You will ensure that this dataset is cited in any publication that describes research in which the data have been used.