Find research datasets worth reusing

opencc-by-4.0Nov 2023View details →

Data and scripts for: Idiosyncratic responses to biotic and environmental filters in wood-inhabiting fungal communities

These files include the data, the scripts, and the pipeline for bioinformatic analyses for reproducing the results presented in the manuscript "Idiosyncratic responses to biotic and environmental filters in wood-inhabiting fungal communities". Description of the files can be found from the README.docx file.

opencc-by-4.0May 2024View details →

Data and codes for "Decay-protected superconducting qubit with fast control enabled by integrated on-chip filters"

Data and codes for "Decay-protected superconducting qubit with fast control enabled by integrated on-chip filters".

opencc-by-4.0Apr 2018View details →

Data associated with "A collaborative filtering based approach to biomedical knowledge discovery"

This is the data set associated with the publication: "A collaborative filtering based approach to biomedical knowledge discovery" published in Bioinformatics. The data are sets of cooccurrences of biomedical terms extracted from published abstracts and full text articles. The cooccurrences are then represented in sparse matrix form. There are three different splits of this data denoted by the prefix number on the files. 1. All - All cooccurrences combined in a single file 2. Training/Validation - All cooccurrences in publications before 2010 in training, all novel cooccurrences in publication in 2010 go in validation 3. Training+Validation/Test - All cooccurrences in publication upto and including 2010 in training+validation. All novel cooccurrences after 2010 in year by year increments and also all combined together   Furthermore there are subset files which are used in some experiments to deal with the computational cost of evaluating the full set. The associated cuids.txt file containing a link between the row/column in the matrix with the UMLS Metathesaurus CUIDs. Hence the first row of cuids.txt matches up to the 0th row/column in the matrix. Note that the matrix is square and symmetric. This work was done with UMLS Metathesaurus 2016AB.

North American Apidae Occurrence Data Filtered from GBIF

This is a filtered dataset from GBIF including all Apidae observations identified to the species level in the North American range. Data was downloaded using rgbif::occ_download and accessed from R via rgbif (https://github.com/ropensci/rgbif) on 2024-11-10. The original unfiltered GBIF occurrences can be download at https://doi.org/10.15468/dl.5k8kue, and https://api.gbif.org/v1/occurrence/download/request/0005473-241107131044228.zip. The data is filtered to have coordinates in North America, no geospatial issues, no duplicates across species and coordinates, no coordinate uncertainty greater than 1 kilometer, and no occurrences lying within 1km of a college or university. This dataset is incomplete as it does not include ALL observations that occur in North American countries as observations lacking a continent field of "north_america" in GBIF are not included. The data was uploaded to Zenodo after filtering with the following DOI: 10.5281/zenodo.14062444.

North American Papilionidae Occurrence Data Filtered from GBIF

This is a filtered dataset from GBIF including all Papilionidae observations identified to the species level in the North American range. Data was downloaded using rgbif::occ_download and accessed from R via rgbif (https://github.com/ropensci/rgbif) on 2024-11-10. The original unfiltered GBIF occurrences can be download at https://doi.org/10.15468/dl.94su9e, and https://api.gbif.org/v1/occurrence/download/request/0005495-241107131044228.zip. The data is filtered to have coordinates in North America, no geospatial issues, no duplicates across species and coordinates, no coordinate uncertainty greater than 1 kilometer, and no occurrences lying within 1km of a college or university. This dataset is incomplete as it does not include ALL observations that occur in North American countries as observations lacking a continent field of "north_america" in GBIF are not included. The data was uploaded to Zenodo after filtering with the following DOI: 10.5281/zenodo.14062603.

North American Trochilidae Occurrence Data Filtered from GBIF

This is a filtered dataset from GBIF including all Trochilidae observations identified to the species level in the North American range. Data was downloaded using rgbif::occ_download and accessed from R via rgbif (https://github.com/ropensci/rgbif) on 2024-11-10. The original unfiltered GBIF occurrences can be download at https://doi.org/10.15468/dl.ekuew6, and https://api.gbif.org/v1/occurrence/download/request/0005475-241107131044228.zip. The data is filtered to have coordinates in North America, no geospatial issues, no duplicates across species and coordinates, no coordinate uncertainty greater than 1 kilometer, and no occurrences lying within 1km of a college or university. This dataset is incomplete as it does not include ALL observations that occur in North American countries as observations lacking a continent field of "north_america" in GBIF are not included. The data was uploaded to Zenodo after filtering with the following DOI: 10.5281/zenodo.14062667.

North American Bombyliidae Occurrence Data Filtered from GBIF

This is a filtered dataset from GBIF including all Bombyliidae observations identified to the species level in the North American range. Data was downloaded using rgbif::occ_download and accessed from R via rgbif (https://github.com/ropensci/rgbif) on 2024-11-10. The original unfiltered GBIF occurrences can be download at https://doi.org/10.15468/dl.p2tn6p, and https://api.gbif.org/v1/occurrence/download/request/0005494-241107131044228.zip. The data is filtered to have coordinates in North America, no geospatial issues, no duplicates across species and coordinates, no coordinate uncertainty greater than 1 kilometer, and no occurrences lying within 1km of a college or university. This dataset is incomplete as it does not include ALL observations that occur in North American countries as observations lacking a continent field of "north_america" in GBIF are not included. The data was uploaded to Zenodo after filtering with the following DOI: 10.5281/zenodo.14062514.

opencc-by-4.0Jun 2021View details →

Oscillations of Offshore Wind Turbines undergoing Installation II: Filtered and Integrated data - acceleration, velocity, displacement

This is dataset is based on the raw measurement data from <a href="https://zenodo.org/record/5009061">https://zenodo.org/record/5009061</a> The data included in the archives are the resampled and high-pass filtered accelerations as well as the velocity and displacement data.

opencc-by-4.0Nov 2022View details →

Raw Data and PCA Filtering of Apache Point Observatory NMSU 1m StellaCam Observations of LCROSS

This archive contains the raw data and data products from observations of the 2009-10-09 impact of the Lunar CRater Observation and Sensing Satellite (LCROSS) spacecraft on the Moon by the StellaCam instrument on the Apache Point Observatory NMSU 1m telescope. Full details about the raw data are available in Chanover, N. J. et al. Results from the NMSU-NASA Marshall Space Flight Center LCROSS observational campaign. J. Geophys. Res. (Planets) 116, E08003 (2011). <a href="https://doi.org/10.1029/2010JE003761">https://doi.org/10.1029/2010JE003761</a> We use principal component analysis (PCA) filtering both to coregister the raw time series and to effectively remove a static background signal that is spatially and temporally modified by atmospheric and instrumental effects. We iteratively remove principal components from the data through cumulative sequential elimination (CSE) resulting in a non-detection of the LCROSS ejecta plume signal. Full details are available in the published journal article: Strycker, Paul D., Nancy J. Chanover, Ruth L. Temme, Jonathan M. Schotte, Payton L. Mueller, and Emily L. Karls. 2023. "Time Series Analysis Methods and Detectability Factors for Ground-Based Imaging of the LCROSS Impact Plume" Remote Sensing 15, no. 1: 37. <a href="https://doi.org/10.3390/rs15010037">https://doi.org/10.3390/rs15010037</a> This work was supported by NASA’s Lunar Data Analysis Program through grant number NNX15AP92G.

opencc-by-4.0Nov 2022View details →

Puma concolor occurrence points (filtered data)

Puma concolor occurrence points (duplicates removed) in Canada until December 2021.  Used in Maxent habitat suitability model (performed in R).

opencc-by-4.0Jan 2023View details →

Supplementary material for "Including filter-feeding gelatinous macrozooplankton in a global marine biogeochemical model: model-data comparison and impact on the ocean carbon cycle"

Supplementary material for "Including filter-feeding gelatinous macrozooplankton in a global marine biogeochemical model: model-data comparison and impact on the ocean carbon cycle".   Clerc, C., Bopp, L., Benedetti, F., Vogt, M., and Aumont, O.: Including filter-feeding gelatinous macrozooplankton in a global marine biogeochemical model: model-data comparison and impact on the ocean carbon cycle, EGUsphere [preprint], https://doi.org/10.5194/egusphere-2022-1282, 2022. Three directories can be downloaded: DataOBS :  AtlantECO [WP2] – Traditional microscopy dataset – Thaliacea (Salpida+Doliolida+Pyromosomatida) abundance and biomass concentration data, presented in Clerc et al. (2022).  FigPaper : Source code and .nc files for the figures presented in Clerc et al. (2022) (https://doi.org/10.5194/egusphere-2022-1282).  MY_SRC_PISCES_NEMO_3.6 : Additional fortran routines for the compilation of PISCES-FFGM, the model developed for Clerc et al. (2022), from NEMO-3.6 (https://www.nemo-ocean.eu)

opencc-by-4.0Mar 2023View details →

Inner filter effect correction for fluorescence measurements in microplates (AddAbs) - experimental data

Experimental data for the paper entitled Reducing the Inner Filter Effect in Microplates by Increasing Absorbance? Linear Fluorescence in Highly Concentrated Fluorophore Solutions in the Presence of an Added Absorber (<a href="https://doi.org/10.1021/acs.analchem.3c01295">https://doi.org/10.1021/acs.analchem.3c01295</a>). Separate worksheets are provided for the following: 1. Fluorescence measurements - raw values in triplicate; 2 worksheets for transparent (T) and nontransparent (NT) microplates, each with 15 titrations: L1-L12 and H1-H3, 2. Absorbance measurements - raw values in triplicate (λex = 345 nm, λem = 390 nm); 1 worksheet for T microplates only, with 4 titrations: L1-L4, 3. Fluorescence measurements - averaged, baseline-corrected averaged and normalized baseline-corrected averaged triplicates; 2 worksheets for T and NT microplates, each with 15 titrations: L1-L12 and H1-H3, 4. ZINFE/NINFE-corrected fluorescence in T microplates; 12 worksheets for 12 titrations: L1-L9 and H1-H3, 5. ZINFE/NINFE-corrected fluorescence in NT microplates; 12 worksheets for 12 titrations: L1-L9 and H1-H3. The results of the ZINFE and NINFE correction methods obtained using the online calculator service written in Javascript: https://ninfe.science (version 09.5.2022.) For additional details please visit: https://glymech.pharma.hr//GlyMech.html.

opencc-by-4.0Aug 2023View details →

Baroclinic and barotropic tidal data for the pacific basin, filtered at the M2 frequency

Sea surface height, vertically averaged pressure anomalies and pressure gradients, filtered at the M2 frequencies (period: 12.4206 hours) This data was used to produce the figures in: Baroclinic Sea-Level, by McWilliams, Molemaker, and Damien.

opencc-by-4.0Aug 2023View details →

Data for figures in "Next-generation ice nucleating particle sampling on aircraft: Characterization of the High-volume flow aERosol particle filter sAmpler (HERA)"

Atmospheric ice nucleating particle (INP) concentration data from the free troposphere are sparse, but urgently needed to understand vertical transport processes of INPs and their influence on cloud formation and properties. Here, we introduce the new High-volume flow aERosol particle filter sAmpler (HERA) which was specially developed for installation on research aircraft and subsequent offline INP analysis. HERA is a modular system constisting of a sampling unit and a powerful pump unit and has several features which were integrated specifically for INP sampling. Firstly, the pump unit enables sampling at flow rates exceeding 100 L min−1, which is well above typical flow rates of aircraft INP sampling systems described in the literature (~10 L min−1). Consequently, required sampling times to capture rare, high-temperature INPs (≥-15 °C) are reduced in comparison to other systems and potential source regions of INPs can be confined more precisely. Secondly, the sampling unit is designed as a seven-way valve, enabling switching between six filter holders and a bypass with one filter being sampled at a time. In contrast to other aircraft INP sampling systems, the valve position is controlled remotely via software so that manual filter changes in-flight are eliminated and the potential for sample contamination is decreased. This design is compatible with a high degree of automation, i.e., triggering filter changes depending on parameters like flight altitude, geographical location, temperature, or time. In addition to the design and principle of operation of HERA, this paper presents laboratory characterization experiments with size-selected test substances, i.e., SNOMAX® and Arizona Test Dust. The particles were sampled on filters with HERA, varying either particle diameter (300 nm to 800 nm) or flow rate (10 L min−1 to 100 L min−1) between experiments. The subsequent offline INP analysis showed good agreement with literature data and comparable sampling efficiencies for all investigated particle sizes and flow rates. Furthermore, the deposition efficiency of atmospheric INPs in HERA was compared to a straightforward filter sampler and good agreement was found. Finally, results from the first campaign of HERA on the High Altitude and LOng range research aircraft (HALO) demonstrate the functionality of the new system in the context of aircraft application. The given csv files contain the data for reproducing the figures in the publication. The data structure of the csv files is explained in the README file.

dryad40/100

Data from: Bryophyte community assembly on young land uplift islands – dispersal and habitat filtering assessed using species traits

Open the record for dataset details and reuse information.

publicMar 2021View details →

dryad40/100

Data from: Floral organs act as environmental filters and interact with pollinators to structure the yellow monkeyflower (Mimulus guttatus) floral microbiome

Open the record for dataset details and reuse information.

publicAug 2024View details →

opencc-zeroAug 2020View details →

Data set for 'Lunge filter feeding biomechanics constrain rorqual foraging ecology across scale'...

Fundamental scaling relationships influence the physiology of vital rates, which in turn shape the ecology and evolution of organisms. For diving mammals, benefits conferred by large body size include reduced transport costs and enhanced breath-holding capacity, thereby increasing overall foraging efficiency. Rorqual whales feed by engulfing a large mass of prey-laden water at high speed and filter it through baleen plates. However, as engulfment capacity increases with body length across species (Engulfment Volume ∝ Body Length 3.57), the surface area of the baleen filter does not increase proportionally (Baleen Area ∝ Body Length1.82), and thus the filtration time of larger rorquals predictably increases because the baleen surface area must filter a disproportionally large amount of water. We predicted that filtration time should scale with body length to the power of 1.75 (Filter Time ∝ Body Length1.75). We tested this hypothesis on four rorqual species using multi-sensor tags with corresponding unoccupied aerial systems (UAS) -based body length estimates. We found that filter time scales with body length to the power of 1.79 (95% CI: 1.61 - 1.97). This result highlights a scale-dependent trade-off between engulfment capacity and baleen area that creates a biomechanical constraint to foraging through increased filtration time. Consequently, larger whales must target high density prey patches commensurate to the gulp size to meet their increased energetic demands. If these optimal patches are absent, larger rorquals may experience reduced foraging efficiency compared to smaller whales if they do not match engulfment capacity to the size of targeted prey aggregations.

opencc-zeroSep 2020View details →

Data and code from "A dimmer shade of pale: revealing the faint signature of local assembly processes on the structure of strongly filtered plant communities"

Trait-based ecology suggests that abiotic filtering is the main mechanism structuring the regional species pool in different subsets of habitat-specific species. At more local spatial scales, other ecological processes may add on giving rise to complex patterns of functional diversity (FD). Understanding how assembly processes operating on the habitat-specific species pools produce the locally observed plant assemblages is an ongoing challenge. Here, we evaluated the importance of different processes to community assembly in an alpine fellfield, assessing its effects on local plant trait FD. Using classical randomization tests and linear mixed models, we compared the observed FD with expectations from three null models that hierarchically incorporate additional assembly constraints: stochastic null models (random assembly), independence null models (each species responding individual and independently to abiotic environment), and co-occurrence null models (species responding to environmental variation and to the presence of other species). We sampled species composition in 115 quadrats across 24 locations in the central Pyrenees (Spain) that differed in soil conditions, solar radiation and elevation. Overall, the classical randomization tests were unable to find differences between the observed and expected functional patterns, suggesting that the strong abiotic filters that sort out the flora of extreme regional environments blur any signal of other local processes. However, our approach based on linear mixed models revealed the signature of different ecological processes. In the case of seed mass and leaf thickness, observed FD significantly deviated from the expectations of the stochastic model, suggesting that fine-scale abiotic filtering and facilitation can be behind these patterns. Our study highlights how the hierarchical incorporation of ecological additional constraints may shed light on the dim signal left by local assembly processes in alpine environments.

opencc-zeroDec 2020View details →

Data from: Spatially-explicit depiction of a floral epiphytic bacterial community reveals role for environmental filtering within petals

The microbiome of flowers (anthosphere) is an understudied compartment of the plant microbiome. Within the flower, petals represent a heterogeneous environment for microbes in terms of resources and environmental stress. Yet little is known of drivers of structure and function of the epiphytic microbial community at the within-petal scale. We characterized the petal microbiome in two co-flowering plants that differ in pattern of ultraviolet (UV) absorption along their petals. Bacterial communities were similar between plant hosts, with only rare phylogenetically distant species contributing to differences. The epiphyte community was highly culturable (75% of families) lending confidence to the spatially-explicit isolation and characterization of bacteria. In one host, petals were heterogeneous in UV absorption along their length and in these there was a negative relationship between growth rate and position on the petal, as well as lower UV tolerance in strains isolated from the UV absorbing base than from UV reflecting tip. A similar pattern was not seen in microbes isolated from a second host whose petals had uniform patterning along their length. Across strains, variation in carbon utilization and chemical tolerance followed common phylogenetic patterns. This work highlights the value of petals for spatially-explicit explorations of bacteria of the anthosphere.