cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19131911
title: File S11. Unformatted McNemar output file(563,087 SNPs) for 102 BCHF matched case-control pairs, filename: BCHF102pairsHD778FFFSortFiltered.McNemarsResults.csv (468.74)

description: Bovine congestive heart failure (BCHF) has become increasingly prevalent among feedlot cattle in the Western Great Plains of North America with up to 7% mortality in affected herds. BCHF is an untreatable complex condition involving pulmonary hypertension that culminates in right ventricular failure and death. Genes associated with BCHF in feedlot cattle have not been previously identified. Our aim was to search for genomic regions associated with this disease. A retrospective, matched case-control design with 102 clinical BCHF cases and their unaffected penmates was used in a genome-wide association study. Paired nominal data from approximately 560k filtered single nucleotide polymorphisms (SNPs) were analyzed with McNemar’s test. The most significant genome-wide association was in the arrestin domain-containing 3 protein gene (ARRDC3), followed by the nuclear factor IA gene (NFIA, mid-p-values, 1x10E-8 and 2x10E-7, respectively). Animals with homozygous risk alleles at either gene were approximately 8-fold more likely to have BCHF than their matched penmates without those risk alleles (CI95 = 3-17). Animals with homozygous risk alleles at both genes were 28-fold more likely to have BCHF than all others (p-value = 1x10E-7, CI95 = 4-206). A linked missense variant in ARRDC3 (C182Y) represents a potential functional variant since C182 is conserved among all other jawed vertebrate species observed. A DNA test with two markers showed 29% of 273 BCHF cases had homozygous risk alleles in both genes, compared to 2.5% in 198 similar unaffected feedlot cattle. This DNA test may be useful for identifying feedlot animals with the highest risk for BCHF in the environments described here. Although pathogenic roles for ARRDC3 and NFIA variants associated with BCHF are unknown, their discovery facilitates classifying animals by genetic risk and allows cattle producers to make informed decisions for selective breeding and animal health management.
DOI: 10.5281/zenodo.6377707
title: Andrew Hunt Dissertation Supplemental Materials

description: Supplementary files referenced in my dissertation.
DOI: 10.5281/zenodo.6377529
title: Andrew Hunt Dissertation Supplemental Materials

description: Supplementary files referenced in my dissertation.
DOI: 10.25345/c5r20s11g
title: MassIVE MSV000089100 - Peptidomics of Alzheimer's disease synaptosomes
title: Peptidomics analyses of synaptosomes in Alzheimer's disease patients and control individuals
DOI: 10.5281/zenodo.6377944
title: DBpedia RDF2Vec Graph Embeddings

description: DBpedia graph embeddings using RDF2Vec. RDF2Vec embedding generation code can be found here and is based on a publication by Portisch et al. [1]. The embeddings dataset consists of 200-dimensional vectors of DBpedia entities (from 1/9/2021). Cosine similarities between a selected set of DBpedia entities are provided in the dataset. <strong>Generating Embeddings</strong> The code for generating these embeddings can be found here. Run the run.sh script that wraps all the necessary commmands to generate embeddings <pre><code class="language-bash">bash run.sh</code></pre> The script downloads a set of DBpedia files, which are listed in <code>dbpedia_files.txt</code>. It then builds a Docker image and runs a container of that image that generates the embeddings for the DBpedia graph defined by the DBpedia files. A folder <code>files</code> is created containing all the downloaded DBpedia files, and a folder <code>embeddings/dbpedia</code> is created containing the embeddings in <code>vectors.txt</code> along a set of random walk files. <strong>Run Time of Embeddings Generation</strong> Generating embeddings can take more than a day, but it depends on the number of DBpedia files chosen to be downloaded. Following are some basic run time statistics when embeddings are generated on a 64 GB RAM, 8 cores (AMD EPYC), 1 TB SSD, 1996.221 MHz machine. <strong>Total</strong>: 1 day, 8 hours, 52 minutes, 41 seconds <strong>Walk generation</strong>: 0 days, 7 minutes, 24 minutes, 36 seconds <strong>Training</strong>: 1 day, 1 hour, 28 minutes, 5 seconds <strong>Parameters Used</strong> Here is listed the parameters used to generate the embeddings provided here: <strong>Number of walks per entity</strong>: 100 <strong>Depth (hops) per walk</strong>: 4 <strong>Walk generation mode</strong>: RANDOM_WALKS_DUPLICATE_FREE <strong>Threads</strong>: # of processors / 2 <strong>Training mode</strong>: sg <strong>Embeddings vector dimension</strong>: 200 <strong>Minimum word2vec word count</strong>: 1 <strong>Sample rate</strong>: 0.0 <strong>Training window size</strong>: 5 <strong>Training epochs</strong>: 5
description: {"references": ["Portisch, J., Hladik, M. and Paulheim, H., 2020. RDF2Vec Light--A Lightweight Approach for Knowledge Graph Embeddings. arXiv preprint arXiv:2009.07659."]}
DOI: 10.6084/m9.figshare.3761562.v2165
title: Online Labour Index: Measuring the Online Gig Economy for Policy and Research

description: Data repository for the data underlying the Online Labour Index. See http://ilabour.oii.ox.ac.uk online-labour-index/ for details.
DOI: 10.5281/zenodo.6372867
title: luis-crisostomo/sperm_rna: v0.2

description: <strong>Version v0.2:</strong> Uploaded raw RNAseq files. <strong>Version v0.1:</strong> Uploaded auxiliary files for GO analysis. DOI registration via Zenodo.
DOI: 10.5281/zenodo.6001903
title: luis-crisostomo/sperm_rna: v0.2

description: <strong>Version v0.2:</strong> Uploaded raw RNAseq files. <strong>Version v0.1:</strong> Uploaded auxiliary files for GO analysis. DOI registration via Zenodo.
DOI: 10.34943/ea9aef15-a293-4139-a1f5-aeb7ef048854
title: Fraser River Delta Upper Slope Suspended Sediment Profiler Deployed 2022-03-11

description: The Aquatec AquaScat 1000R (S/N 910-140) was deployed on 2022-03-11 at Fraser River Delta Upper Slope. This site is located on the upper slope of the Fraser River delta, where depth is approximately 100 metres. This device is a Suspended Sediment Profiler. Suspended Sediment Profilers (SSPs) consist of multiple acoustic transducers tuned to different frequencies, and rely on a principle, that the same sediment particle will scatter differently with acoustic waves of different frequencies. SSPs are active devices, which means they transmit and receive reflected acoustic signals (i.e. echoes). SSPs are high frequency acoustic profilers, used in sediment transport studies, including measurement of suspended sediment profiles, precision altimetry, dredge plumes and turbulence. It was deployed on a fixed platform. Data from this deployment were archived and made available through Ocean Networks Canada's Oceans 3.0 digital infrastructure, with quality assurance and derived data products following established practices.
DOI: 10.5281/zenodo.6377515
title: New Upload

description: Default description
DOI: 10.5281/zenodo.6377514
title: New Upload

description: Default description
DOI: 10.25919/rzqd-x110
title: Parkes observations for project P1014 semester 2021OCTS_01

description: The detections of overdense and overpressured Tiny Scale Atomic Structures (TSAS) challenge the standard picture of cooling and heating mechanisms in the interstellar medium (ISM). Multi-epoch observations of HI absorption against pulsars are a tested, practical observational method to probe the TSAS. Based on our observations in the 2019APR, 2019OCT, and 2020APR, we successfully detected a TSAS towards PSR B1557-50 with a spatial scale of 17 AU and significant dispersion measurements (DM) variations simultaneously. If TSAS is dust-free and molecule-free with a large fraction of carbon gas and not highly shielded from starlight, most of the carbon is ionized. Such electron column density in the TSAS can be observed in DM variations at a level of ~10^-2 pc cm^-3. Therefore, the ratio of HI column density variations and electron density variations measures the ionization fractions of the TSAS directly. The ionization fractions estimation in such cold atomic gas is very difficult usually through low-frequency carbon radio recombination lines with interferometers. In order to constrain the ionization fractions in TSAS, we propose two epoch observations towards PSR B1557-50 and two epoch observations towards PSR B1749-28. This will help us to better understand the cooling and heating mechanisms in the ISM.
DOI: 10.17632/bzhjw4wcsd.1
title: Unprocessed blot images 

description: Microtubules promote the non-cell autonomous action of microRNAs by inhibiting their cytoplasmic loading onto ARGONAUTE1 in Arabidopsis
DOI: 10.17632/5nzvr2g7vk.1
title: Nectar secretion dynamics in Nicotiana rustica

description: Nectar sampling of 23 Nicotiana rustica plants in a 15’ x 15’ garden plot located in Lamont, Alberta (53° 45' 35.7876'' N 112° 46' 38.712'' W) began August 5th, 2020 and took place every day, weathering permitting, until August 20th. Each day, buds on participating plants were bagged with 4" x 6" sheer drawstring pouches to exclude pollinators from the sample flowers. The selected buds were ones that appeared to be near-flowering, so that when eventually sampled they would be in anthesis (Figure 1).  Each flower selected was sampled twice in a twelve-hour period, between 8:00 – 10:00 and 20:00 – 22:00. When the initial sample was taken (8:00 – 10:00 or 20:00 – 22:00) alternated each sampling round, so that the final samples of the entire data set would reflect both the nectar produced over the day and overnight. Only one flower/plant/round was sampled to reduce confusion. The initial sample period began by removing the exclusion bags and marking flowers in anthesis on each plant. Nectar samples were then collected from the newly opened flowers with 75 mm Drummond™ Capillary Tubes. The length of the nectar along the tube was measured with a ruler and recorded to be converted to a volume later. After this measurement the nectar was expelled from the microcapillary tube onto the sample well of a Fisherbrand™ Handheld Digital Brix/RI Refractometer, which had been previously zeroed and cleaned with distilled water. In a shaded area with the cover closed, the refractometer read off and produced the average of 15 Brix° measurements of each nectar sample (automatically correcting for temperature), and the number recorded. The sample well was cleaned, the flower re-bagged, and the process repeated for the next marked flower. These same flowers were then resampled 12 hours later using the same process, to determine the volume and Brix° concentration of the nectar produced between sample periods.

Hypotheses:
H0: Nicotiana rustica’s nectar attributes, including nectar volume (μl), weight of sugar present within the nectar (mg), or the nectar concentration (mg/μl), will not vary depending on the time of day it is secreted.  
Ha: One or more of Nicotiana rustica’s nectar attributes will vary depending on the time of day it is secreted.
DOI: 10.17632/nsdyc48j79.1
title: Peculiarities of External Speech Operations in Narrative Speech of Preschool Children

description: The purpose of the article is to present the state and levels of the development of external speech operations in lexical and grammatical structuring in the narrative speech of preschool children. 
The results of children’s narrative speech observation reveal the features and levels of external speech operations development in lexical and grammatical structuring in preschool children, the uniqueness of children’s external speech, characteristic for each of the selected levels, show that each child who develops normally has an inherent individual uneven development of narrative operations and actions. The conclusion about statistically significant differences was made by comparing the obtained empirical indicators with the critical value of Student’s t-test. Analysis of the state of external speech operations development of narrative speech in preschool children created the preconditions for the allocation of four levels of these speech operations development: high, sufficient, medium, and low.
DOI: 10.17632/ctswd6n37j.1
title: The GIVE Project baseline data on socio-economic and sturctural barriers to Newcastle Disease vaccine uptake

description: This an extract of the baseline data of  The GIVE Project Gender Inclusive Vaccine Ecosystem (GIVE) (https://idl-bnc-idrc.dspacedirect.org/handle/10625/59232?show=full) dealing with socio-economic and sturctural barriers to Newcastle Disease vaccine uptake
DOI: 10.17632/vbh6x2w2nv.2
title: Atopic eczema and dementia

description: Supplemental material for article "Adult atopic eczema and the risk of dementia: A population-based cohort study"
DOI: 10.17632/wsfncdwt4t.4
title: Influence of relaxation on the deployment behaviour of a CFRP composite elastic-hinge - Master-curve data processing

description: The following file contains the data obtained from the experimental relaxation testing of the composite system AS4/8552 and the process used to create its relaxation Master-curve.

This data has been used in the following research article:
P. Fernandes et al., Influence of relaxation on the deployment behaviour of a CFRP composite elastic-hinge, Composite Structures (2020). https://doi.org/10.1016/j.compstruct.2020.113217
DOI: 10.17632/dz4yr438hb.3
title: Performance analysis of a damage-tolerant composite self-deployable elastic-hinge - ABAQUS input files

description: The present dataset includes the ABAQUS input files necessary to recreate the work reported in the article "Performance analysis of a damage-tolerant composite self-deployable elastic-hinge", published in the Composite Structures scientific journal and identified through the following DOI: https://doi.org/10.1016/j.compstruct.2022.115407.

Abstract of the article:
Self-deployable composite structures are interesting for the space industry as they efficiently use the space available, are lightweight, and have simple deployment systems. Usually, the design of these structures balances two opposing demands: increasing the structural stiffness to meet natural frequencies and/or pointing accuracy requirements and increasing the flexibility to enable stowage. However, most of these structures perform a single deployment sequence once in orbit. This article discusses the use of a damage-tolerant design, allowing damage initiation during the stowage process in exchange for the capability of meeting more demanding requirements. A Genetic Algorithm is used to maximize the natural frequency of two elastic-hinge designs: one constrained to function in the elastic regime, and the other allowed a limited damage initiation during stowage. Their performance is compared based on the first natural frequency obtained, considering the deleterious effect of the damage initiation in the structural stiffness.
DOI: 10.5281/zenodo.6377992
title: elizagrames/self-exciting-signals: v1.0

description: Data and code to reproduce analyses from Grames et al. (in press) Separating acoustic signal into underlying behaviors with self-exciting point process models. Ecological Modelling. Note that the example model output file is rather large and is archived separately on Zenodo along with v1.0 of the data and code contained here. For model outputs from all samples presented in the paper (~32 Gb), not just the example, please contact Eliza Grames at egrames@unr.edu.
DOI: 10.5281/zenodo.6377983
title: elizagrames/self-exciting-signals: v1.0

description: Data and code to reproduce analyses from Grames et al. (in press) Separating acoustic signal into underlying behaviors with self-exciting point process models. Ecological Modelling. Note that the example model output file is rather large and is archived separately on Zenodo along with v1.0 of the data and code contained here. For model outputs from all samples presented in the paper (~32 Gb), not just the example, please contact Eliza Grames at egrames@unr.edu.
DOI: 10.18739/a2q814t3p
title: Dynamic Vegetation Model Dynamic Organic Soil Terrestrial Ecosystem Model (DVM-DOS-TEM) simulations for a 50x50 km2 area centered on eight mile lake, Alaska and Toolik Field Station, Alaska [1950-2100]

description: This set of files store model simulations using the biosphere model Dynamic Vegetation Model Dynamic Organic Soil Terrestrial Ecosystem Model (DVM-DOS-TEM), developed to represent the effect of deep nitrogen acquisition by the vegetation on the permafrost carbon feedback. Simulations were conducted at a 1km resolution, over a 2,500 km2 area (50x50km square) centered on two long term ecological research sites in Alaska: Eight Mile Lake located in Interior Alaska (63.8900° N, 149.2535° W), and Toolik Field Station located on the northern foothills of the Brooks range (68.6500° N, 149.5800° W). Historical simulations are spanning the 1950 to 2015, and forced using climate simulations from the Climate Research Unit, time series 4.0. Future simulations are spanning 2016 to 2100, and forced using atmospheric CO2 emission scenario Representative Concentration Pathway (RCP) 8.5 and climate simulations from the Coupled Model Intercomparison Project Phase 5 (CMIP5) for two global circulation models: the Meteorological Research Institute (MRI) and National Center for Atmospheric Research (NCAR). The variables that are produced are gross primary productivity (GPP, in gC.m-2.y-1), net primary productivity (NPP, in gC.m-2.y-1), Heterotrophic respiration (RH in gC/m2/y-1), and active layer depth (ALD, m). The data are stored in netcdf files, the projection of used is NAD83/Alaska alders conical equal area (EPSG 3888).
DOI: 10.5281/zenodo.1303417
title: Atmospheric_river_precipitation_predictability_data

description: Data for the manuscript entitled "Predictability of Extreme Precipitation Associated With Atmospheric Rivers in Western U.S. Watersheds". It includes daily precipitation data from WRF and PRISM. Also includes atmospheric river information derived from ARTMIP Tier 1 archive. The tools used to generate the figures in the paper is at: https://github.com/lucas-uw/Chen-2018-GRL If you use this dataset, please cite the following paper: Chen, X., Leung, L. R., Gao, Y., Liu, Y., Wigmosta, M., & Richmond, M. (2018). Predictability of extreme precipitation in western U.S. watersheds based on atmospheric river occurrence, intensity, and duration. Geophysical Research Letters, 45, 11,693–11,701. https://doi.org/10.1029/2018GL079831 Chen, X., Leung, L. R., Wigmosta, M., & Richmond, M. (2019). Impact of Atmospheric Rivers on Surface Hydrological Processes in Western U.S. Watersheds. Journal of Geophysical Research: Atmospheres, https://doi.org/10.1029/2019JD03468
DOI: 10.5281/zenodo.1303416
title: Atmospheric_river_precipitation_predictability_data

description: Data for the manuscript entitled "Predictability of Extreme Precipitation Associated With Atmospheric Rivers in Western U.S. Watersheds". It includes daily precipitation data from WRF and PRISM. Also includes atmospheric river information derived from ARTMIP Tier 1 archive. The tools used to generate the figures in the paper is at: https://github.com/lucas-uw/Chen-2018-GRL If you use this dataset, please cite the following paper: Chen, X., Leung, L. R., Gao, Y., Liu, Y., Wigmosta, M., & Richmond, M. (2018). Predictability of extreme precipitation in western U.S. watersheds based on atmospheric river occurrence, intensity, and duration. Geophysical Research Letters, 45, 11,693–11,701. https://doi.org/10.1029/2018GL079831 Chen, X., Leung, L. R., Wigmosta, M., & Richmond, M. (2019). Impact of Atmospheric Rivers on Surface Hydrological Processes in Western U.S. Watersheds. Journal of Geophysical Research: Atmospheres, https://doi.org/10.1029/2019JD03468
DOI: 10.6084/m9.figshare.19401032.v1
title: Foreign allometric exponents adequately normalize isokinetic knee extension strength to identify muscle weakness and mobility limitation in Portuguese older adults: A cross-sectional study

description: This is a dataset encompassing 226 Portuguese (n=132) and Brazilian (n=94) older adults. Mobility limitation (six-minute walk test, at lowest quartile), lower limbs strength (knee extension isokinetic strength at 60º/s), and body dimensions measures were taken.<b> </b>Foreign allometric exponents (<sup>b</sup>) were used to normalize Portuguese strength (strength/body-size variables<sup>b</sup>).
DOI: 10.6084/m9.figshare.19401032
title: Foreign allometric exponents adequately normalize isokinetic knee extension strength to identify muscle weakness and mobility limitation in Portuguese older adults: A cross-sectional study

description: This is a dataset encompassing 226 Portuguese (n=132) and Brazilian (n=94) older adults. Mobility limitation (six-minute walk test, at lowest quartile), lower limbs strength (knee extension isokinetic strength at 60º/s), and body dimensions measures were taken.<b> </b>Foreign allometric exponents (<sup>b</sup>) were used to normalize Portuguese strength (strength/body-size variables<sup>b</sup>).
DOI: 10.5281/zenodo.6377461
title: Precipitation objects under the current and future climate: WRF 6-km hydroclimate simulation of the western US

description: This folder includes the data for the following manuscript: Chen et al., Sharpening of Future Western US Cold Season Storms Modifies Area‐Intensity Relationship for Safe Design. It is generated using WRF V3.8.1 at PNNL. A historical simulation ("NARR") is done for 1981-2010, and five future simulations ("CanESM2", "CESM1-CAM5", "GFDL-ESM2M", "HadGEM2-ES", "MPI-ESM-MR") are done for 2041-2070 using the Psuedo Global Warming (PGW) approach. For the WRF model configuration and the simulation details, please refer to the abovementioned manuscript. This is the preliminary version of the dataset that contains the precipitation object features as analyzed in the manuscript. More data (including the WRF raw output) will be included here before the manuscript is published.
description: {"references": ["Chen, X. et al. (2018). Predictability of Extreme Precipitation in Western U.S. Watersheds Based on Atmospheric River Occurrence, Intensity, and Duration, Geophys. Res. Lett. doi: 10.1029/2018GL079831."]}
DOI: 10.6084/m9.figshare.15161886
title: The evolutionary history of the HUP domain

description: Among the enzyme lineages that undoubtedly emerged prior to the last universal common ancestor is the so-called HUP, which includes Class I aminoacyl tRNA synthetases (AARSs) as well as enzymes mediating NAD, FAD, and CoA biosynthesis. Here, we provide a detailed analysis of HUP evolution, from emergence to structural and functional diversification. The HUP is a nucleotide binding domain that uniquely catalyzes adenylation via the release of pyrophosphate. In contrast to other ancient nucleotide binding domains with the αβα sandwich architecture, such as P-loop NTPases, the HUP’s most conserved feature is not phosphate binding, but rather ribose binding by backbone interactions to the tips of β1 and/or β4. Indeed, the HUP exhibits unusual evolutionary plasticity and, while ribose binding is conserved, the location and mode of binding to the base and phosphate moieties of the nucleotide, and to the substrate(s) reacting with it, have diverged with time, foremost along the emergence of the AARSs. The HUP also beautifully demonstrates how a well-packed scaffold combined with evolvable surface elements promotes evolutionary innovation. Finally, we offer a scenario for the emergence of the HUP from a seed βαβ fragment, and suggest that despite an identical architecture, the HUP and the Rossmann represent independent emergences.