cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24549865.v1
title: Fastq files used in: Oomycetes communities are influenced by land use and disease status in Christmas tree production in Southern Québec, Canada.

description: Forests are threatened by many natural stressors intensified by climate change and anthropogenic activities, which tend to increase their susceptibility to pests and pathogens. Consequently, oomycetes-related forest decline or dieback cases are increasing in natural, urban, and agricultural landscapes. Christmas tree growers from Southern Québec, Canada, are experiencing root rot problems, with reported incidences up to 25%. In a previous study, seven Phytophthora spp. were associated with this root rot problem, but the overall diversity of oomycetes has not yet been investigated. Hence, in this study, we use a metabarcoding approach to provide an overview of the diversity, richness, and composition of the oomycetes community in fir plantations compared to surrounding natural forests.Details about data structure and analyses are available at: https://github.com/hvanderheyden/cimdec_phytophthora.
DOI: 10.5281/zenodo.8411989
title: Data for manuscript "Integrated microwave photonic notch filter using a heterogeneously integrated Brillouin and active-silicon photonic circuit"

description: Experimental data and scripts to plot results for manuscript  "Integrated microwave photonic notch filter using a heterogeneously integrated Brillouin and active-silicon photonic circuit"
DOI: 10.25430/researchdata.cab.unipd.it.00001075
title: Micro-channels array device fabricated via two photon lithography for cell migration studies in Neuroblastoma metastatic dissemination

description: Original manuscript, images and data
DOI: 10.6084/m9.figshare.24593232
title: scopus database-746 articles - 30012023- .xlsx

description: Data extraction from Scopus database for article review in the domain of Supply chain risk management
DOI: 10.6084/m9.figshare.24593181
title: Untitled Item

description: Compiled date
DOI: 10.6084/m9.figshare.24593181.v1
title: Untitled Item

description: Compiled date
DOI: 10.34740/kaggle/dsv/7012532
title: IMDB Adam Sandler Movies
DOI: 10.5281/zenodo.8411988
title: Data for manuscript "Integrated microwave photonic notch filter using a heterogeneously integrated Brillouin and active-silicon photonic circuit"

description: Experimental data and scripts to plot results for manuscript  "Integrated microwave photonic notch filter using a heterogeneously integrated Brillouin and active-silicon photonic circuit"
DOI: 10.25345/c54q7r15m
title: MassIVE MSV000093436 - Streptomyces violaceoruber CT-F61 (sub-fraction)
title: LC-MS analysis of the Actinomycetota Streptomyces violaceoruber CT-F61 sub-fraction, containing prodigiosins.
DOI: 10.6084/m9.figshare.24593264
title: Measuring the economic and societal value of reliability/resilience investments: case studies of islanded communities

description: Large-scale disasters have exposed vulnerabilities in energy systems and interdependent infrastructure, underscoring the importance of proactively mitigating risks to critical infrastructure. This paper focuses on strengthening power system planning by incorporating the costs associated with prolonged and extensive power interruptions to bolster resilience. To achieve this, duration-dependent customer damage functions are developed, capturing the direct, indirect, and societal impacts of power interruptions, ranging from short, localized events to widespread and long-duration ones. The research methodology is applied to three islanded communities facing substantial resilience challenges with limited data availability. Three customer interruption cost surveys are conducted with local electricity customers, yielding valuable insights into duration-dependent customer damage functions for direct, indirect, and monetizable societal costs. Significantly, the power interruption cost estimates derived from these functions vary considerably from those in the contiguous U.S. and even between the different islanded communities, reflecting their distinct hazard profiles and geographical characteristics. In conclusion, this study demonstrates the potential of duration-dependent customer damage functions to enhance power system resilience. It also identifies several areas for further research, paving the way for a more robust and resilient power infrastructure.
DOI: 10.6084/m9.figshare.24593264.v1
title: Measuring the economic and societal value of reliability/resilience investments: case studies of islanded communities

description: Large-scale disasters have exposed vulnerabilities in energy systems and interdependent infrastructure, underscoring the importance of proactively mitigating risks to critical infrastructure. This paper focuses on strengthening power system planning by incorporating the costs associated with prolonged and extensive power interruptions to bolster resilience. To achieve this, duration-dependent customer damage functions are developed, capturing the direct, indirect, and societal impacts of power interruptions, ranging from short, localized events to widespread and long-duration ones. The research methodology is applied to three islanded communities facing substantial resilience challenges with limited data availability. Three customer interruption cost surveys are conducted with local electricity customers, yielding valuable insights into duration-dependent customer damage functions for direct, indirect, and monetizable societal costs. Significantly, the power interruption cost estimates derived from these functions vary considerably from those in the contiguous U.S. and even between the different islanded communities, reflecting their distinct hazard profiles and geographical characteristics. In conclusion, this study demonstrates the potential of duration-dependent customer damage functions to enhance power system resilience. It also identifies several areas for further research, paving the way for a more robust and resilient power infrastructure.
DOI: 10.34770/8bd1-1x14
title: The Attention Schema Theory in an Artificial Neural Network Agent: Controlling Visuospatial Attention Using a Descriptive Model of Attention

description: In the attention schema theory, the brain constructs a model of attention, the attention schema, to aid in the endogenous control of attention. Growing behavioral evidence appears to support this proposal. However, a central question remains: does a controller of attention actually benefit by having access to an attention schema? We constructed an artificial, deep Q-learning, neural network agent that was trained to control a simple form of visuospatial attention, tracking a stimulus with its attention spotlight in order to solve a catch task. The agent was tested with and without access to an attention schema. In both conditions, the agent received sufficient information such that it should, theoretically, be able to learn the task. We found that with an attention schema present, the agent learned to control its attention spotlight and learned the catch task to a high degree of performance. Once the agent learned, if the attention schema was disabled, the agent could no longer perform effectively. If the attention schema was removed before learning began, the agent was drastically impaired at learning. The results show how the presence of even a simple attention schema provides a profound benefit to a controller of attention. We interpret these results as supporting the central argument of AST: the brain evolved an attention schema because of its practical benefit in the endogenous control of attention. Download the README.txt file for a detailed description of this dataset's content This dataset contains csv files containing the results of three experiments described in the related manuscript as well as the python scripts used to build the model and run the experiments.
DOI: 10.5281/zenodo.10161309
title: Paired Δ47-Δ48 measurements constrain different sources of kinetic isotope effects and frequent quasi-equilibrium signatures in cave carbonates

description: Isotopic replicate data for standards and samples.
DOI: 10.5281/zenodo.8350681
title: Paired Δ47-Δ48 measurements constrain different sources of kinetic isotope effects and frequent quasi-equilibrium signatures in cave carbonates

description: Isotopic replicate data for standards and samples.
DOI: 10.48577/jpl.ti9ibt
title: Imaging, modelfitting and source structure corrections for the K-band (24 GHz) Celestial Reference Frame

description: Imaging, modelfitting and source structure corrections for the K-band (24 GHz) Celestial Reference Frame
DOI: 10.5281/zenodo.10146631
title: Supplementary Data for Stabilizing the Proteomes of Acute Myeloid Leukemia Cells: Implications for Cancer Proteomics

description: Supplementary data for: Stabilizing the Proteomes of Acute Myeloid Leukemia Cells: Implications for Cancer ProteomicsAuthors: Robert Sprung, Qiang Zhang, Michael H. Kramer, Matthew C. Christopher, Petra Erdmann-Gilmore, Yiling Mi, James P. Malone, Timothy J. Ley, and R. Reid Townsend.
Table S1 - AML Case descriptors and LC-MS data filesTable S2 - All Peptides by Case -LFQTable S3 - Identification of tryptic and non-tryptic peptides from five AML cases with high and low expression of ELANETable S4 - Number of proteins identified by LFQ proteomics with a minimum of 2 tryptic peptidesTable S5 - DFP Adduct Database Search Tryptic PeptidesTable S6 - Protein quantification from TMT 11-plex tryptic peptides with and without DFPTable S7 - Tryptic peptides used for protein quantification from TMT 11-plex with and without DFPTable S8 - Changes in TMT relative abund. with DFP treatmentTable S9 - Protein quantification from LFQ tryptic peptides with and without DFPTable S10 - Proteins with significant change in abundance with DFP treatment using Label-Free Quantitation
DOI: 10.5281/zenodo.10146632
title: Supplementary Data for Stabilizing the Proteomes of Acute Myeloid Leukemia Cells: Implications for Cancer Proteomics

description: Supplementary data for: Stabilizing the Proteomes of Acute Myeloid Leukemia Cells: Implications for Cancer ProteomicsAuthors: Robert Sprung, Qiang Zhang, Michael H. Kramer, Matthew C. Christopher, Petra Erdmann-Gilmore, Yiling Mi, James P. Malone, Timothy J. Ley, and R. Reid Townsend.
Table S1 - AML Case descriptors and LC-MS data filesTable S2 - All Peptides by Case -LFQTable S3 - Identification of tryptic and non-tryptic peptides from five AML cases with high and low expression of ELANETable S4 - Number of proteins identified by LFQ proteomics with a minimum of 2 tryptic peptidesTable S5 - DFP Adduct Database Search Tryptic PeptidesTable S6 - Protein quantification from TMT 11-plex tryptic peptides with and without DFPTable S7 - Tryptic peptides used for protein quantification from TMT 11-plex with and without DFPTable S8 - Changes in TMT relative abund. with DFP treatmentTable S9 - Protein quantification from LFQ tryptic peptides with and without DFPTable S10 - Proteins with significant change in abundance with DFP treatment using Label-Free Quantitation
DOI: 10.6084/m9.figshare.22680646.v6
title: Formato para Programa Analítico (actualizado 26-10-2023)

description: Un formato personal del Programa Analítico de Estudio, acorde al Plan de Estudio 2022.
DOI: 10.6084/m9.figshare.21603033.v2
title: Inhibition of mitochondrial complex III or dihydroorotate dehydrogenase (DHODH) triggers formation of poly(A)<sup>+</sup> RNA foci adjacent to nuclear speckles following activation of ATM (ataxia telangiectasia mutated)

description: Intracellular and intercellular signalling networks play an essential role in optimizing cellular homoeostasis and are thought to be partly reflected in nuclear mRNA dynamics. However, the regulation of nuclear mRNA dynamics by intracellular and intercellular signals remains largely unexplored, and research tools are lacking. Through an original screening based on the mRNA metabolic mechanism, we discovered that eight well-known inhibitors cause significant nuclear poly(A)<sup>+</sup> RNA accumulation. Among these inhibitors, we discovered a new mRNA metabolic response in which the addition of antimycin A, an inhibitor of mitochondrial respiratory-chain complex III (complex III), resulted in a marked accumulation of poly(A)<sup>+</sup> RNA near the nuclear speckles. Furthermore, dihydroorotate dehydrogenase (DHODH) inhibitors, a rate-limiting enzyme in the intracellular <i>de novo</i> pyrimidine synthesis reaction that specifically exchanges electrons with complex III, also caused a remarkable accumulation of nuclear poly(A)<sup>+</sup> RNA adjacent to the nuclear speckles, which was abolished by extracellular uridine supply, indicating that the depletion of intracellular pyrimidine affects poly(A)<sup>+</sup> RNA metabolism. Further analysis revealed that ataxia telangiectasia mutated (ATM), a serine and threonine kinase and a master regulator of DNA double-strand break (DSB) and nucleolar stress, is required for this poly(A)<sup>+</sup> RNA nuclear accumulation phenomenon. This study reports new insights into novel aspects of nuclear poly(A)<sup>+</sup> RNA metabolism, especially the relationship between mitochondrial respiratory-chain functions, pyrimidine metabolism, and nuclear RNA metabolism.
DOI: 10.6084/m9.figshare.21665289.v1
title: Characterization of protein isoform diversity in human umbilical vein endothelial cells via long-read proteogenomics

description: Endothelial cells (ECs) comprise the lumenal lining of all blood vessels and are critical for the functioning of the cardiovascular system. Their phenotypes can be modulated by alternative splicing of RNA to produce distinct protein isoforms. To characterize the RNA and protein isoform landscape within ECs, we applied a long read proteogenomics approach to analyse human umbilical vein endothelial cells (HUVECs). Transcripts delineated from PacBio sequencing serve as the basis for a sample-specific protein database used for downstream mass-spectrometry (MS) analysis to infer protein isoform expression. We detected 53,863 transcript isoforms from 10,426 genes, with 22,195 of those transcripts being novel. Furthermore, the predominant isoform in HUVECs does not correspond with the accepted “reference isoform” 25% of the time, with vascular pathway-related genes among this group. We found 2,597 protein isoforms supported through unique peptides, with an additional 2,280 isoforms nominated upon incorporation of long-read transcript evidence. We characterized a novel alternative acceptor for endothelial-related gene CDH5, suggesting potential changes in its associated signalling pathways. Finally, we identified novel protein isoforms arising from a diversity of RNA splicing mechanisms supported by uniquely mapped novel peptides. Our results represent a high-resolution atlas of known and novel isoforms of potential relevance to endothelial phenotypes and function.
DOI: 10.6084/m9.figshare.22680646
title: Formato para Programa Analítico (actualizado 16-11-2023)

description: Un formato personal del Programa Analítico de Estudio, acorde al Plan de Estudio 2022.
DOI: 10.6084/m9.figshare.22680646.v7
title: Formato para Programa Analítico (actualizado 26-10-2023)

description: Un formato personal del Programa Analítico de Estudio, acorde al Plan de Estudio 2022.
DOI: 10.5281/zenodo.10150951
title: Estimation of auto-covariance of log hydraulic conductivity from Generalized Sub-Gaussian porosity and particle size random fields: Dataset

description: Dataset of d10 analyzed in section 4.
DOI: 10.5281/zenodo.10150952
title: Estimation of auto-covariance of log hydraulic conductivity from Generalized Sub-Gaussian porosity and particle size random fields: Dataset

description: Dataset of d10 analyzed in section 4.
DOI: 10.5281/zenodo.10137062
title: North Carolina Outer Banks, USA Coastal Foredune Sediment Cores - Grain Size Data & Core Log Descriptions

description: This repository includes sediment core data collected at seven sites along the northern Outer Banks, North Carolina, USA. From north to south, the sites include Pine Island, Corolla Reserve, Duck, the US Army Corps of Engineers Field Research Facility (FRF) North, FRF South, Southern Shores (i.e., Hillcrest Beach Access), and Nags Head (Bonnett St. Beach Access).
At each site, internal dune sedimentology and stratigraphy were characterized using sediment vibracores, each 1.5–2.2 m long, collected along a cross-shore transect from the dune toe to the dune heel. Coring locations were selected based on dune morphology to capture the stratigraphy of the dune toe, stoss slope, primary dune crest, lee slope, swale, and secondary dune crest, as applicable. Sediment core locations were documented using RTK-GPS and are included in the .kmz file.
All sediment cores were split, photographed, described for sedimentary structures, texture (as compared to standards), mineralogy, and color (Munsell, 2012). Sediment cores were described using the Modified Burmister System in 10-cm intervals, with additional intervals added as needed to capture stratigraphic units with thicknesses less than 10 cm but greater than 1 cm. Sediment core log descriptions are included in the NOAA_NCDunes_Vibracore_CoreLogs.xlsx data file.
Sediment size and shape were analyzed from oven-dried samples using a CAMSIZERX2Ⓡ. These data are included in the Dune_Grain_Size_camsizer_outputs.csv data file. Metrics reported for each sample include the following: Site, Core ID, Sample Number, Depth (cm below ground surface), Elevation (m, NAVD88), D2 (mm), D5 (mm), D10 (mm), D16 (mm), D25 (mm), D50 (mm), D75 (mm), D84 (mm), D90 (mm), D95 (mm), D98 (mm), average grain symmetry, average grain sphericity, average grain aspect ratio, percent pebble, percent granule, percent very coarse sand, percent coarse sand, percent medium sand, percent fine sand, percent very fine sand, and percent silt.
More details regarding these measurements can be found in the following manuscript:
Davis, E.H., Hein, C.J., Cohn, N., White, A.E., Zinnert, J.C. Differences in internal sedimentologic and biotic structure between natural, managed, and constructed coastal foredunes (in review).
DOI: 10.60863/sf/xfn6qi
title: Prevalence of generalized joint hypermobility, musculoskeletal injuries, and chronic musculoskeletal pain among American university students

description: The objective of this study was to investigate the prevalence of generalized joint hypermobility (GJH) in a university-aged population, whether young adults (aged 18–25 years) with GJH are prone to sustain more musculoskeletal injuries, and are more likely to suffer from chronic musculoskeletal pain. The study used an interactive survey to gather data; GJH was assessed using a cut-off Beighton score of ≥5 in accordance with the 2017 International Classification of EDS criteria. The analyzed sample consisted of 482 female and 172 male participants from Florida Gulf Coast University (USA). The prevalence of GJH in a university-aged population can be estimated at 12.5%. Women did not have higher rates of GJH than men. However, female participants showed significantly higher rates of hypermobility of the spine as well as the right knee and elbow joints. The Beighton scores did not differ by ethnicity/race. Female participants had a lower rate of self-reported injuries than male participants, although this difference was not significant. There was no difference in the proportion of all participants classified within different categories (0; 1–4; 5–9) of Beighton scores and whether or not they reported having been injured. Male and female participants reported chronic pain of joints and neck or back at the same rates across the Beighton score categories. Female participants, however, reported higher pain intensity for chronic neck and back pain. This study increases knowledge about a correlation between GJH, musculoskeletal injuries, and chronic pain of joints, neck, and back in a university-aged population.
DOI: 10.5281/zenodo.8036928
title: Supporting data for Bryłka et al., 2023 Gene duplication, shifting selection, and functional diversification of silicon transporter proteins in marine and freshwater diatoms.

description: These are supporting files used in the analysis in Bryłka et al., 2023 "Gene duplication, shifting selection, and functional diversification of silicon transporter proteins in marine and freshwater diatoms".  All data newly generated from the Alverson lab.


 
description: This work was supported by the National Science Foundation (DEB 1651087). This research used resources available through the Arkansas High-Performance Computing Center, funded through multiple NSF grants and the Arkansas Economic Development Commission. Additionally, this work was supported by a grant from the Simons Foundation (725407, EP), the European Research Council (ERC) grant under the European Union's Horizon 2020 Research and Innovation Programme (Grant agreement No. 833454), and a grant from the Knut and Alice Wallenberg Foundation to Daniel J. Conley.
DOI: 10.5281/zenodo.8036929
title: Supporting data for Bryłka et al., 2023 Gene duplication, shifting selection, and functional diversification of silicon transporter proteins in marine and freshwater diatoms.

description: These are supporting files used in the analysis in Bryłka et al., 2023 "Gene duplication, shifting selection, and functional diversification of silicon transporter proteins in marine and freshwater diatoms".  All data newly generated from the Alverson lab.


 
description: This work was supported by the National Science Foundation (DEB 1651087). This research used resources available through the Arkansas High-Performance Computing Center, funded through multiple NSF grants and the Arkansas Economic Development Commission. Additionally, this work was supported by a grant from the Simons Foundation (725407, EP), the European Research Council (ERC) grant under the European Union's Horizon 2020 Research and Innovation Programme (Grant agreement No. 833454), and a grant from the Knut and Alice Wallenberg Foundation to Daniel J. Conley.
DOI: 10.5281/zenodo.10150674
title: The data behind the ApJ article "Environmental Dependence of Type Ia Supernovae in Low-Redshift Galaxy Clusters"

description: Data from "Environmental Dependence of Type Ia Supernovae in Low-Redshift Galaxy Clusters", NASA ADS
inner_cluster_data.csv and outer_cluster_data.csv include the SALT3 mB, x1, and c parameter values, distance moduli and Hubble residuals (with _1 referring to Figure 9 and _2 referring to Figure 10), outlier designation from MCMC procedure, host cluster, host cluster redshift (with Hubble diagram version converted to frame of CMB), host cluster r500, projected separation from cluster center, NED Host galaxy name, photometrically-derived estimate for host mass, host or SN redshift used in analysis, and the Host SFR category (Q: quiescent, SF: star-forming, GV: green valley) for our cluster SNe Ia.
sf_field.csv and quiescent_field.csv contain SALT parameter values, distance moduli and Hubble residuals (from Figure 10), host galaxy sSFR and mass measurements, and host redshifts (all spectroscopic, also with Hubble diagram converted values) for SNe Ia in our field samples.
full_cluster.csv contains the data from the table in the appendix of the paper.
The inner_cluster_/outer_cluster_mcmc_samples.csv files contain the samples needed to reproduce the corner plot for Figure 10.
The Python scripts recreate the figures from the paper given the above data. The details for which columns and constraints needed to reproduce the figures are included in these files.