cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.uwbfsh
title: Occurrence Download

description: A dataset containing 5378 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Robinia hispida L."
 ]
}

 The dataset includes 5378 records from 244 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013896-240425142415019/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15485/2457125
title: Model code and data: biomass allocation adjustments induced by elevated CO2 and warming in a C3 brackish marsh, 2017-2022, Maryland

description: This dataset and R script accompany the published paper Bruns et al. (2024) in Geophysical Research Letters. The data are from the first six years of a field manipulation of whole-ecosystem warming and elevated CO2 experiment (Salt Marsh Accretion Response to Temperature eXperiment, or SMARTX) in the Smithsonian's Global Change Research Wetland (GCReW), a brackish, microtidal wetland site on a subestuary of the Chesapeake Bay. These data were generated to understand how warming and elevated CO2 interact to structure ecosystem-level responses to global change, particularly in terms of carbon sequestration. The dataset covers 2017-2022 and includes peak annual above ground biomass, annual belowground fine root productivity, and porewater NH4 for each experimental plot. The overall experiment is replicated in two locations on the marsh, a lower elevation zone dominated the C3 sedge S. Americanus and a higher elevation plot dominated by the C4 species. This paper and its data release is only for the C3 plot. Variable descriptions for data file is available in variable_descriptions.pdf. The R script Bruns_et_al_2024_GRL_make_figures.Rmd contains model code and other scripts used to generate all paper figures.
DOI: 10.17632/djct7xzwk4.1
title: Sedation in EEG

description: RCT comparing triclofos, melatonin and placebo for successful sleep EEG
DOI: 10.18462/iir.iccc2022.1129
title: Determination of the initial freezing temperature of foods.
DOI: 10.48670/moi-00299
title: Mediterranean Sea, Bio-Geo-Chemical, L3, daily Satellite Observations (1997-ongoing)
DOI: 10.5067/45t7k120bj2s
title: NLDAS VIC Land Surface Model L4 Hourly 0.125 x 0.125 degree V2.0
DOI: 10.5067/8e4vlck16o6q
title: OCO-2 Level 2 bias-corrected XCO2 and other select fields from the full-physics retrieval aggregated as daily files, Retrospective processing V11.1r
DOI: 10.5067/measures/gpcp/data305
title: GPCP Precipitation Level 3 Daily 0.5-Degree V3.2
DOI: 10.5067/t4ow83t8exdo
title: NLDAS Noah Land Surface Model L4 Hourly 0.125 x 0.125 degree V2.0
DOI: 10.5067/xo2lbbnpo010
title: OCO-2 Level 2 bias-corrected solar-induced fluorescence and other select fields from the IMAP-DOAS algorithm aggregated as daily files, Retrospective processing V10r
DOI: 10.5281/zenodo.10521291
title: Evaluation of Mesoscale Convective Systems in High Resolution E3SMv2

description: This is the open data resource for the paper "Mesoscale Convective Systems Represented in High Resolution E3SMv2 and Impact of New Cloud and Convection Parameterizations" that submitted to the Journal of Geophysical Research: Atmospheres.
DOI: 10.5281/zenodo.10655350
title: X-SHiELD model verification figures, related to: "The Precipitation Response to Warming and CO$_2$ Increase: A Comparison of a Global Storm Resolving Model and CMIP6 Models"

description: Figures comparing differrent fields in X-SHiELD with observations. Similar information can be recived at https://extranet.gfdl.noaa.gov/%7EAlex.Kaltenbaugh/verification/
DOI: 10.5281/zenodo.10939276
title: Supporting Data for "Climate Sensitivity and Relative Humidity Changes in Global Storm-Resolving Model Simulations of Climate Change"

description: Code and netcdf files of processed X-SHiELD and CMIP6 simulations to reproduce the figures of Timothy M. Merlis, Kai-Yuan Cheng, Ilai Guendelman, Lucas Harris, Christopher S. Bretherton, Maximilien Bolot, Linjiong Zhou, Alex Kaltenbaugh, Spencer K. Clark, Gabriel A. Vecchi, and Stephan Fueglistaler (2024): "Climate Sensitivity and Relative Humidity Changes in Global Storm-Resolving Model Simulations of Climate Change".
DOI: 10.5281/zenodo.10998663
title: Supporting data for "Shallow convective heating in weak temperature gradient balance explains mesoscale vertical motions in the trades" (previously for ch. 5 of "Mesoscale Cloud Patterns in the Trade-Wind Boundary Layer")

description: This contains both the data and scripts required to produce the figures in the preprint "Shallow convective heating in weak temperature gradient balance explains mesoscale vertical motions in the trades". The scripts labeled 1-5 produce the main figures; the other scripts produce supporting data or figures.

Earlier versions of this dataset contained the scripts and data supporting Ch. 5 of the PhD thesis "Mesoscale Cloud Patterns in the Trade-Wind Boundary Layer". The scripts labeled 1-5 produce the main figures; the other scripts produce either the underlying data, or supporting figures (prefix S).
DOI: 10.5281/zenodo.11258239
title: Tumor multi-omics profiles and clinical information employed in TMO-Net research

description: This dataset includes tumor multi-omics profiles used in TMO-Net research. The preprocessed TCGA pan-cancer multi-omics were employed during pre-training stage of TMO-Net. The metabric multi-omics dataset, metastatistic tumor multi-omics dataset, PDX cell line multi-omics dataset, GDSC cell line multi-omice dataset, CPTAC cancer multi-omics dataset and metastatic dataset were used for downstream tasks and analysis.
DOI: 10.5281/zenodo.12193890
title: An annotated high-content fluorescence microscopy dataset with EGFP-Galectin-3-stained cells and manually labelled outlines

description: Here we present a benchmarking dataset of fluorescence microscopy images with EGFP-Galectin-3-stained cells together with annotations of their outlines. Images were randomly selected from an RNA interference screen with a modified U2OS osteosarcoma cell line, acquired on a Thermo Fischer CX7 high-content imaging system at 20x magnification. 

The dataset contains 60 images showing over 2000 labelled nuclear objects in total, which is sufficiently large to train well-performing neural networks for instance or semantic segmentation. It is pre-split into training, development and test set, each in a zip file. The dataset should be referred to as Aitslab_bioimaging2.

For most of the images, nuclear staining and annotations have been published previously in the dataset Aitslab_bioimaging1 (https://doi.org/10.5281/zenodo.6657260). The conversion script to produce the png images from the C01 images was published together with this dataset.
DOI: 10.5281/zenodo.4326602
title: Processed TCGA BRCA and METABRIC datasets used in the Moanna manuscript

description: This dataset consists of the processed multi-omics data and clinical labels used for training and evaluating Moanna (https://github.com/rlupat/moanna). This dataset is processed based on raw files downloaded from cbioportal. (training) http://download.cbioportal.org/brca_metabric.tar.gz (testing) http://download.cbioportal.org/brca_tcga_pan_can_atlas_2018.tar.gz
description: {"references": ["Curtis, C., et al., The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups. Nature, 2012. 486(7403): p. 346-52.", "Pereira, B., et al., The somatic mutation profiles of 2,433 breast cancers refine their genomic and transcriptomic landscapes. Nature Communications, 2016. 7(1): p. 11479.", "The Cancer Genome Atlas Research Network, Comprehensive molecular portraits of human breast tumours. Nature, 2012. 490(7418): p. 61-70.", "Ciriello, G., et al., Comprehensive Molecular Portraits of Invasive Lobular Breast Cancer. Cell, 2015. 163(2): p. 506-19.", "Cerami, E., et al., The cBio cancer genomics portal: an open platform for exploring multidimensional cancer genomics data. Cancer Discov, 2012. 2(5): p. 401-4.", "Gao, J., et al., Integrative analysis of complex cancer genomics and clinical profiles using the cBioPortal. Sci Signal, 2013. 6(269): p. pl1."]}
DOI: 10.5281/zenodo.5929839
title: SIA-BRA: The carbon and nitrogen stable isotope ratios of animals of Brazilian biomes and coastal marine areas

description: SIA-BRA is a compilation of C and N stable isotope ratios of terrestrial and aquatic animals sampled in Brazilian biomes and coastal-marine areas. Version 1.0 contains isotopic data of c. 21,804 non-captive wildlife specimens, excluding livestock production or laboratory<br> experiments. They were 13,881 vertebrates and 7,923 invertebrates. There are 11 phyla, with a clear dominance of Chordata (64%) and Arthropoda (29%), 36 classes, 154 orders, 473 families, 894 genera and 1,157 species. They were divided into the following habitats: terrestrial (30% of the total), freshwater (27%), oceanic (40%)<br> and estuarine (4%) (see https://doi.org/10.1111/geb.13449) Software format: Data are supplied as delimited text files (.csv).
description: For data use, please contact us.
DOI: 10.5439/1228768
title: KAZRARSCL-All-inclusive data stream

description: The KAZR-ARSCL VAP provides cloud boundaries and best-estimate time-height fields of radar moments. The VAP merges corrected KAZR moments from all active radar modes with cloud base and cloud mask observations from the micropulse lidar (MPL), cloud base from the ceilometer, as well information from soundings, rain gauge, and microwave radiometer instruments to produce two data streams, one with best-estimate cloud base and cloud layer boundaries, and another which also includes best-estimate time-height fields of radar moments. This DOI is for the data stream that contains all variables produced by the VAP.
DOI: 10.5441/001/1.v8r49083
title: Data from: Study "Full annual cycle tracking of Far Eastern Curlew (Numenius madagascariensis)"

description: Migratory connectivity describes the extent to which migratory species' populations are connected throughout the annual cycle. While recognized as critical for understanding the population dynamics of migratory species and conserving them, empirical evidence of links between migratory connectivity and population dynamics are uncommon. We analyzed associations between spatiotemporal connectivity and differential population trends in a declining and endangered migratory shorebird, the far eastern curlew (Numenius madagascariensis), with multiyear tracking data from across the Australian nonbreeding grounds. We found evidence of temporal and spatial segregation during migration and breeding: curlew from southeast Australia initiated northward migration earlier, arrived at breeding sites earlier, and bred at lower latitudes than curlew from northwest Australia. Analysis of land modification intensity revealed that populations from southeast Australia face greater human impacts compared to those from northwest Australia at both the breeding and nonbreeding grounds, a pattern that aligns with steeper population declines in southeast Australia. This alignment between migratory connectivity, human impacts, and differential population change highlights the importance of a full annual cycle approach to conservation that includes mitigating threats on the breeding grounds and better protecting nonbreeding habitats in Australia where far eastern curlew spend over half of each year.
DOI: 10.6084/m9.figshare.25881025
title: A Database of Stress-Strain Properties Auto-generated from the Scientific Literature using ChemDataExtractor

description: This is a companion repository for a paper published in Scientific Data with the title and authors given above, whose abstract is below:<br>There has been an ongoing need for information-rich databases in the mechanical-engineering domain to aid in data-driven materials science. To address the lack of suitable property databases, this study employs the latest version of the chemistry-aware natural-language-processing (NLP) toolkit, ChemDataExtractor, to automatically curate a comprehensive materials database of key stress-strain properties. The database contains information about materials and their cognate properties: ultimate tensile strength, yield strength, fracture strength, Young’s modulus, and ductility values. 720,308 data records were extracted from the scientific literature and organized into machine-readable databases formats. The extracted data have an overall precision, recall and F-score of 82.03%, 92.13% and 86.79%, respectively. The resulting database has been made publicly available, aiming to facilitate data-driven research and accelerate advancements within the mechanical-engineering domain.
DOI: 10.6084/m9.figshare.27627324.v1
title: PRISMA checklist

description: This article explores the determinants of consumption of geographical indication agricultural products through a ten-year systematic review study. In recent years, the demand for healthier and safer products from consumers has been continuously increasing due to the influence of the experience of geographical indication agricultural products. Geographical indication products, as a type of label that associates food with specific regions, occupy a certain position in the global food market. This article aims to answer research questions about the determinants of consumption of geographical indication agricultural products and provide a comparative analysis of five literature reviews related to this topic. We collected and processed relevant research data through a systematic literature review method, and provided transparent, complete, and accurate explanations using the PRISMA criterion. The research results reveal the consumer response to geographical indication agricultural products and the determining factors of different responses. The research in this article is of great significance for understanding the consumption trends and important information of geographical indication agricultural products, helping enterprises better understand consumer behavior, and improving the income of farmers, producers, and enterprises.
DOI: 10.6084/m9.figshare.27894327
title: Supplementary Material for: Global trends and hotspots in the association between chronic kidney disease and cardiovascular diseases: a bibliometric analysis from 2010 to 2023

description: Introduction 
This study endeavors to evaluate the distribution patterns and research frontiers within the international literature on the association between chronic kidney disease and cardiovascular diseases in the medical field, through bibliometric analysis and visualized information.

Methods 
The Web of Science Core Collection database was selected as the data source from 2010 to 2023, and articles related to the association between chronic kidney disease and cardiovascular diseases were retrieved. The article data was analyzed through CiteSpace for bibliometric mapping, involving the examination of keywords, references, country/region distributions, and institutional contributions to identify and understand the evolving research dynamics and frontiers in this interdisciplinary field.

Results
A total of 2936 publications on the association between chronic kidney disease and cardiovascular diseases were included. The country with the most publications was USA (n=904), and the institution with the most publications was University of Pennsylvania (n=116). The most frequent keywords were chronic kidney disease (n=2194), cardiovascular disease (n=1188), and mortality (n=604). The top 20 keywords and top ten references that burst during 2010 to 2023 were listed. 

Conclusion 
The association between chronic kidney disease and cardiovascular diseases has sparked extensive research, particularly in high-prevalence areas. From 2010 to 2023, publications on the association between chronic kidney disease and cardiovascular diseases show a linear increase. Current research hotspots and frontiers are mainly in cardiovascular-kidney-metabolic syndrome; innovative therapies and drug impact; gut microbiome; mendelian randomization analysis. Overall, our study offers a comprehensive scientometric analysis of the association between chronic kidney disease and cardiovascular diseases, providing valuable insights for both researchers and healthcare professionals in the field.
DOI: 10.13026/dp1f-ex47
title: MIMIC-IV Clinical Database Demo

description: The Medical Information Mart for Intensive Care (MIMIC)-IV database is
comprised of deidentified electronic health records for patients admitted to
the Beth Israel Deaconess Medical Center. Access to MIMIC-IV is limited to
credentialed users. Here, we have provided an openly-available demo of MIMIC-
IV containing a subset of 100 patients. The dataset includes similar content
to MIMIC-IV, but excludes free-text clinical notes. The demo may be useful for
running workshops and for assessing whether the MIMIC-IV is appropriate for a
study before making an access request.
DOI: 10.15121/1593283
title: EGS Collab Testbed 1: Second Set Tracer Test Results

description: The EGS Collab project is developing ~10-20 m-scale field sites where fracture stimulation and flow models can be validated against controlled, small-scale, in-situ experiments. The first multi-well experimental site was established at the 4850 level in the Homestake Mine in Lead, South Dakota, where hydraulic fractures were created at an injection well drilled sub-horizontal from the drift. This file contains the second set of tracer data (also include the data uploaded previously, https://gdr.openei.org/submissions/1128) for the EGS Collab testbed. The tracer tests were conducted during October 2018 - November 2019. Injected tracers include DNA, C-dots (fluorescein nano particles), fluorescein, rhodamine-b, sodium chloride, lithium bromide and cesium iodine. The tracers have been detected in three flowing wells located about 7.5 to 9 meters away from the injection interval. The tracer breakthrough curves from these locations have been adjusted to account for the residence time in the injection and production tubing. The details about the tracer test can be found in Background and Methods of Tracer Tests (Mattson et al. (2019,a,b)) (also included in this package). References Mattson, E.D., Neupane, G., Plummer, M.A., Hawkins, A., Zhang, Y. and the EGS Collab Team 2019a. Preliminary Collab fracture characterization results from flow and tracer testing efforts. In Proceedings 44th Workshop on Geothermal Reservoir Engineering, edited, Stanford University, Stanford, California. Mattson, E.D., Neupane, G., Hawkins, A., Burghardt, J., Ingraham, M., Plummer, M., and the EGS Collab Team, 2019b. Fracture tracer injection response to pressure perturbations at an injection well. GRC Transactions, Vol. 43, 2019. Neupane, Ghanashyam, Earl Mattson, Adam Hawkins, Mitchell Plummer, and Yuran Zhang. EGS Collab Testbed 1: Tracer data sets. No. 1128. DOE Geothermal Data Repository; Idaho National Laboratory, 2019.
DOI: 10.15485/1836833
title: 2018 Meander C floodplain groundwater chemistry from the East River Watershed, Colorado

description: This dataset includes groundwater geochemistry data from floodplain piezometers collected as a part of the Watershed Function Scientific Focus Area (SFA) located in the Upper Colorado River Basin. The data were collected in order to investigate the role of hyporheic exchange and other river corridor processes on riverine export of solutes. Floodplain piezometers installed along two transects across Meander C in the Pumphouse vicinity (MCP and MCB wells) were sampled on daily to weekly time scales during summer-fall 2018. Some river water grab samples are also included. Data includes in-field measurements (pH, electrical conductivity [EC], oxidation reduction potential [ORP], dissolved oxygen [DO], Fe(II), and groundwater level) along with laboratory measurements (dissolved inorganic carbon [DIC], dissolved organic carbon [DOC], metals and major cations, anions [chloride, sulfate, nitrate], and dissolved ammonium). Five files are included in this dataset, including: sample locations and depths in both a kmz file which can be opened in Google Earth and a csv file, sampling protocol as a pdf document, aqueous geochemistry data in a csv file, and analytical detection limits in a csv file.
DOI: 10.15485/1958211
title: Meteorological, reference evapotranspiration and estimated transpiration data, July 2020-Dec 2021, Slate River Floodplain, Crested Butte, Colorado

description: This data package includes a time series of meteorological data (air temperature, relative humidity, barometric pressure, precipitation, wind speed, soil heat flux, incoming shortwave radiation, incoming longwave radiation, outgoing shortwave radiation and outgoing longwave radiation) from the Slate River floodplain outside Crested Butte, Colorado, a focus field site for the SLAC Floodplain Hydro-Biogeochemistry SFA. The data was generated as part of the work targeting the overarching research question for the SLAC SFA: How do ubiquitous subsurface interfaces mediate molecular-scale biogeochemical processes and groundwater quality in floodplains and watersheds? The package also includes reference evapotranspiration calculated via the Penman-Monteith equation and an estimate of willow (Salix spp.) evapotranspiration using the method of Irmak et al., J. Hydrology, 2013. Due to two malfunctioning sensors (incoming shortwave radiation from Oct 2020-May 2021 and incoming longwave radiation from May 2021-March 2022), observed net radiation and calculated evapotranspiration are only included from July-October 2020. However, users may be able to extend calculated evapotranspiration using estimates of these two parameters from other sources. Both sensors have been replaced and data beyond 2021 be uploaded to this repository when it is available.Within the data package, "FLMD.csv" describes file-level metadata and "dd.csv" defines column headers and universal terms across the dataset. The data package includes 3 "*data.csv" files, two for meteorological data for 2020 and 2021 and one for reference evapotranspiration and transpiration data from 2020 ("SLT_OBJ2_PenmanMonteith_2020_data.csv"). Each "*data.csv" file of meteorological data has a corresponding "*_InstallationMethods.csv" file that describes the location, sensor model, sensor serial number and other metadata corresponding to each measured parameter. We also include a Jupyter notebook ("PenmanMonteithET_Calculations.ipynb") that details the assumptions and equations used to calculate daily and hourly reference evapotranspiration and daily willow transpiration from raw meteorological data.
DOI: 10.1594/pangaea.872931
title: A comprehensive, quality-controlled and up-to-date data set of temperature and salinity data for the Arctic Mediterranean Sea (Version 1.0), links to data files

description: UDASH is a unified and high-quality temperature and salinity data set for the Arctic Ocean and the subpolar seas north of 65° N for the period 1980-2015. The archive aims at including all publicly available data and so far consists of 288 532 oceanographic profiles measured mainly with conductivity/temperature/depth (CTD) probes, bottles, mechanical thermographs and expendable thermographs. The data were collected by ships, ice-tethered profilers, profiling floats and other platforms. To achieve 5 a uniform quality level, suitable for a wide range of oceanographic analyses, approximately 74 million single measurements of temperature and salinity were thoroughly quality-checked. A large number of duplicate and erroneous profiles were detected and not included into the archive. Data outliers, suspicious gradients and other suspect data were flagged for quick identification. The final archive provides a unique and simple way of accessing most of the available temperature and salinity data for the Arctic Mediterranean Sea.
description: PLEASE NOTE: Data files are space-delimited
description: Supplement to: Behrendt, Axel; Sumata, Hiroshi; Rabe, Benjamin; Schauer, Ursula (2017): UDASH - Unified Database for Arctic and Subarctic Hydrography. Earth System Science Data Discussions, 37 pp