cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.3886/e187483v1
title: Code and Data for: Measuring Upward Mobility

description: <pre>We conceptualize and measure upward mobility over income or wealth. <br>At the core of our exercise is the Growth Progressivity Axiom: transfers of instantaneous growth rates from relatively rich to poor individuals increases upward mobility. This axiom, along with mild auxiliary restrictions, identifies an ``upward mobility kernel" with a single free parameter, in which mobility is linear in individual growth rates, with geometrically declining weights on baseline incomes. We extend this kernel to trajectories over intervals. <br>The analysis delivers an upward mobility index that does not rely on panel data. That significantly expands our analytical scope to data-poor settings.</pre><br>
DOI: 10.5066/p9m00p17
title: North American Grid-Based Sampling Frame

description: This sampling frame is a set of grid-based finite-area frames spanning Canada, the United States, and Mexico. The grid for the United States is broken into individual grids for the continental United States, Hawaii, and Puerto Rico. Alaska is combined with Canada into a single grid. Each country/state/territory extent consists of four nested sampling grids at 50x50km, 10x10km, 5x5km, and 1x1km resolutions. The original 10x10km continental United States grid was developed by the Forest Service, U.S. Department of Agriculture for use in the interagency &quot;Bat Grid&quot; monitoring program in the Pacific Northwest and was expanded across Canada, the United States, and Mexico for the North American Bat Monitoring Program (NABat). Additional grids for Hawaii and Puerto Rico were created for this data release.
DOI: 10.5066/p9rbxumd
title: Stable Isotopic Data (Delta13C and Delta2H) for Reference Materials HCG-1, HCG-2, and HCG-3

description: Stable carbon and hydrogen isotopic data generated by off-line preparation and dual inlet mass spectrometric analysis used the determine the recommended values for the reference materials HCG-1, HCG-2, and HCG-3.
DOI: 10.5281/zenodo.10611074
title: Plant-herbivorous-insect-incidence-matrix Mediterranean Mixed Forest

description: Datasets for the presence/absence of sucking and chewing insects associated to dominant woody species from the Medirranean mixed forest.
DOI: 10.5281/zenodo.10729511
title: Dataset: Coupling of saccade plans to endogenous attention during urgent choices

description: This dataset (packaged as the zip file datashare.zip) accompanies the article titled "Coupling of saccade plans to endogenous attention during urgent choices" by AT Goldstein, TR Stanford, and E Salinas, which is available as a preprint in bioRxiv. The experimental results in the paper are based on behavioral data collected from 18 human participants during performance of a visuomotor task (the endogenously driven pro/antisaccade task), as described in the article. This dataset contains the trial-by-trial results collected for each participant and upon which all subsequent analyses were based.

In addition to the trial-wise data array (stored in the file epa_trials.csv), the package includes Matlab functions and scripts (*.m files) used to analyze the data and recreate the results and figures in the article. Instructions and specifics are detailed in the README file.
DOI: 10.5281/zenodo.11519985
title: Raw data and simulation input file for friction experiment "crack28" performed at Geoazur on 2023/06/30.
title: Open acces data for article "what happen when two rupture collide"
DOI: 10.5281/zenodo.11582731
title: 2017 Gradients 2 - MGL 1704 Particulate Macromolecules

description: Measurements of ocean surface particulate macromolecule concentrations that ware made as part of the Simons Collaboration on Ocean Processes and Ecology (SCOPE) - Gradients project during the Gradients II research cruise. Samples were collected along a meridonal transect (along -158° longitude) from 26 - 41.42 ° latitude in May-June 2017. This sampling area covers much of the transition zone between the North Pacific subtropical gyre and the North Pacific subpolar gyre.
DOI: 10.5281/zenodo.3923056
title: University of Kentucky files from LAPSE-RATE

description: This data set is a compilation of the quality-controlled thermodynamic and kinematic data (pressure, temperature, humidity, wind speed and direction) measured by the Unmanned Aerial Systems and fixed 2 m flux tower operated by the University of Kentucky during the LAPSE-RATE campaign from July 14, 2018 through July 18, 2018. V2 data set includes additional files not included in the V1 upload. V3 data set includes a .zip file containing all data files for more convenient downloading, as well as additional quality control on the SOLOW and BCT5D wind data.
DOI: 10.5281/zenodo.4267135
title: Gradients2-MGL1704-IFCB-ESD_2020-04-01_v1.0

description: Cruise: Gradients 2, MGL1704 Project Name: Simons Foundation, Gradient NPSG Dataset Description: The Imaging FlowCytoBot (IFCB) is an in situ automated imaging flow cytometer that generates images of particles suspended in seawater, in this case from the underway uncontaminated seawater system. The IFCB uses a recycled sheath fluid (0.2 µm filtered seawater) to align and drive particles individually towards a light source (red laser, 4.5 mW) in order to detect and identify single or colonial cells using a combination of optical properties (red fluorescence and light scattering intensities) and high resolution images (3.2 pixels per microns) by a mounted camera. Both optical properties are used to trigger targeted image acquisition of suspended particles in the size range &lt;4 to 100 μm. The instrument continuously samples from ~5 ml aliquots from the intake, and processes all particles contained in that volume for the next 20 minutes. Images corresponding to the "Sample" variable are available on the cruise's dashboard (http://ifcb-data.soest.hawaii.edu/IFCB_NPTZ). This dataset is the size, or equivalent spherical diameter, of imaged cells by genus. Equivalent spherical Diameter (ESD) is converted from the cell's biovolume (BV) assuming a spherical cell, according to the formula: ESD=[(6XBV)/(PI)]^(1/3). We use a series of matlab scripts provided by the H. Sosik (https://github.com/hsosik/ifcb-analysis/wiki) to outline cells and extract their corresponding biovolume using a pixels-distance map algorithm (Moberg and Sosik: 2012, doi:10.4319/lom.2012.10.278) and a fixed conversion factor (3.2 px/µm).
DOI: 10.5281/zenodo.4470109
title: Gradients2-MGL1704-PPPCPN-UW_2020-03-11_v1.0

description: Cruise: Gradients 2, MGL1704 Project Name: Simons Foundation Gradient NPSG, SCOPE The phosphorus content of particulate material (PP) was collected by semi-automated and sequential filtration of the ship’s underway flow through seawater onto acid-washed and combusted GFF filters. Select samples had a piggybacked GFF filter holder in sequence for collection of dissolved organic material and/or evaluation of trapping efficiency of GFF. Following filtration, filters were placed in histoprep capsules and stored at -80°C for later analysis. Post-cruise, all filters were thawed overnight, combusted at 450°C for 4.5 hours, then extracted with 0.15 M HCl for 1 hour at 60°C. PP was then analyzed spectrophotometrically as SRP in a 1.0 cm cell at 880 nm following Strickland and Parsons (1972). Recovery efficiency was assessed from the analysis of a known dry weight of certified reference material (National Institute of Standards, NIST 1515, apple leaves, certified 0.159% P by weight). The carbon and nitrogen content of particulate material (PC, PN) was collected by semi-automated and sequential filtration of the ship’s underway flow through seawater onto a combusted GFF filter. Select samples had a piggybacked GFF filter holder in sequence for collection of dissolved organic material and/or evaluation of trapping efficiency of GFF. Following filtration, filters were folded in half and placed in combusted aluminum foil and stored at -80°C for later analysis. Post-cruise, all filters were thawed, acidified, and dried overnight at 60°C. Samples were then balled into Ag and Sn boats and plated for analysis. Organic carbon and total nitrogen content was analyzed using high-temperature combustion (1020 C) on a ThermoQuest NC 2500 elemental analyzer. Three standards with known %C and %N were weighed, folded in tin boats, and analyzed with the samples to develop the calibration equation for each run. The calibration equation was then used to calculate the mass (mg) of carbon and nitrogen in each sample using EAS Clarity Chromatography Station software. The standards are Cystine (Elemental Microanalysis, B2035, 11.66 %TN, 29.99 %TC), Atropine (Elemental Microanalysis, B2002, 4.84 %TN, 70.56%TC), and GoniLab Secondary Standard (low %C)-A1 (an internal standard of sediment from the Gulf of Mexico, MV0803, with low carbon - 0.12 %N, 1.3 %C). The ship’s location, sea surface temperature and salinity from ship’s underway instrumentation are matched to the mid-point of each PCPN filtration time, and PP data were matched to the closest PCPN filtration. Samples were corrected for DOC/DON/DOP. Depth of 5m refers to the depth of the seawater intake on the R/V Marcus G. Langseth.
DOI: 10.5281/zenodo.7102019
title: SeaFlow data v1: High-resolution abundance, size and biomass of small phytoplankton in the North Pacific

description: SeaFlow is an underway flow cytometer that provides continuous shipboard observations of the optical properties of the smallest phytoplankton. The instrument collects the equivalent of 1 sample every 3 minutes or every 1 km (for a ship moving at 10 knots) from the ship’s flow-through seawater system. The data set consists of SeaFlow-based cell abundance, cell size (equivalent spherical diameter) and carbon biomass for picophytoplankton populations, namely the cyanobacteria Prochlorococcus, Synechococcus and small-sized Crocosphaera (2-5 um), and small eukaryotic phytoplankton (&lt;5 μm ESD). Data were processed as described in Ribalet et al. (2019). Further information can be found on the SeaFlow website. <strong>New in version 1.5 </strong> Datasets now includes flow cytometric measurements from 64 cruises. Population-specific refractive indices were used to provide more accurate estimates of cell size for Prochlorococcus and Synechocococus and more conservative estimates for Crocospheara and small eukaryotes. The refractive index used per population and per cruise can be found here (where lwr = 1.41/1.3371, mid = 1.38/1.3371, upr = 1.36/1.3371). Abundances of Prochlorococcus were calibrated using discrete samples analyzed by an Influx BD cell sorter. The calibration factor for each cruise can be found here (where <em>a</em> represents the calibration factor, <em>inst</em> represents the instrument serial number and <em>sample</em> represents whether or not discrete samples were available for calibration)
description: This work was supported by grants from the Simons Foundation (#574495 to FR, #329108 to EVA and AEW, and #426570SP and #549894 to EVA), the Gordon and Betty Moore Foundation (#3776 to EVA) and the National Aeronautics and Space Administration (#80NSSC17K0561 to FR)
DOI: 10.5281/zenodo.7589422
title: A fungal plant pathogen discovered in the Devonian Rhynie Chert

description: Dataset and animation movies related to this submitted paper:
"A fungal plant pathogen discovered in the Devonian Rhynie Chert"
authored by:
Christine Strullu-Derrien1,2*, Tomasz Goral3,4, Alan RT Spencer1,5, Paul Kenrick1, M Catherine Aime6, Ester Gaya7, David L Hawksworth1,7,8,9
1 Science Group, The Natural History Museum, London, UK; 2 Institut Systématique Évolution Biodiversité, Muséum national d'Histoire naturelle, CNRS, Sorbonne Université, Paris, France; 3 Imaging and Analysis Centre, The Natural History Museum, London, UK; 4 Center of New Technologies, University of Warsaw, Warsaw, Poland; 5 Department of Earth Science & Engineering, Imperial College London, London, UK; 6 Department of Botany and Plant Pathology, Purdue University, West Lafayette, IN, USA; 7 Jodrell Laboratory, Royal Botanic Gardens, Kew, Richmond, UK; 8 Jilin Agricultural University, Changchun 130118, Jilin Province, China; 9 Geography and Environmental Science, University of Southampton, Southampton, UK
What is included in the repository:
Original datasets produced by the Nikon A1-Si for specimens: NHMUK V16403 and NMS G.1925-9-11. In addition .mp4 animations produced from NIS-Elements of these datasets are included.
How to open Nikon ND2 (.nd2) files:

These files can be open in ImageJ (https://imagej.nih.gov/ij/) using the nd2-reader plugin (https://imagej.nih.gov/ij/plugins/nd2-reader.html).
These files can be opened without plugins using FIJI (https://fiji.sc/).
These files can be opened with NIS-Elements Viewer (https://www.microscope.healthcare.nikon.com/products/software/nis-elements/viewer).
DOI: 10.5281/zenodo.7766525
title: MTAB3D: a 3-D velocity model for absolute hypocenter location in southern Iberia and westernmost Mediterranean.

description: The Trans-Alboran Shear Zone is one of the most seismically active areas in the westernmost Mediterranean, where a wide variety of tectonic domains have developed within the context of oblique convergence between Eurasia and Africa plates. In this region, earthquakes occur close to seismogenic structures, some of them large enough to cause damaging events. In addition, the diversity of tectonic domains implies a lateral variation of seismic wave propagation, which could affect the hypocenter reliability if not addressed during the location procedure. In this work, we present mTAB3D, a new 3D P-wave velocity model that accounts for the lateral heterogeneity of our study area. The new catalogs computed with our model help us to infer possible genetic relations between seismicity and source faults within our study area and can be used as an additional tool when looking into prior seismic sequences.
description: Download and unzip both files. In /mTAB3D you will find all the files with the information regarding the x,y,z coordinates and the Vp value at each point. Each file refers to a specific depth, from -3 km to 200 km. 

To create the model object and save the .buf and .hdr files, you will need to run the script named nllgrid_mTAB3D.py. Make sure that you have installed NLLGrid previously. You can find more information about this software in its original repository: https://github.com/claudiodsf/nllgrid.
DOI: 10.5281/zenodo.7834077
title: Seal Integrity in Sterile Barrier Packaging

description: Dataset containing 1200 images of Sterile Packaging of size (3008, 4110, 3), where 420 images contain defects and associated mask files.


This dataset was used to support publication: "Automatic Inspecting of Seal Integrity in Sterile Barrier Packaging: a Deep Learning Approach".


Trained models against this dataset can be found on:


- No Augmentation: 10.5281/zenodo.7858060


- Augmentation:  10.5281/zenodo.7858003


File descriptions:


- DS1.zip: Images and masks for the full dataset.


- Full-50.zip: Information for sub-split "Full-50". Files: ds_info.json, Tesnting.csv, TrainingXVal.csv


- Partial-50.zip: Information for sub-split "Partial-50". Files: ds_info.json, Tesnting.csv, TrainingXVal.csv


- Partial-40.zip: Information for sub-split "Partial-40". Files: ds_info.json, Tesnting.csv, TrainingXVal.csv


- Partial-30.zip: Information for sub-split "Partial-30". Files: ds_info.json, Tesnting.csv, TrainingXVal.csv


- Partial-20.zip: Information for sub-split "Partial-20". Files: ds_info.json, Tesnting.csv, TrainingXVal.csv


- Partial-10.zip: Information for sub-split "Partial-10". Files: ds_info.json, Tesnting.csv, TrainingXVal.csv


- Partial-05.zip: Information for sub-split "Partial-05". Files: ds_info.json, Tesnting.csv, TrainingXVal.csv


- Partial-01.zip: Information for sub-split "Partial-01". Files: ds_info.json, Tesnting.csv, TrainingXVal.csv
DOI: 10.6084/m9.figshare.27143880
title: Supplementary Material for: Patients with Opioid Use Disorder Choosing Treatment with Extended-Release Naltrexone: A 6-Months Naturalistic Study

description: ABSTRACT 
Introduction
The treatment efficacy of extended-release naltrexone (XR-NTX) for opioid use disorder (OUD) has been demonstrated in several studies, but not in naturalistic settings where opioid agonist treatment (OAT) is freely accessible. This study aimed to examine the different treatment outcomes of XR-NTX in a setting where the participants freely chose XR-NTX as a treatment option instead of OAT.
Methods
This was a 24-week open-label clinical prospective cohort study conducted in an outpatient setting at five hospitals in Norway. The study included 161 participants aged 18–65 years with OUD. Intramuscular injections of XR-NTX were administered every four weeks for 24 weeks. Measurements included retention in treatment; reasons for treatment discontinuation, days of use of opioids, other illicit substances and alcohol, level of heroin craving, treatment satisfaction, and adverse events (AEs).
Results
Of 161 included participants, the mean age was 38 years, and 24% were women; 138 received at least one dose of the study medication (modified intention to treat [MITT] population), and mean time in treatment was 18.1 weeks [95% CI 16.8 -19.4]. The majority of the MITT population (84; 60.9%) completed 24 weeks of treatment in the study. There was a significant decrease in the overall use of opioids (p&lt;0.001) and the use of alcohol and other illicit substances was low. The participants generally reported high treatment satisfaction and low heroin cravings. Those who completed the 24 weeks of treatment reported significantly fewer days of opioid use (p&lt;0.001) and higher treatment satisfaction (p&lt;0.001) than those who discontinued treatment before 24 weeks. No serious AEs were directly related to XR-NTX use. 
Conclusions
This study demonstrated high retention rates, decreased opioid use and low use of other illicit substances and alcohol. Participants also reported low cravings for heroin and high treatment satisfaction. Completion of the full 24-week treatment resulted in lower opioid use and increased treatment satisfaction compared to those who discontinued treatment before 24 weeks. The observed higher retention and reduced opioid use, compared to other studies, may be attributed to participants’ strong motivation for opioid abstinence facilitated by XR-NTX treatment.
DOI: 10.6084/m9.figshare.27261825
title: Data for Mycorrhizal specialization toward each distinct <i>Oliveonia</i> fungus in two closely related photosynthetic <i>Dactylostalix</i> orchids

description: Data for Mycorrhizal specialization toward each distinct <i>Oliveonia</i> fungus in two closely related photosynthetic <i>Dactylostalix</i> orchids
DOI: 10.6084/m9.figshare.27432972
title: Supplementary Material for: Analysis of retinal and choroidal microvasculature in systemic sclerosis using optical coherence tomography angiography: A systematic review and meta-analysis

description: Introduction: Optical coherence tomography angiography (OCTA) is an emerging technique to investigate retinal and choroidal microvascular alterations in patients with systemic sclerosis (SSc). This systematic review and meta-analysis aimed to evaluate the features of retinal and choroidal microvasculature using OCTA among SSc patients.

Methods: The methodology of the study was based on PRISMA guidelines. PubMed, Scopus, Web of Science, and Embase were searched systematically on November 25, 2023, for relevant studies utilizing OCTA as the main diagnostic tool to assess the retinal and choroidal microvasculature in SSc patients versus healthy controls. Random-effect or fixed model meta-analysis was used based on the heterogeneity of studies.

Results: Eleven observational comparative studies, including 366 patients with SSc and 350 healthy controls, conducted between 2020 and 2023, were included in this review. Meta-analysis findings revealed a significant decrease in vessel densities in both the superficial and deep capillary plexuses (SCP and DCP) among SSc patients compared to controls. However, there were no significant differences observed in the foveal avascular zone (FAZ) area and choriocapillary flow area (CCFA) between SSc patients and controls. Moreover, central macular thickness (CMT) consistently exhibited a decrease in SSc patients, while retinal nerve fiber layer (RNFL) thickness showed no significant differences. Although radial peripapillary capillary (RPC) vessel density, subfoveal choroidal thickness (CMT), and cup/disc ratio yielded mixed results, with some studies indicating significant changes in the SSc group, meta-analysis could not be performed due to variations in the OCTA machines used across the included studies.

Conclusion: This systematic review demonstrates retinal and choroidal microvascular abnormalities in SSc using OCTA. Longitudinal studies are needed to understand how these abnormalities evolve over time in patients with SSc and whether these abnormalities correlate with the clinical features of SSc.
DOI: 10.17188/1189317
title: Materials Data on Fe by Materials Project

description: Fe is Tungsten structured and crystallizes in the cubic Im-3m space group. The structure is three-dimensional. Fe is bonded in a distorted body-centered cubic geometry to eight equivalent Fe atoms. All Fe–Fe bond lengths are 2.47 Å.
DOI: 10.17632/452h7rt9xc.1
title: Pancreatic MRgRT Cine Imaging Data

description: Cine imaging videos acquired during pancreatic MRgRT on ViewRay MRIdian. Code written for analysis of residual motion during breath hold.
DOI: 10.23645/epacomptox.6062479.v1
title: ToxCast and Tox21 Summary Files

description: Data for a single chemical endpoint pair for thousands of chemicals and 821 assay endpoints for 20 variables such as the activity or hit call/activity concentrations/whether the chemical was tested in a specific assay/etc.
DOI: 10.3886/e115972v2
title: National Neighborhood Data Archive (NaNDA): Retail Establishments by Census Tract, United States, 2003-2017

description: This dataset contains
measures of the number and per capita density of select types of retail
establishments—such as clothing, department, building and garden, furniture,
and thrift stores—per United States census tract from 2003 through 2017.<br>
description: Retail establishments in all census tracts in the United States, excluding US island territories. Smallest Geographic Unit: census tract
DOI: 10.3886/e115981v2
title: National Neighborhood Data Archive (NaNDA): Personal Care Services and Laundromats by Census Tract, United States, 2003-2017

description: This dataset contains
measures of the number and per capita density of personal care services (such
as barber shops, hair and nail salons, and spas) and laundromats per United
States census tract from 2003 through 2017.<br>
description: Personal care services and laundromats in all census tracts in the United States, including Puerto Rico and the US Virgin Islands. Smallest Geographic Unit: census tract
DOI: 10.5281/zenodo.10720630
title: Hue selectivity from recurrent circuitry in Drosophila Dataset

description: Data for the publication "hue selectivity from recurrent circuitry in Drosophila"