cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.15912081.v2
title: Additional data and scripts

description: This dataset contains additional data and scripts used in the analysis of the article "Characterization of the first cultured psychrotolerant representative of Legionella from Antarctica reveals its unique genome structure".<br>Each folder contains additional data and scripts used for the analysis.<br>Within each folder, there is documentation that describes the contents of the folder.
DOI: 10.6084/m9.figshare.28909160.v1
title: Supplementary tables for 'Microbial Black Carbon Formation at Hydrocarbon Seeps: Evidence from Haima Sediments in the South China Sea'

description: Supplementary tables for 'Microbial Black Carbon Formation at Hydrocarbon Seeps: Evidence from Haima Sediments in the South China Sea'
DOI: 10.6084/m9.figshare.28238219.v1
title: Species list_treehollows.docx

description: Data set of arthropods sampled from tree hollows.
DOI: 10.6084/m9.figshare.28595379.v1
title: RP-tipping in birhythmic oscillators from Pace in concert with phase: rate-induced phase-tipping in birhythmic oscillators

description: Four animations demonstrating the rate-induced phase tipping in these oscillators due to monotone and non-monotone external inputs
DOI: 10.60893/figshare.jcp.26026738.v1
title: Supplemental Online Material

description: This file contains the supporting information.
DOI: 10.6084/m9.figshare.11465913.v1
title: Table of numerical simulation results of improved triple-porosity model for calculating the porosity exponent-m

description: We have established an improved triple-porosity model to calculate the porosity exponent of fractured-vuggy reservoirs, based on the Maxwell-Garnett mixing rule. The improved model can be used to calculate the porosity exponent of three types of reservoir spaces: nonconnected vugs, fractures and matrix pores. This is the table of numerical simulation results of improved triple-porosity model for calculating the porosity exponent-m.
DOI: 10.6084/m9.figshare.5110051.v3
title: Raw data MasterThesis

description: This dataset contains raw data and results from an evaluation of an application. The results are part of my Master thesis at the Vrije Universiteit Amsterdam
DOI: 10.6084/m9.figshare.18857975.v1
title: PlosOne Data file for Repository.xlsx

description: Data for demographic information for Phase I of supplement for older Hispanic participants with type 2 diabetes
DOI: 10.6084/m9.figshare.4737715
title: Landslide manual and automated inventories, and susceptibility mapping using LIDAR in the forested mountains of Guerrero, Mexico

description: Landslides are a pervasive natural disaster, resulting in severe social, environmental and economic impacts worldwide. The tropical, mountainous landscape in South-West Mexico is predisposed to landslides because of frequent hurricanes and earthquakes. The main goal of this study is to compare landslide susceptibility maps in Guerrero derived using high-resolution LIDAR (light detection and ranging) data from both a manual landslide event inventory and an automated landslide inventorying algorithm. The paper also highlights the importance of applying LIDAR data in landslide inventorying and susceptibility mapping. We mapped landslides based on two approaches: (1) manual mapping using satellite images and (2) automatic identification of landslide morphology employing the Contour Connection Method (CCM). We produced a landslide susceptibility map by computing the probability of landslide occurrence from statistical relationships of inventoried landslides detected with LIDAR digital terrain models (DTMs) and derived landslide-causing factors using the logistic regression method. Our results suggest that the automated inventory derived through the CCM algorithm with LIDAR DTMs effectively minimizes the time-consuming and subjective manual inventorying process. The high overall prediction accuracy (up to 0.83) from logistic regression demonstrates the validity and applicability deriving reliable landslide susceptibility maps from an automated inventory; however, LIDAR data are required.
DOI: 10.6084/m9.figshare.24460525.v1
title: Basic_Soil_parameters

description: Basic soil parameters of soils used in the experiment: Two soils, overgrown by the invasive <i>I. glandulifera </i>and by the native <i>U. dioica </i>were characterized for their copper retention ability assessed by a sequential extraction after seven days flooding with three different copper concentrations.
DOI: 10.6084/m9.figshare.1124561.v6
title: Agomelatine unpublished studies: ClinicalTrials.gov

description: Unpublished studies - ClinicalTrials.gov
DOI: 10.6084/m9.figshare.13072790.v1
title: Unsupervised embedding of trajectories captures the latent structure of mobility

description: Data related to the paper titled "Unsupervised embedding of trajectories captures the latent structure of mobility", including trained neural embeddings and metadata necessary to reproduce reproduce results. <br><br>Due to their proprietary nature, raw data cannot be made available.<br>Information regarding the files contained in these folders, as well as instructions for producing the figures relating to this study, can be found at the following GitHub repository:<br>https://github.com/murrayds/sci-mobility-emb/Data<br>
DOI: 10.6084/m9.figshare.27613845.v1
title: Data for Diamond et al.xlsx

description: The research shows the decrease in Paneth cell-specific genes in response to infection by SARS-CoV-2 in both humans and mice
DOI: 10.6084/m9.figshare.8124932.v1
title: Deep learning-based selection of human sperm with high DNA integrity

description: <b>Despite the importance of sperm DNA to human reproduction, currently no method exists to assess individual sperm DNA quality prior to clinical selection. Traditionally, skilled clinicians select sperm based on a variety of morphological and motility criteria, but without direct knowledge of their DNA cargo. Here, we show how a deep convolutional neural network can be trained on a collection of ~1000 sperm cells of known DNA quality, to predict DNA quality from brightfield images alone. Our results demonstrate moderate correlation (bivariate correlation ~0.43) between a sperm cell image and DNA quality and the ability to identify higher DNA integrity cells relative to the median. This deep learning selection process is directly compatible with current, manual microscopy-based sperm selection and could assist clinicians, by providing rapid DNA quality predictions (under 10 ms per cell) and sperm selection within the 86<sup>th</sup> percentile from a given sample.</b><b></b>
DOI: 10.6084/m9.figshare.20260911.v1
title: Metabolite BridgeDb ID Mapping Database (20220707)

description: BridgeDb ID mapping database for metabolites, using the latest data release of HMDB 4.0 (Release of 2021-11-02), ChEBI 201 (Release of 01 Juli 2022), and Wikidata (07 Juli 2022) as data sources. <br> Quality control was performed with BridgeDb (3.0.15) against version 20210109 [https://doi.org/10.6084/m9.figshare.13550384], tested in PathVisio 3.3.0. <br> Contains a large update for Chemspider mappings (+18.0%), Guide to Pharmacology (+25.5%), HMDB (+53.5%), ChEBI (+20.0%), Wikidata (+26.7%), LIPID MAPS (+44.2%), InChI-Keys (+147.4%), PubChem-compound (+40.7%), and DrugBank (+28.2%). <br> <br> This work was funded by the NWO Open Science Fund (grant no 203.001.121).
DOI: 10.6084/m9.figshare.5602807
title: Dataset for: Reference Values of Renal Tubular Function Tests Are Dependent On Age And Kidney Function

description: Background: Electrolyte disorders due to tubular disorders are rare, and knowledge about validated clinical diagnostic tools such as tubular function tests is sparse. Reference values for tubular function tests are based on studies with small sample size in young healthy volunteers. Patients with tubular disorders however frequently are older and can have a compromised renal function. We therefore evaluated four tubular function tests in individuals with different ages and renal function. Methods: We performed furosemide, thiazide, furosemide-fludrocortisone and desmopressin tests in healthy individuals aged 18 to 50 years, healthy individuals aged more than 50 years and individuals with compromised renal function. For each tubular function test we included 10 individuals per group. Results: The responses in young healthy individuals were in line with previously reported values in literature. The maximal increase in fractional chloride excretion after furosemide was below the lower limit of young healthy individuals in 5/10 older subjects and in 2/10 patients with compromised renal function. The maximal increase in fractional chloride excretion after thiazide was below the lower limit of young healthy individuals in 6/10 older subjects and in 7/10 patients with compromised renal function. Median maximal urine osmolality after desmopressin was 1002 mosmol/kg H2O in young healthy individuals, 820 mosmol/kg H2O in older subjects and 624 mosmol/kg H2O in patients with compromised renal function. Conclusions: Reference values for tubular function tests obtained in young healthy adults cannot simply be extrapolated to older patients or patients with compromised kidney function. Larger validation studies are needed to define true reference values in these patient categories.
DOI: 10.15468/dl.ce5xrf
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Holtbyrnia innesi (Fowler, 1934)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((-10.6036 29.6447,-11.635 28.8496,-9.0352 28.8496,-9.0352 33.4562,-9.6631 32.8696,-9.7766 32.3158,-10.3241 31.5424,-10.3942 30.6542,-10.1716 30.2225,-10.6036 29.6447))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013503-250525065834625/datasets/export for details.
DOI: 10.6084/m9.figshare.26826532.v3
title: Descriptive of Respondent's Answer

description: <b>Background</b>The Indonesian government built the Mass Rapid Transit (MRT) in Jakarta to reduce traffic congestion and carbon dioxide (CO<sub>2</sub>) emissions. The objective of this study is to estimate the CO<sub>2</sub> emissions reductions from switching from private transport to MRT by using a methodology proposed by the United Nations Convention on Climate Change (UNFCCC) for developing countries, namely the Clean Development Mechanism (CDM) methodology, which generates Certified Emission Reductions (CERs). This methodology is more comprehensive than other available methodologies. However, this method has not been widely used to calculate greenhouse gas (GHG) emission reductions in mass transit projects because it is complex enough to require a lot of data based on primary surveys. Therefore, this research simplifies the CDM formula to make it easier and applicable in Indonesia.<b>Methods</b>The primary data were collected using a questionnaire distributed to 480 MRT Jakarta Phase 1 user respondents in September 2019 (baseline); the secondary data were obtained from The MRT Jakarta. The data were processed using IBM SPSS Statistics 27. The simplified Clean Development Mechanism Approved Consolidated Methodology 0016 (CDM ACM 0016) was the analysis method used<b>Result</b>The results of this study indicate that 53.75% of MRT Jakarta Phase 1 users are shifting from private transportation, which has reduced CO<sub>2</sub> emissions by 2,732.7 tons in 2019 and 6,043.9 tons in 2023. Increasing the number of MRT passengers who switch from private transportation will further reduce CO<sub>2</sub> emissions.<b>Conclusion and implications</b>The simplified CDM ACM 0016 formula may be suitable for use in Indonesia. This would enable the measurement of CO₂ emission reductions through mitigation actions through MRT development to be certified by the UNFCCC. Applying this method in calculating CO₂ emission reductions, implementing strategies to increase MRT passengers, and using renewable energy electricity sources would increase CO₂ emission reductions.
DOI: 10.6084/m9.figshare.1618666.v1
title: US Daily Poll 2008-2012

description: This is the Gallup/Healthways US Daily Poll 2008-2012 used in the paper "How was the Weekend? How the Social Context Underlies Weekend Effects in Happiness and other Emotions for US Workers" published on PLOS ONE. The permission of use for this paper is granted by the Gallup Inc.
DOI: 10.6084/m9.figshare.8309696.v2
title: CITE-seq protein and mRNA counts

description: Protein counts were acquired from https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE100866. <br>LOOM was generated from FASTQ. <code>cellranger</code> processing:<code>cellranger count --id=(desired bam directory) --transcriptome=(transcriptome directory) --fastqs=(fastq directory) --localcores=40 --localmem=100 --chemistry=SC3Pv2</code><code>velocyto</code> processing: <code>velocyto run10x --samtools-threads 60 --samtools-memory 5000 (desired bam directory) (transcriptome directory)/genes/genes.gtf</code>
DOI: 10.15468/dl.6kscf8
title: Occurrence Download

description: A dataset containing 263 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Rhynchospora riparia (Nees) Boeckeler",
 "Year is less than or equal to 2000",
 "Year is greater than or equal to 1970",
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 1000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 263 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013502-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.13473678.v1
title: Datasets, scripts, and results for Goloboff et al. (2021, Cladistics) on PAUP*, MEGA, and MPBoot (https://doi.org/10.1111/cla.12476)

description: Datasets, scripts, and results for Goloboff et al. (2021, Cladistics) on PAUP*, MEGA, and MPBoot (https://doi.org/10.1111/cla.12476)<br>
DOI: 10.6084/m9.figshare.14869659.v1
title: Physical Activity Csv

description: Columns:<br>id,pure_name,pure_portion,total<br>
DOI: 10.6084/m9.figshare.23993451.v1
title: Anti-hypertensives peptides

description: Antihypertensive peptides are currently an alternative in research for the discovery of promising substances to conventional therapies. In this study, the virtual screening of promising peptides against enzymes such as ACE1 was proposed.
DOI: 10.6084/m9.figshare.25243345.v1
title: Carbon price estimation based on carbon emission rights futures market

description: This data is used for carbon price estimates
DOI: 10.6084/m9.figshare.5552656.v3
title: Variability measures for clinical trials at baseline and at the end of study

description: Data from 208 parallel clinical trials with quantitative outcome published in years 2004, 2007, 2010 and 2013. The main collected variables are: title; link to PubMed abstract; type of outcome (measured or scored); type of intervention (pharmacological or not); type of measure (automatic or assessed); if the main endpoint was significant; the standard deviations of the main outcome in both arms at the baseline and at the end of the study.<br>
DOI: 10.6084/m9.figshare.6057755.v1
title: performance after success and failure.dta

description: Human Performance after Success and Failure - Evidence from the NBA<br>
DOI: 10.6084/m9.figshare.13918100.v1
title: Dataset for 'Improvements to the use of the Trajectory-Adaptive Multilevel Sampling algorithm for the study of rare events'

description: The 'datasets' folder contains the transition probability estimates for various score functions for a triple-well system.<br>The 'scripts' folder contain the script used to plot the data, along with additional data.<br>The 'figures' folder contains the typical figures obtained with the script.<br>The 'trajectory_estimation_data' contains the transition path generated by empirical histograms.
DOI: 10.6084/m9.figshare.24619584.v3
title: SNPs project results*.csv

description: This data of antioxidants snp projects
DOI: 10.6084/m9.figshare.28956194.v1
title: hiNSC_2114bp trianed filtered file

description: The training data.
DOI: 10.6084/m9.figshare.3487805.v1
title: PLOS ONE: Body Weight Can Change How Your Emotions Are Perceived

description: Study: Body Weight Can Change How Your Emotions Are PerceivedAuthors: Yujung Oh, Norah C. Hass,and Seung-Lark LimPLOS ONE <br>This file includes demographic, perceptual decision, and reaction time data. Each row represents a single subject. Columns are defined as:<br>Task :1 (Experiment 1), 2 (Experiment 2)ID :subject ID Sex :1 (male), 2 (female) age :ageethnicity :1 (Caucasian), 2 (Hispanic), 3 (African American), 4 (Asian), 5 (Other) N_000 : decision for 0% emotion normal weight face N_020 : decision for 20% emotion normal weight face N_040 : decision for 40% emotion normal weight face N_060 : decision for 60% emotion normal weight face N_080 : decision for 80% emotion normal weight face N_100 : decision for 100% emotion normal weight face <br>O_000 : decision for 0% emotion overweight face O_020 : decision for 0% emotion overweight face O_040 : decision for 0% emotion overweight face O_060 : decision for 0% emotion overweight face O_080 : decision for 0% emotion overweight face O_100 : decision for 0% emotion overweight face <br>Rmax_N :estimated Rmax parameter of normal weight face Rmax_O :estimated Rmax parameter of overweight face n_N :estimated n parameter of normal weight face n_O :estimated n parameter of overweight face c50_N :estimated c50 parameter of normal weight face c50_O :estimated c50 parameter of overweight face M_N :estimated M parameter of normal weight face M_O :estimated M parameter of overweight face <br>Rt_N_000 : reaction time (ms) for 0% emotion normal weight face Rt_N_020 : reaction time (ms) for 20% emotion normal weight face Rt_N_040 : reaction time (ms) for 40% emotion normal weight face Rt_N_060 : reaction time (ms) for 60% emotion normal weight face Rt_N_080 : reaction time (ms) for 80% emotion normal weight face Rt_N_100 : reaction time (ms) for 100% emotion normal weight face <br>Rt_O_000 : reaction time (ms) for 0% emotion overweight face Rt_O_020 : reaction time (ms) for 0% emotion overweight face Rt_O_040 : reaction time (ms) for 0% emotion overweight face Rt_O_060 : reaction time (ms) for 0% emotion overweight face Rt_O_080 : reaction time (ms) for 0% emotion overweight face Rt_O_100 : reaction time (ms) for 0% emotion overweight face <br>BMI : Body Mass IndexAFAD : Anti-fat Attitudes “Dislike”AFAF : Anti-fat Attitudes “Fear”AFAW : Anti-fat Attitudes “Willpower”<br><br><br>_________________________________________________________________________________________________ Correspondence to Seung-Lark Lim, Ph.D. Assistant Professor, Department of PsychologyUniversity of Missouri - Kansas City 5030 Cherry StKansas City, MO 64110Phone: 816-235-1067E-mail: limse@umkc.edu
DOI: 10.6084/m9.figshare.28014455.v1
title: data file

description: These data files support the study entitled "<b>Impact of Monetary Policy on the Stock Market Volatility: A GARCH-MIDAS Approach in Malaysian Econom</b>"
DOI: 10.6084/m9.figshare.27940752.v1
title: Processed .h5ad Anndata file from Downsampled data (to use for "Visualization")

description: Spectral flow cytometry provides greater insights into cellular heterogeneity by simultaneous measurement of up to 50 markers. However, analyzing such high-dimensional (HD) data is complex through traditional manual gating strategy. To address this gap, we developed CAFE as an open-source Python-based web application with a graphical user interface. Built with Streamlit, CAFE incorporates libraries such as Scanpy for single-cell analysis, Pandas and PyArrow for efficient data handling, and Matplotlib, Seaborn, Plotly for creating customizable figures. Its robust toolset includes density-based down-sampling, dimensionality reduction, batch correction, Leiden-based clustering, cluster merging and annotation. Using CAFE, we demonstrated analysis of a human PBMC dataset of 350,000 cells identifying 16 distinct cell clusters. CAFE can generate publication-ready figures in real time via interactive slider controls and dropdown menus, eliminating the need for coding expertise and making HD data analysis accessible
DOI: 10.6084/m9.figshare.5742174.v1
title: The combined impacts of experimental defaunation and logging on seedling traits and diversity

description: Seedling mortality in 2016 of of seedlings tagged in experimental exclusion plots in 2013 in logged and unlogged forest in Malaysian Borneo. Community weighted mean plant traits for seedling inside exclusion plots also given.
DOI: 10.6084/m9.figshare.28715162.v1
title: dummy file

description: A test file uploaded to explore Figshare features.
DOI: 10.6084/m9.figshare.27003010.v2
title: supplementary data.zip

description: vcf files for <b>Comprehensive Whole Genome Sequencing Reveals Origins of Mutational Signatures Associated with Aging and Temozolomide Chemotherapy</b> study
DOI: 10.6084/m9.figshare.27194547.v1
title: Global Viridian tree

description: The global Viridian tree from the October 2024 preprint of "Addressing pandemic-wide systematic errors in the SARS-CoV-2 phylogeny". We provide the same tree in two formats: JSONL and .pb.
DOI: 10.6084/m9.figshare.26252048.v2
title: Manually Segmented Labels Based on the Nutrition5k Dataset

description: Manually Segmented Labels Based on the Nutrition5k Dataset
DOI: 10.6084/m9.figshare.16922819.v1
title: Contrasting Early Palaeozoic provenance of the Yemaquan and Harlik arcs in the SW Altaids (NW China): identification of cryptic sutures in accretionary orogens

description: The means and timing of amalgamation of the Harlik arc to the Yemaquan arc remain controversial. To address these polemic relations, we report new field data and zircon U-Pb analyses of early Palaeozoic strata in the Harlik Mountains. Field investigations reveal that the Huangcaopo Group in northern Harlik are composed mainly of clastic rocks, while their counterparts in central Harlik (Harlik arc) are dominantly volcanic and pyroclastic rocks. Weighted mean ages of the youngest group of samples from northern Harlik are 455 ± 9 Ma and 456 ± 7 Ma, whereas their counterparts in central Harlik have a weighted mean age of 446 ± 4 Ma, indicating that parts of the Huangcaopo Group in central Harlik should be re-defined as the early Silurian Hongliuxia Formation. The youngest grain from the Dananhu Formation in central Harlik is 421 ± 3 Ma, the time of deposition in early Devonian. Age spectra of the Huangcaopo Group in northern Harlik have only two peaks at 488 Ma and 923 Ma, demonstrating affinity with the Tuva-Mongolian microcontinent, a correlation supported by the occurrence of Silurian Tuvaella brachiopod fauna in those strata. In contrast, multiple peaks at 494 Ma, 813 Ma, 1485 Ma, 1872 Ma and 2469 Ma in the Hongliuxia and Dananhu Formations in central Harlik have neither an affinity with the Tuva-Mongolian nor with the Central Tianshan microcontinent, which suggests that the Harlik arc probably evolved independently as a Japan-type arc in the early Palaeozoic. The above disparate relations, combined with the fact that the Silurian Tuvaella brachiopod fauna occurs throughout the Kelameili ophiolite belt but not in the Harlik arc, provide robust evidence that the contrasting provenance of the Yemaquan and Harlik arcs is an expression of a cryptic suture in northern Harlik rather than along the Kelameili ophiolite belt to the north.