cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.13238501.v2
title: Child development delay and pesticide Thailand

description: Dataset contains all the data on the study project of chlorpyrifos and other pesticides exposure and suspected developmental delay in children aged 0-5 year: a case-control study in Phitsanulok, Thailand<br>
DOI: 10.6084/m9.figshare.14067362.v3
title: OM252 Table S1

description: Supplementary table containing orthologous clusters, genome QC information, and RPKM data.
DOI: 10.6084/m9.figshare.21400653.v1
title: Supplementary Material for: Burden of Parkinson Disease in China, 1990–2019: Findings From the 2019 Global Burden of Disease Study

description: Introduction: China has the most people with Parkinson disease (PD) in the world, and is estimated to have over half of the worldwide PD population. The objective of this study is to analyze the corresponding burden of PD in China for the past decades. Method: Data on disease burden related to PD in China were retrieved from the Global Burden of Disease (GBD) 2019 study. The estimated annual percentage changes (EAPCs) were calculated to assess temporal trends, and the ratio of years lived with disability (YLDs) to disability-adjusted life-years (DALYs) was used as an index to evaluate the healthcare system. Result: Nationally, the burden of PD increased from 1990 to 2019. Although the age-standardized incidence rate (ASIR) increased, the age-standardized death rate (ASDR) and age-standardized DALY rate both decreased. Age-standardized rates of PD in males remained higher than those in females, but trends in ASDR and age-standardized DALY rate for females showed a pronounced decrease. The most remarkable increase in the ASIR was in individuals aged 45 to 49 years, with an EAPC of 1.74 (95% confidence interval, 1.26 to 2.21). The YLDs : DALYs ratio continuously increased compared with global figures and even with countries with high sociodemographic index (SDI). Conclusion: Although ASDR and age-standardized DALY rates for PD have been declining, the burden of PD still needs attention, as the total numbers have increased over the period. Generally, the greater burden from PD was in males. A sound health system with services tailored to PD continues to be required in the future.
DOI: 10.15482/usda.adc/1529275
title: Northeast US Blue Carbon Rasters

description: This data set includes rasters of tidal marsh soil properties in the Northeast US for the purpose of blue carbon accounting. Mapping products cover estuarine and emergent wetland classes in the National Wetlands Inventory.
Resources in this dataset:


Resource Title: Northeast Blue Carbon Raster Map - LOI
File Name: Northeast_marsh_LOI.7z
Resource Description: This raster file provides soil organic matter (% LOI) estimates for tidal marshes in the Northeast US.


Resource Title: Northeast Blue Carbon Raster Map - BD
File Name: Northeast_marsh_BD.7z
Resource Description: This raster based data product provides soil dry bulk density estimates for tidal marshes in the Northeast US.


Resource Title: README file for Northeast Blue Carbon Rasters
File Name: README_Northeast_blue_carbon_rasters_LOI_BD.txt
Resource Description: Brief description of the raster properties and methods by which they were created to model soil organic matter, soil dry bulk density, and carbon density for the Northeast US. See Teng et al (in prep, 2023) for more details on the model development.
DOI: 10.6084/m9.figshare.28774106.v1
title: Dataset.zip

description: The dataset was generated using digital underwater photogrammetry (UWP) techniques to construct high-resolution digital elevation models (DEMs) and orthomosaics of coral structures. These products enabled multiscale analysis through the application of the Maximum Overlap Discrete Wavelet Transform (MODWT), a wavelet-based method that decomposes reef topography into rugosity components across different spatial scales. The resulting decomposition distinguishes between local rugosity associated with live coral cover and underlying rugosity, which reflects the historical development of the reef.
DOI: 10.6084/m9.figshare.5129566.v1
title: Supplementary Material for: Cognitive Function and White Matter Changes Associated with Renal Transplantation

description: <b><i>Background:</i></b> End-stage renal disease (ESRD) is a disease with an aging population and a high prevalence of cognitive impairment affecting quality of life, health care costs and mortality. Structural changes in the brain with decreased white matter integrity have been observed in ESRD. Understanding the changes in cognition and associated changes in brain structure after renal transplantation can help define the mechanisms underlying cognitive impairment in ESRD. <b><i>Methods:</i></b> We conducted a prospective, observational cohort study in ESRD patients listed for renal transplantation and followed them post-transplantation. We assessed their cognitive function with a battery of neuropsychological tests and brain white matter integrity with diffusion tensor imaging (DTI) both before transplant and 3 months after transplant. <b><i>Results:</i></b> Eleven patients, aged 56.5 ± 10.7 years, completed the study. Cognitive measures of memory and executive function improved after the transplant, specifically on tests of logical memory I (p = 0.004), logical memory II (p = 0.003) and digit symbol (p &lt; 0.0001). DTI metrics also improved post the transplant with an increase in fractional anisotropy (p = 0.01) and decrease in mean diffusivity (p = 0.004). These changes were more prominent in tracts associated with memory and executive function. <b><i>Conclusions:</i></b> Cognitive function, particularly memory and executive function, improve post the transplant with concurrent improvements in white matter integrity in tracts associated with memory and executive function. These data suggest that abnormalities in cognition and brain structure seen in the ESRD population are at least partially reversible.
DOI: 10.6084/m9.figshare.13853576.v1
title: Supplementary Material for: Identification of Influential Variants in Significant Aggregate Rare Variant Tests

description: <b><i>Introduction:</i></b> Studies that examine the role of rare variants in both simple and complex disease are increasingly common. Though the usual approach of testing rare variants in aggregate sets is more powerful than testing individual variants, it is of interest to identify the variants that are plausible drivers of the association. We present a novel method for prioritization of rare variants after a significant aggregate test by quantifying the influence of the variant on the aggregate test of association. <b><i>Methods:</i></b> In addition to providing a measure used to rank variants, we use outlier detection methods to present the computationally efficient Rare Variant Influential Filtering Tool (RIFT) to identify a subset of variants that influence the disease association. We evaluated several outlier detection methods that vary based on the underlying variance measure: interquartile range (Tukey fences), median absolute deviation, and SD. We performed 1,000 simulations for 50 regions of size 3 kb and compared the true and false positive rates. We compared RIFT using the Inner Tukey to 2 existing methods: adaptive combination of <i>p</i> values (ADA) and a Bayesian hierarchical model (BeviMed). Finally, we applied this method to data from our targeted resequencing study in idiopathic pulmonary fibrosis (IPF). <b><i>Results:</i></b> All outlier detection methods observed higher sensitivity to detect uncommon variants (0.001 &lt; minor allele frequency, MAF &gt; 0.03) compared to very rare variants (MAF &lt;0.001). For uncommon variants, RIFT had a lower median false positive rate compared to the ADA. ADA and RIFT had significantly higher true positive rates than that observed for BeviMed. When applied to 2 regions found previously associated with IPF including 100 rare variants, we identified 6 polymorphisms with the greatest evidence for influencing the association with IPF. <b><i>Discussion:</i></b> In summary, RIFT has a high true positive rate while maintaining a low false positive rate for identifying polymorphisms influencing rare variant association tests. This work provides an approach to obtain greater resolution of the rare variant signals within significant aggregate sets; this information can provide an objective measure to prioritize variants for follow-up experimental studies and insight into the biological pathways involved.
DOI: 10.6084/m9.figshare.14671998.v1
title: bip2019

description: GWAS summary statistics from the Psychiatric Genomics Consortium (PGC)
DOI: 10.6084/m9.figshare.26891314.v1
title: Gocho et al. Supplementary Data for "Causal Analysis of Factors for Li Ionic Conductivity in Olivine-Type LiMXO<sub>4</sub> Materials Using LiNGAM".

description: This data serves as the Supplementary Dataset for a published paper. For more details, please refer to the corresponding paper. (Gocho et al. "Causal Analysis of Factors for Li Ionic Conductivity in Olivine-Type LiMXO<sub>4</sub> Materials Using LiNGAM", DOI: 10.1021/acs.jpcc.4c06131)We present the composition and structural descriptors, as well as the evaluation results of the migration energy for Li ion hopping between sites, based on DFT-optimized crystal structures of 22 types of Olivine-type LiMXO₄ (where M and X are metal ions) materials ("Descriptors_Ea_Olivine-type_LiMXO4.csv"). These DFT calculation results are based on our previous paper [1]. The DFT-optimized crystal structures are also available in CIF format from the "StructureData_cif" directory.The adjacency matrix evaluated by LiNGAM has been stored in CSV format in the "adjacency_matrix_csv" directory. LiNGAM was evaluated under three different conditions.[1] Jalem, R., Aoyama, T., Nakayama, M. & Nogami, M. Multivariate Method-Assisted Ab Initio Study of Olivine-Type LiMXO₄ (Main Group M²⁺−X⁵⁺ and M³⁺−X⁴⁺) Compositions as Potential Solid Electrolytes. Chemistry of Materials 24, 1357–1364 (2012). DOI:10.1021/cm3000427
DOI: 10.6084/m9.figshare.16823482.v1
title: Systematic Literature Search

description: Systematic Review July 2020
DOI: 10.6084/m9.figshare.28429379.v1
title: networks_2monthsep.rds

description: Data* that may be used to re-generate the figures from "Allocating Limited Surveillance Effort for Outbreak Detection of Endemic Foot and Mouth Disease". The Spatial Proximity Surveillance Method results are not reproducible as we (the authors) did not have permission to upload specific location data. Randomized location data is included instead, so the code for the method can be assessed.This data is an anonymized version of agricultural data acquired by Prof Mike Tildesley through agreement with the SAP Institute of the Republic of Türkiye and EuFMD, Mike is a co-author on the accompanying study and this data is being used and uploaded with permission.The specific location data was removed from this dataset as these data are sensitive. All data queries should be made by contacting the Sap Institute in Turkey (abdulnaci.bulut@tarimorman.gov.tr).*the rest of the data and relevant code for using said data can be found: https://github.com/ArielGreiner/FMDLimitedSurveillance/
DOI: 10.6084/m9.figshare.11588325.v1
title: Genome-wide association study summary data of 10,000 single nucleotide polymorphisms from a squamous cell carcinoma meta-analysis

description: This dataset consists of a single spreadsheet in .txt format. <br>The data are genome-wide association study (GWAS) data relating to 10,000 single nucleotide polymorphisms (SNPs) from a squamous cell carcinoma (SCC) meta-analysis. <br>The related publication presents a cutaneous SCC meta-analysis, representing 6 international cohorts and totalling 19,149 SCC cases and 680,049 controls. 8 novel loci associated with cutaneous SCC are discovered, all (14) previously associated loci are confirmed, and fine mapping of causal variants is performed. The novel SNPs occur within skin specific regulatory elements and implicate loci involved in cancer development, immune regulation, and keratinocyte differentiation in SCC susceptibility.
DOI: 10.6084/m9.figshare.7081280.v2
title: Interview - Andrew Clement

description: This dataset 'Interview - Andrew Clement’ is a component of a Doctor Of Philosophy conducted by candidate Alexander Hayes (3919493) titled 'The Socioethical Implications Of Body Worn Computers: An Ethnographic Study'. <br>The full thesis can be accessed at https://ro.uow.edu.au/theses1/853<br>This research was conducted in the Faculty of Engineering and Information Systems, School of Computing and Information Technology (SCIT), University of Wollongong with research strength Innovation in Business & Social Research under Principal Supervisor Professor Katina Michael (University of Wollongong) and Associate Supervisor Dr Teemu Leinonen (Aalto University Finland). This thesis explores the socioethical implications of body worn computers (BWC) using an ethnographic approach. Furthermore, a subset, body worn cameras (BWCs), combines data with value added constancy through Location Based Services (LBS) over wireless network connections. The aim of this investigation was to engage global leaders from transdisciplinary stakeholder groups in semi-structured interviews, conversations and events, situating a review of the social impact and ethical implications of BWCs. A critical discourse analysis using a Foucauldian approach reveals power relations, which are then infused through narrative with unique intercultural perspectives, differentiating ‘location’ from ‘place’. The author of this study has subsequently identified through Grounded Theory that BWCs are causal agency for disconnect from proper culture which can be addressed through the application of Ngikalikarra, a unique framework for empathetic understanding of place and community engagement.
DOI: 10.15468/dl.wss6w7
title: Occurrence Download

description: A dataset containing 1196 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is China",
 "GadmGid is CHN.31_1",
 "TaxonKey is one of (Indocalamus Nakai, Phyllostachys Siebold & Zucc., Semiarundinaria Makino ex Nakai, Sinobambusa Makino ex Nakai)",
 "Year 1000-2025"
 ]
}

 The dataset includes 1196 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009474-250426092105405/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.21341232.v2
title: Cognitive load and deception detection

description: Experimental data (different intensities of cognitive load and its' influence on the working memory effectiveness in N-back task).
DOI: 10.6084/m9.figshare.28308869.v1
title: Petrotogaceae

description: Supplementary materials for the chapter Petrotogaceae, Bergey's Manual.
DOI: 10.6084/m9.figshare.12652100.v6
title: Global surface ocean pCO2 from CSIR-ML6 (v2020)

description: An update to the original CSIR-ML6 method. The following changes have been made: SOCATv2020 is used; ERA5 wind data and MSLP are used (instead of ERA interim).<br><b>spco2</b> = surface pCO2 for the ensemble average<b>spco2_ensemble</b> = individual ensemble members of spco2<b>fgco2</b> = air-sea CO2 fluxes <b>area_mask</b> = the area per pixel - doubles as mask for the data<br>Please cite the dataset as well as the original publication (https://doi.org/10.5194/gmd-12-5113-2019).
DOI: 10.6084/m9.figshare.25002824.v1
title: Supplementary Material for: Genome-wide analysis of DNA methylation in pseudomyxoma peritonei originated from appendiceal neoplasms

description: Introduction:
Pseudomyxoma peritonei (PMP) is a disease characterized by progressive accumulation of intraperitoneal mucinous ascites produced by neoplasms in the abdominal cavity. Since the prognosis of patients with PMP remain unsatisfactory, the development of effective therapeutic drug(s) is a matter of pressing concern. Genetic analyses of PMP have clarified the frequent activation of GNAS and/or KRAS. However, the involvement of global epigenetic alterations in PMPs has not been reported.

Methods:
To clarify the genetic background of the 15 PMP tumors, we performed genetic analysis using AmpliSeq Cancer HotSpot Panel v2. We further investigated global DNA methylation in the 15 tumors and eight non-cancerous colonic epithelial cells using Methylation EPIC array BeadChip (Infinium 850k) containing a total of 865,918 probes. 

Results:
This is the first report of comprehensive DNA methylation profiles of PMPs in the world. We clarified that the 15 PMPs could be classified into at least two epigenotypes, unique methylation epigenotype (UME) and normal-like methylation epigenotype (NLME), and that genes associated with neuronal development and synaptic signaling may be involved in the development of PMPs. In addition, we identified a set of hypermethylation marker genes such as HOXD1 and TSPYL5 in the 15 PMPs.

Conclusions:
These findings may help the understanding of the molecular mechanism(s) of PMP and contribute to the development of therapeutic strategies for this life-threatening disease.
DOI: 10.6084/m9.figshare.4555435.v2
title: The list of divergent orthologous genes;

description: Nymphoides peltata (Gmel.) O. Kuntze (Menyanthaceae) is a floating-leaf perennial aquatic plant. This species is a typical distylous plant. In this study, we sequenced two floral transcriptomes from long- and short-styled flowered plants of this distylous species using the RNA-Seq technique. We also idenfied the divergent orthologous genes between long- and short-styled flowered plants. Our aims were to provide genetic resources for screening genes involved in the development of distyly and for revealing the role of natural selection in driving the floral morph diversity in the evolution of distylous plant.
DOI: 10.15468/dl.59jt9d
title: Occurrence Download

description: A dataset containing 3870 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Atelopus chiriquiensis Shreve, 1936, Atelopus senex Taylor, 1952, Atelopus varius (Lichtenstein & Martens, 1856), Incilius holdridgei (Taylor, 1952), Incilius periglenes (Savage, 1967), Agalychnis annae (Duellman, 1963), Agalychnis lemur (Boulenger, 1882), Duellmanohyla uranochroa (Cope, 1875), Isthmohyla pictipes (Cope, 1875), Isthmohyla rivularis (Taylor, 1952), Isthmohyla angustilineata (Taylor, 1952), Isthmohyla tica (Starrett, 1966), Craugastor ranoides (Cope, 1886), Craugastor escoces (Savage, 1975), Craugastor angelicus (Savage, 1975), Craugastor fleischmanni (Boettger, 1892), Craugastor andi (Savage, 1974), Lithobates vibicarius (Cope, 1894))",
 "HasCoordinate is true",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 3870 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009475-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/90c-rjy-f5r
title: Stellaria L.

description: Digital Specimen for the physical specimen hosted at University of Graz.
DOI: 10.57907/mirri/0nmvgg/6xx0uy
title: MIRRI0078328.json

description: Strain json file
DOI: 10.57907/mirri/3bnanb/lviur2
title: MIRRI0078291.json

description: Strain json file
DOI: 10.57907/mirri/3pyk1r/7syk0a
title: MIRRI0078268.json

description: Strain json file
DOI: 10.57907/mirri/4iukay
title: MIRRI0078253

description: Organism type: Filamentous Fungi ; Taxon name: Fusarium vorosii ; Collection: CBS 123664 ; Country: Japan
DOI: 10.57907/mirri/5fal9z/beubqo
title: MIRRI0078307.json

description: Strain json file
DOI: 10.57907/mirri/5vx2fm
title: MIRRI0077658

description: Organism type: Filamentous Fungi ; Taxon name: Neocosmospora vasinfecta var. africana ; Collection: CBS 122565 ; Country: South Africa
DOI: 10.57907/mirri/6ywdwu
title: MIRRI0077915

description: Organism type: Filamentous Fungi ; Taxon name: Asterosporium asterospermum ; Collection: CBS 122943 ; Country: Austria
DOI: 10.57907/mirri/7135yg
title: MIRRI0078316

description: Organism type: Filamentous Fungi ; Taxon name: Bionectria ; Collection: CBS 123785 ; Country: United States of America
DOI: 10.57907/mirri/7ixqni/4igrik
title: MIRRI0078273.json

description: Strain json file
DOI: 10.57907/mirri/7z4iho
title: MIRRI0078310

description: Organism type: Filamentous Fungi ; Taxon name: Nectriopsis ; Collection: CBS 123779 ; Country: United States of America
DOI: 10.57907/mirri/a8ebp0/5zi4c5
title: MIRRI0078287.json

description: Strain json file
DOI: 10.57907/mirri/afuss8/wmvmwq
title: MIRRI0078374.json

description: Strain json file
DOI: 10.57907/mirri/ah2nxz
title: MIRRI0078322

description: Organism type: Filamentous Fungi ; Taxon name: Trichoderma arundinaceum ; Collection: CBS 123793 ; Country: United States of America
DOI: 10.57907/mirri/asp3ib/8ilzy9
title: MIRRI0078326.json

description: Strain json file
DOI: 10.57907/mirri/dccyza
title: MIRRI0078306

description: Organism type: Filamentous Fungi ; Taxon name: Trichoderma asperellum ; Collection: CBS 123775 ; Country: South Africa
DOI: 10.57907/mirri/ehzjyn
title: MIRRI0078342

description: Organism type: Filamentous Fungi ; Taxon name: Hypocrea austriaca ; Collection: CBS 123829 ; Country: Austria
DOI: 10.57907/mirri/f0juuq
title: MIRRI0078334

description: Organism type: Filamentous Fungi ; Taxon name: Macrodiplodiopsis desmazieri ; Collection: CBS 123811 ; Country: Austria
DOI: 10.57907/mirri/fd8eh0
title: MIRRI0077923

description: Organism type: Filamentous Fungi ; Taxon name: Spadicoides bina ; Collection: CBS 122974 ; Country: Portugal
DOI: 10.57907/mirri/flderg/psstjj
title: MIRRI0078362.json

description: Strain json file
DOI: 10.57907/mirri/gtfmj0/hdf0hd
title: MIRRI0077662.json

description: Strain json file
DOI: 10.57907/mirri/h0kzhh
title: MIRRI0077834

description: Organism type: Filamentous Fungi ; Taxon name: Phytophthora siskiyouensis ; Collection: CBS 122779 ; Country: United States of America
DOI: 10.57907/mirri/hxpqp8/rqavnm
title: MIRRI0077664.json

description: Strain json file
DOI: 10.57907/mirri/i9e6ol
title: MIRRI0078267

description: Organism type: Filamentous Fungi ; Taxon name: Calonectria brachiatica ; Collection: CBS 123703 ; Country: Colombia
DOI: 10.57907/mirri/i9e6ol/6oiws5
title: MIRRI0078267.json

description: Strain json file
DOI: 10.57907/mirri/jsx2ag/sto9dc
title: MIRRI0077665.json

description: Strain json file
DOI: 10.57907/mirri/k0xqhm/drocae
title: MIRRI0077706.json

description: Strain json file
DOI: 10.57907/mirri/mwgpgh/nyqevw
title: MIRRI0078318.json

description: Strain json file
DOI: 10.57907/mirri/nftu3x
title: MIRRI0078265

description: Organism type: Filamentous Fungi ; Taxon name: Calonectria brachiatica ; Collection: CBS 123700 ; Country: Colombia
DOI: 10.57907/mirri/nftu3x/7hclam
title: MIRRI0078265.json

description: Strain json file
DOI: 10.57907/mirri/nh0jdu/mzhyht
title: MIRRI0078256.json

description: Strain json file
DOI: 10.57907/mirri/ol98we/cf8vnt
title: MIRRI0078369.json

description: Strain json file
DOI: 10.57907/mirri/pbplz5
title: MIRRI0077925

description: Organism type: Filamentous Fungi ; Taxon name: Scolecostigmina chibaensis ; Collection: CBS 122976 ; Country: Japan
DOI: 10.57907/mirri/pbplz5/igq66d
title: MIRRI0077925.json

description: Strain json file
DOI: 10.57907/mirri/pfi5ja/sviuqw
title: MIRRI0078365.json

description: Strain json file
DOI: 10.57907/mirri/qov15v
title: MIRRI0078344

description: Organism type: Filamentous Fungi ; Taxon name: Annulohypoxylon maeteangense ; Collection: CBS 123835 ; Country: Thailand
DOI: 10.57907/mirri/r8cdue
title: MIRRI0078305

description: Organism type: Filamentous Fungi ; Taxon name: Hypocrea strictipilosa ; Collection: CBS 123773 ; Country: United States of America
DOI: 10.57907/mirri/r94hdq/nq25pz
title: MIRRI0078270.json

description: Strain json file
DOI: 10.57907/mirri/rd8zml/rg395p
title: MIRRI0077667.json

description: Strain json file
DOI: 10.57907/mirri/s0ksd2
title: MIRRI0078381

description: Organism type: Filamentous Fungi ; Taxon name: Cercospora beticola ; Collection: CBS 123907 ; Country: Bulgaria