cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.13166579.v1
title: Scalable Algorithms for Large Competing Risks Data

description: This paper develops two orthogonal contributions to scalable sparse regression for competing risks time-to-event data. First, we study and accelerate the broken adaptive ridge method (BAR), a surrogate <i>ℓ</i>
 <sub>0</sub>-based iteratively reweighted <i>ℓ</i>
 <sub>2</sub>-penalization algorithm that achieves sparsity in its limit, in the context of the Fine-Gray (1999) proportional subdistributional hazards (PSH) model. In particular, we derive a new algorithm for BAR regression, named cycBAR, that performs cyclic update of each coordinate using an explicit thresholding formula. The new cycBAR algorithm effectively avoids fitting multiple reweighted <i>ℓ</i>
 <sub>2</sub>-penalizations and thus yields impressive speedups over the original BAR algorithm. Second, we address a pivotal computational issue related to fitting the PSH model. Specifically, the computation costs of the log-pseudo likelihood and its derivatives for PSH model grow at the rate of <i>O</i>(<i>n</i>
 <sup>2</sup>) with the sample size <i>n</i> in current implementations. We propose a novel forward-backward scan algorithm that reduces the computation costs to <i>O</i>(<i>n</i>). The proposed method applies to both unpenalized and penalized estimation for the PSH model and has exhibited drastic speedups over current implementations. Finally, combining the two algorithms can yields &gt;1,000 fold speedups over the original BAR algorithm. Illustrations of the impressive scalability of our proposed algorithm for large competing risks data are given using both simulations and a United States Renal Data System data. Supplementary materials for this article are available online.
DOI: 10.5281/zenodo.10629433
title: LINGUISTIC AND CULTURAL CHARACTERISTICS OF THE CONCEPT OF CUNNING IN ENGLISH AND UZBEK FAIRY TALES
DOI: 10.5281/zenodo.10629434
title: LINGUISTIC AND CULTURAL CHARACTERISTICS OF THE CONCEPT OF CUNNING IN ENGLISH AND UZBEK FAIRY TALES
DOI: 10.5258/soton/d2935
title: Dataset supporting the University of Southampton Doctoral Thesis 'Investigating the Impact of Hypoxia on the Host-Pathogen Interactions in the Lung'

description: This dataset supports the University of Southampton Doctoral Thesis 'Investigating the Impact of Hypoxia on the Host-Pathogen Interactions in the Lung'

The dataset includes RNA sequencing transcriptomics bioinformatic data. This includes human lung tissue explant bioinformatic analysis datasets and BCi-NS1.1 cell bioinformatics data. 

Original data was RNA collected from human lung tissue and airway cell cultures. RNA was sequenced by Novogene and the gene count file was sent to the user. Samples were analysed in the R software package and any data created was generated into Excel file format. 

The data is accessible via CC-BY license

Related projects/Funders: Project funders: Biotechnology and Biological Sciences Research Council and GlaxoSmithKline (GSK)
DOI: 10.6084/m9.figshare.14737076
title: Additional file 4 of Coronavirus disease (COVID-19) pandemic: an overview of systematic reviews

description: Additional file 4: Appendix 4. Table of overlapping studies, containing the list of primary studies included, their visual overlap in individual systematic reviews, and the number in how many reviews each primary study was included.
DOI: 10.6084/m9.figshare.22601213.v1
title: Additional file 22 of Implicating genes, pleiotropy, and sexual dimorphism at blood lipid loci through multi-ancestry meta-analysis

description: Additional file 22: Table S14. Test for difference in effects for index variants from sex-stratified meta-analysis.
DOI: 10.6084/m9.figshare.14736923
title: Additional file 3 of Membrane recruitment of Atg8 by Hfl1 facilitates turnover of vacuolar membrane proteins in yeast cells approaching stationary phase

description: Additional file 3. Raw Data. Raw data in excel file for all column graphs in figures and additional file figures.
DOI: 10.34740/kaggle/ds/3527481
title: Tree detection in point clouds and RGB images
DOI: 10.5281/zenodo.10628873
title: JohnsonKinaseData

description: JohnsonKinaseData provides position specific weight matrices (PWMs) for 303 human serine/threonine kinases originally published in Johnson et al. 2023 (https://doi.org/10.1038/s41586-022-05575-3). It includes gene annotation for each kinase PWM and also includes PWM matching scores for a set of 85603 phosphosites.

The data is made available in the Bioconductor ExperimentHub package JohnsonKinaseData.
DOI: 10.5281/zenodo.10628874
title: JohnsonKinaseData

description: JohnsonKinaseData provides position specific weight matrices (PWMs) for 303 human serine/threonine kinases originally published in Johnson et al. 2023 (https://doi.org/10.1038/s41586-022-05575-3). It includes gene annotation for each kinase PWM and also includes PWM matching scores for a set of 85603 phosphosites.

The data is made available in the Bioconductor ExperimentHub package JohnsonKinaseData.
DOI: 10.6084/m9.figshare.6875240
title: Additional file 1 of Regulation of the adaptation to ER stress by KLF4 facilitates melanoma cell metastasis via upregulating NUCB2 expression

description: Table S2. Clinical information of Patients with melanoma. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.6875240.v1
title: Additional file 1: of Regulation of the adaptation to ER stress by KLF4 facilitates melanoma cell metastasis via upregulating NUCB2 expression

description: Table S2. Clinical information of Patients with melanoma. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.6875270
title: Additional file 3 of Regulation of the adaptation to ER stress by KLF4 facilitates melanoma cell metastasis via upregulating NUCB2 expression

description: Table S1. Differentially expressed genes. (XLS 4331 kb)
DOI: 10.6084/m9.figshare.6875270.v2
title: Additional file 3 of Regulation of the adaptation to ER stress by KLF4 facilitates melanoma cell metastasis via upregulating NUCB2 expression

description: Table S1. Differentially expressed genes. (XLS 4331 kb)
DOI: 10.6084/m9.figshare.22603910
title: Additional file 8 of Systematic and benchmarking studies of pipelines for mammal WGBS data in the novel NGS platform

description: Additional file 8: Table S2. Time-consuming from four softwares on mouse samples in silico.
DOI: 10.6084/m9.figshare.22603895
title: Additional file 3 of Systematic and benchmarking studies of pipelines for mammal WGBS data in the novel NGS platform

description: Additional file 3: Table S1. Statistics of raw reads and clean reads.
DOI: 10.6084/m9.figshare.22601441.v1
title: Additional file 1 of Genome-wide liver transcriptomic profiling of a malaria mouse model reveals disturbed immune and metabolic responses

description: Additional file 1: Table S1. Primers of the top 10 mRNAs and top 10 lncRNAs used for RT‒qPCR validation.
DOI: 10.15468/dl.uvba8e
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Harpalus karamani Apfelbeck, 1902",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093377-240626123714530/datasets/export for details.
DOI: 10.15468/dl.twy3dx
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Hypsolebias auratus (Costa & Nielsen, 2000))",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2000",
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 100",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093378-240626123714530/datasets/export for details.
DOI: 10.15468/dl.zncqja
title: Occurrence Download

description: A dataset containing 3538 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Ozyptila praticola (C.L.Koch, 1837)",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 3538 records from 188 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093380-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gvp3tz
title: Occurrence Download

description: A dataset containing 16879 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bufotes viridis (Laurenti, 1768)",
 "HasCoordinate is true",
 "Year is greater than or equal to 2011",
 "Year is less than or equal to 2024"
 ]
}

 The dataset includes 16879 records from 117 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093379-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9x4yz9
title: Occurrence Download

description: A dataset containing 2696 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Cantharis figurata Mannerheim, 1843",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 2696 records from 120 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093381-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kpwder
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Harpalus franzi Mateu, 1954",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093382-240626123714530/datasets/export for details.
DOI: 10.15468/dl.pjkx5p
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Simpsonichthys zonatus (Costa & Brasil, 1990))",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2000",
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 100",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093383-240626123714530/datasets/export for details.
DOI: 10.15468/dl.pk2kgj
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Ozyptila maculosa Hull, 1948",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093385-240626123714530/datasets/export for details.
DOI: 10.15468/dl.sng99t
title: Occurrence Download

description: A dataset containing 8675 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Panthera onca (Linnaeus, 1758)"
 ]
}

 The dataset includes 8675 records from 272 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093384-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4r7pmv
title: Occurrence Download

description: A dataset containing 39 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Harpalus caspius (Steven, 1806)",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 39 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093387-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7udg9q
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Hasemania melanura Ellis, 1911)",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2000",
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 100",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093388-240626123714530/datasets/export for details.
DOI: 10.15468/dl.335pwz
title: Occurrence Download

description: A dataset containing 4065 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Cantharis rufa (Linnaeus)",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 4065 records from 198 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093386-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.j3cgpn
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Ozyptila tricoloripes Strand, 1913",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093390-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cgpqtt
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Harpalus marginellus Dejean, 1829",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 4 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093391-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uxdenc
title: Occurrence Download

description: A dataset containing 1168 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Cantharis nigra De Geer, 1774",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 1168 records from 100 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093393-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.upzvhf
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Otothyris juquiae Garavello, Britski & Schaefer, 1998)",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 2000",
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 100",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093392-240626123714530/datasets/export for details.
DOI: 10.25442/hku.26782669
title: Supporting data for "Conceptualizing Relationship Building between Peer Support Workers and Persons in Recovery in a Community-based Mental Healthcare Setting in Hong Kong"

description: This study aimed to explore the development of the relationship between peer support workers (PSWs) and persons in recovery (PIRs) over time in a one-to-one community-based mental health peer support service in Hong Kong. This longitudinal, qualitative study adopted a constructivist grounded theory approach. PSWs, PIRs, key informants (former PSWs) and PSW supervisors were recruited through purposive and theoretical sampling. Data collection was conducted through a dual approach of naturalistic observation and semi-structured interviews. Focus group interviews and semi-structured interviews were conducted to ensure the trustworthiness of the findings. The dataset included the consent forms of the participants, the materials used for data collection, the demographic information of the participants, the field note template and the transcriptions of the interviews.
DOI: 10.25442/hku.26782669.v1
title: Supporting data for "Conceptualizing Relationship Building between Peer Support Workers and Persons in Recovery in a Community-based Mental Healthcare Setting in Hong Kong"

description: This study aimed to explore the development of the relationship between peer support workers (PSWs) and persons in recovery (PIRs) over time in a one-to-one community-based mental health peer support service in Hong Kong. This longitudinal, qualitative study adopted a constructivist grounded theory approach. PSWs, PIRs, key informants (former PSWs) and PSW supervisors were recruited through purposive and theoretical sampling. Data collection was conducted through a dual approach of naturalistic observation and semi-structured interviews. Focus group interviews and semi-structured interviews were conducted to ensure the trustworthiness of the findings. The dataset included the consent forms of the participants, the materials used for data collection, the demographic information of the participants, the field note template and the transcriptions of the interviews.
DOI: 10.15468/dl.h5spmr
title: Occurrence Download

description: A dataset containing 66 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Ozyptila gertschi Kurata, 1944",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 66 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093394-240626123714530/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.26828959
title: <b>Identification of causal relationship between tea, coffee and IgA nephropathy: A Mendelian randomization study with proteomic- wide analysis</b>

description: <b>Background</b><b>:</b> Tea and coffee exhibit protective effects against chronic kidney disease (CKD). Immunoglobulin A nephropathy (IgAN) represents the predominant primary glomerular disorder, primarily attributable to immune dysregulation and inflammatory processes. Both tea and coffee are recognized for their significant roles in modulating immune function and attenuating inflammatory responses. As such, it is imperative to comprehensively investigate the causal association between tea and coffee consumption and IgAN, along with elucidating the underlying mechanistic pathways.<b>Methods: </b>Summary data from genome-wide association studies (GWAS) were utilized in the present study to simulate randomized trials, investigating the causal effects of tea and coffee intake on the incidence of IgAN. Further, mediation analysis and enrichment analysis were conducted using plasma proteome data to explore the mediating pathways that confer the protective effects of tea and coffee.<b>Results: </b>Results from Mendelian randomization indicate that both tea and coffee had protective effects against the incidence of IgAN. For tea, OR = 0.996 (95% CI: 0.992 to 0.999, P = 0.022); for coffee, OR = 0.405 (95% CI: 0.228 to 0.718, P = 0.002). No evidence of pleiotropy or heterogeneity was detected. As identified by proteomics mediation analysis, there were 63 plasma proteins, including zinc finger protein 358, associated with the mediation of tea consumption's effects on IgAN. Similarly, 62 proteins, including zinc transporter 5, were identified in the mediation of coffee intake's effects on IgAN. Enrichment analysis further highlighted 14 metabolic or signalling pathways, such as the TP53 and FGFR signalling pathways, involved in mediating the protective effects of both tea and coffee against IgAN.<b>Conclusion:</b> Increased intake of tea and coffee could reduce the risk of developing IgAN. The underlying mechanisms by which tea and coffee protect IgAN were revealed, paving the way for future studies.which tea and coffee protect IgAN were revealed, paving the way for future studies.
DOI: 10.15468/dl.2b8zmu
title: Occurrence Download

description: A dataset containing 135 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "SpeciesKey is Harpalus amplicollis Ménétriés, 1848",
 "Year is greater than or equal to 2004",
 "Year is less than or equal to 2023"
 ]
}

 The dataset includes 135 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0093395-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.