cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25934/pr00010433
title: Data Challenge: Understanding the validity of private data on AMR and the association between resistance rates of Gram negative bacterial infections and AMR policy indicators: a pooled analysis on four private datasets

description: Project Title: Understanding the Validity of Private Data on Antimicrobial Resistance (AMR) and the Association Between Resistance Rates of Gram-Negative Bacterial Infections and AMR Policy Indicators: A Pooled Analysis of Four Private Datasets.

This pooled analysis, leveraging four private datasets from Pfizer, Paratek, Venatorx, and Shionogi, aims to:

1) Cross-validate and compare resistance rates of infections caused by Gram-negative bacteria across the four different datasets.
2) Describe differences and trends in observed resistance rates with regards to countries/regions, temporality, and patient demographics (age and sex).
3) Understand the association between resistance rates and AMR policy indicators.

Combining data on antibiotic resistance of Gram-negative bacterial infections from different datasets is hypothesized to increase the validity and robustness of data for further research, despite potential methodological differences between datasets. Once an integrated dataset is formed, descriptive analyses will be performed, focusing on differences in resistance rates across years, regions/countries, and patient demographics such as age and sex. In the last phase of this project, an association analysis will be conducted to investigate the association between resistance levels and a selected number of policy indicators from WHO TRACCS (focus on policies that regulate the use of antimicrobials in humans and animals, and legislations on infection and prevention control). Stratified analyses will be informed by the results from the three phases.

The overall aim of this project is to strengthen health systems, particularly national AMR policies, by understanding differences in AMR rates and the association with AMR policy indicators. The results from this project can be used to inform future policies.
DOI: 10.15468/dl.m3n2r9
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((148.194329 -33.191195, 148.194329 -33.193441, 148.196575 -33.193441, 148.196575 -33.191195, 148.194329 -33.191195))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068473-240626123714530/datasets/export for details.
DOI: 10.15468/dl.dkhj69
title: Occurrence Download

description: A dataset containing 46 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Canada",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Poa pratensis subsp. irrigata (Lindm.) H.Lindb."
 ]
}

 The dataset includes 46 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068474-240626123714530/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.26626507
title: Additional file 1 of Genetic diversity of field Fusarium asiaticum and Fusarium graminearum isolates increases the risk of fungicide resistance

description: Additional file 1: Table S1. Detail information of Fusarium species, virulence, and fungicide resistance. Table S2. Variations calling statistics and detail information among Fa isolates. Table S3. Variations calling statistics and detail information among Fg isolates. Table S4. Primer sequences, PCR settings, and amplified fragments obtained from different Fusarium. Table S5. Strain name of the sequenced Fa and Fg isolates.
DOI: 10.15468/dl.nghjx2
title: Occurrence Download

description: A dataset containing 73030 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is CAN.9_1",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is one of (Ambystoma laterale Hallowell, 1856, Clemmys guttata (Schneider, 1792), Cypripedium candidum Muhl. ex Willd., Hemileuca Walker, 1855, Coccinella transversoguttata Faldermann, 1835, Liatris spicata (L.) Willd., Emys blandingii (Holbrook, 1838), Urocyon cinereoargenteus (Schreber, 1775), Asplenium scolopendrium var. americanum (Fernald) Kartesz & Gandhi, Solidago riddellii Frank, Danaus plexippus (Linnaeus, 1758), Bombus terricola Kirby, 1837, Plestiodon fasciatus (Linnaeus, 1758), Thamnophis proximus (Say, 1823), Chelydra serpentina (Linnaeus, 1758))"
 ]
}

 The dataset includes 73030 records from 88 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068472-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xeuuhk
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Rhododendron dasypetalum Balf.fil. & Forrest"
 ]
}

 The dataset includes 8 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068475-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4mcjh4
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((147.435249 -33.195687, 147.435249 -33.197933, 147.437495 -33.197933, 147.437495 -33.195687, 147.435249 -33.195687))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068476-240626123714530/datasets/export for details.
DOI: 10.15468/dl.wap84a
title: Occurrence Download

description: A dataset containing 15344 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Glandularia bipinnatifida (Schauer) Nutt."
 ]
}

 The dataset includes 15344 records from 113 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068478-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25934/pr00010434
title: Data Challenge

description: The ban on highly prioritized critical antibiotics like colistin in food-producing animals is crucial for public health. Colistin, a last-resort antibiotic for treating multidrug-resistant infections in humans, has become a focal point due to the rise of antibiotic resistance. A key lesson from China’s experience—where plasmid-mediated colistin resistance was detected through antimicrobial resistance (AMR) surveillance in animals—highlights the urgent need for action. Research has shown that colistin resistance can be transmitted from livestock to humans, posing significant threats to both human and animal health.

This research will assess whether countries in the used datasets have implemented a colistin ban and evaluate the impact of such policies on colistin resistance. We aim to utilize integrated surveillance data, specifically antimicrobial use (AMU) and AMR data from WHO and FAO, to analyze trends across the human and animal sectors. Our primary focus will be on reporting all colistin-resistant cases and separately analyzing E. coli as an indicator organism due to its prevalence in humans, animals, and the environment.

Given that colistin resistance is difficult to detect using the minimum inhibitory concentration (MIC) method—the gold standard in surveillance datasets—we will compare resistance by identifying different MIC values, particularly focusing on high MIC values (>16). Outliers in these values may suggest laboratory contamination, as routine microbroth dilution can yield false resistance results, a challenge acknowledged by EUCAST.

The findings from this research will provide clear insights into whether countries have effective policies in place to safeguard colistin. We will determine if banning colistin in food-producing animals has led to a measurable reduction in resistance. By evaluating these policies and investigating resistance trends, we can offer evidence-based recommendations for improving policy implementation and promoting the prudent use of antibiotics, ensuring that critical medicines like colistin remain effective for treating severe infections in humans.
DOI: 10.6084/m9.figshare.26734008
title: Additional file 1 of Transcriptomic and epigenomic landscapes of muscle growth during the postnatal period of broilers

description: Additional file 1: Table S1. Experimental sample size of each analysis. Table S2. Summary of sequencing quality and reads alignment statistics of RNA-seq data. Table S3. Summary of sequencing quality and reads alignment statistics of ATAC-seq data. Table S4. Growth performance of CC and RR from DOH to D42. Table S5. Differentially expressed genes profiles between D21 and D42 of CC. Table S6. Differentially expressed genes profiles between D21 and D42 of RR. Table S7. Differentially expressed genes profiles between CC and RR at D21. Table S8. Differentially expressed genes profiles between CC and RR at D42. Table S9. Differential accessible regions profiles between D21 and D42 of CC. Table S10. Differential accessible regions profiles between D21 and D42 of RR. Table S11. Differential accessible regions profiles between CC and RR at D21. Table S12. Differential accessible regions profiles between CC and RR at D42. Table S13. The DEGs carrying with DARs.
DOI: 10.6084/m9.figshare.26734008.v1
title: Additional file 1 of Transcriptomic and epigenomic landscapes of muscle growth during the postnatal period of broilers

description: Additional file 1: Table S1. Experimental sample size of each analysis. Table S2. Summary of sequencing quality and reads alignment statistics of RNA-seq data. Table S3. Summary of sequencing quality and reads alignment statistics of ATAC-seq data. Table S4. Growth performance of CC and RR from DOH to D42. Table S5. Differentially expressed genes profiles between D21 and D42 of CC. Table S6. Differentially expressed genes profiles between D21 and D42 of RR. Table S7. Differentially expressed genes profiles between CC and RR at D21. Table S8. Differentially expressed genes profiles between CC and RR at D42. Table S9. Differential accessible regions profiles between D21 and D42 of CC. Table S10. Differential accessible regions profiles between D21 and D42 of RR. Table S11. Differential accessible regions profiles between CC and RR at D21. Table S12. Differential accessible regions profiles between CC and RR at D42. Table S13. The DEGs carrying with DARs.
DOI: 10.6084/m9.figshare.26734011
title: Additional file 2 of Transcriptomic and epigenomic landscapes of muscle growth during the postnatal period of broilers

description: Additional file 2: Fig. S1. KEGG pathway enrichment analysis on the differential gene. a Function analysis on differential genes between CC and RR at D21 and D42. b Function analysis on differential genes between D21 and D42 of CC and RR. Fig. S2. Chromatin accessibility analysis of CC and RR at D21 and D42. a–c Fragment insert size of CC-D42, RR-D21 and RR-D42 groups. d Number of peaks in the four groups. e Heatmaps of differential accessible regions (DARs). f The relationship between differentially expressed genes (DEGs) and DARs.
DOI: 10.6084/m9.figshare.26734011.v1
title: Additional file 2 of Transcriptomic and epigenomic landscapes of muscle growth during the postnatal period of broilers

description: Additional file 2: Fig. S1. KEGG pathway enrichment analysis on the differential gene. a Function analysis on differential genes between CC and RR at D21 and D42. b Function analysis on differential genes between D21 and D42 of CC and RR. Fig. S2. Chromatin accessibility analysis of CC and RR at D21 and D42. a–c Fragment insert size of CC-D42, RR-D21 and RR-D42 groups. d Number of peaks in the four groups. e Heatmaps of differential accessible regions (DARs). f The relationship between differentially expressed genes (DEGs) and DARs.
DOI: 10.35086/07c7cff8-3a03-4141-a72d-7ec4694e563f
title: Nederlandse chlamydia cohort studie (NECCST)

description: De NECCST dataset omvat gegevens van 5700 vrouwen in Nederland die ooit hebben meegedaan aan de chlamydia screening implementatie tussen 2008 en 2011 en toen hebben aangegeven benaderd te kunnen worden voor vervolgonderzoek naar seksueel overdraagbare aandoeningen. Dat is in 2015 gebeurd in het kader van de Nederlandse chlamydia cohort studie (NECCST). Door middel van een informed consent kregen vrouwen toegang tot een online vragenlijst met vragen over demografie, chlamydia historie, zwangerschappen, lange termijn complicaties van chlamydia zoals chronische buikpijn, buitenbaarmoederlijke zwangerschappen, infertiliteit, anticonceptie en seksueel risico gedrag. De vragen opnieuw gesteld in 2017 en 2019.
DOI: 10.15468/dl.xmyfna
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((148.12471 -33.195687, 148.12471 -33.197933, 148.122464 -33.197933, 148.122464 -33.202424, 148.129201 -33.202424, 148.129201 -33.195687, 148.12471 -33.195687))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068479-240626123714530/datasets/export for details.
DOI: 10.6084/m9.figshare.24303477.v1
title: Additional file 2 of Comparative analysis of flavonoid metabolites from different parts of Hemerocallis citrina

description: Supplementary Material 2
DOI: 10.25934/pr00010435
title: Data Challenge - TRUSTED AI FOR MULTI-CHANNEL EARLY WARNING SYSTEM FOR EMERGING AMR THREATS

description: The global threat of antimicrobial resistance (AMR) is a pressing public health concern that demands immediate attention from the research community. As the World Health Organization has warned, AMR may become the leading cause of death worldwide by 2050 if effective interventions are not implemented. Significant efforts have been made by providing researchers with access to valuable surveillance data from leading pharmaceutical companies. However, key research gaps remain in leveraging these data to develop practical, impactful solutions to combat the AMR crisis.
This research project aims to address these critical gaps. The project will seek to combine eight (8) Vivli AMR dataset with a comprehensive corpus of scientific literature, reports, and news sources, to investigate the potential of data-driven, explainable AI models to classify and predict emerging AMR threats. This multifaceted approach, incorporating both structured surveillance data and unstructured textual information, represents a novel and promising avenue for research.
A key objective of this project is to demonstrate the utility and clinical relevance of the proposed early warning system. To this end, the research team will develop a web application and USSD (SMS) channel to ensure the system's accessibility and usability for a wide range of users, including healthcare professionals and the general public. Importantly, the project will also document the challenges encountered in developing such a system, providing valuable insights for future research and implementation efforts.
Transparency and trust are paramount when deploying AI-powered solutions in the medical domain. This project will therefore prioritize the use of explainable AI techniques, ensuring that the classification models not only deliver accurate predictions but also provide interpretable insights to healthcare providers. By fostering trust and confidence in the system, the research team aims to facilitate widespread adoption and real-world impact.
The findings of this project have the potential to significantly advance the global fight against antimicrobial resistance. It will contribute to a deeper understanding of AMR trends, inform policy decisions, and drive the development of innovative, accessible, and clinically relevant solutions to this pressing public health challenge.
DOI: 10.6084/m9.figshare.24303477
title: Additional file 2 of Comparative analysis of flavonoid metabolites from different parts of Hemerocallis citrina

description: Supplementary Material 2
DOI: 10.15468/dl.qugp24
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((148.205558 -33.195687, 148.205558 -33.197933, 148.214542 -33.197933, 148.214542 -33.195687, 148.205558 -33.195687))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0068480-240626123714530/datasets/export for details.
DOI: 10.6084/m9.figshare.26734152
title: Additional file 1 of Integration of transcriptomics, metabolomics, and hormone analysis revealed the formation of lesion spots inhibited by GA and CTK was related to cell death and disease resistance in bread wheat (Triticum aestivum L.)

description: Supplementary Material 1
DOI: 10.15468/dl.jzy57c
title: Occurrence Download

description: A dataset containing 545 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Phytolacca americana L."
 ]
}

 The dataset includes 545 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0120917-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yh3p4e
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Iris helena C.Koch"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0254415-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8pvyk7
title: Occurrence Download

description: A dataset listing the 4 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-22.29594 26.70045,4.10677 26.70045,4.10677 45.2892,-22.29594 45.2892,-22.29594 26.70045))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Pomacea Perry, 1810",
 "Year 1800-2022"
 ]
}

 The dataset's 4 records were derived from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0235967-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9xmzt4
title: Occurrence Download

description: A dataset listing the 823 species recorded in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Continent is Europe",
 "Depth 0.0-200.0m",
 "Elevation 0.0-0.0m",
 "Geometry POLYGON((-2.92068 45.84744,9.92933 53.68041,7.7641 58.33809,6.42773 61.91167,3.76326 62.96133,-5.46379 61.01841,-11.91948 55.81545,-13.6427 48.67584,-2.92068 45.84744))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Animalia"
 ]
}

 The dataset's 823 records were derived from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0121348-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q6egbx
title: Occurrence Download

description: A dataset containing 552 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pedunculata",
 "HasCoordinate is true",
 "Country is Japan",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 552 records from 29 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0257001-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5hm4qw
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Millericrinida",
 "HasCoordinate is true",
 "Country is Japan",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0257002-220831081235567/datasets/export for details.
DOI: 10.15468/dl.eqza25
title: Occurrence Download

description: A dataset containing 33 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Nemesia psammophila Schltr."
 ]
}

 The dataset includes 33 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0046143-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d5z986
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Gentianella tischkovii (Grubov) Holub"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0226579-230224095556074/datasets/export for details.
DOI: 10.15468/dl.uau2e4
title: Occurrence Download

description: A dataset containing 26739 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rhynchospora fusca (L.) W.T.Aiton"
 ]
}

 The dataset includes 26739 records from 316 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0249060-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5mtncr
title: Occurrence Download

description: A dataset containing 27 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Gentianella tubulosa (Gilg) Fabris"
 ]
}

 The dataset includes 27 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0226587-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ducn9r
title: Occurrence Download

description: A dataset containing 64 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is RUS.2_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Neottianthe cucullata (L.) Schltr."
 ]
}

 The dataset includes 64 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0249062-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.x68fum
title: Occurrence Download

description: A dataset containing 173 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Hesperolinon breweri (A.Gray) Small"
 ]
}

 The dataset includes 173 records from 24 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0241723-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t25nd5
title: Occurrence Download

description: A dataset containing 30 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Androsace dissecta (Franch.) Franch.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 30 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0262822-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.