cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25934/pr00011483
title: DATA CHALLENGET - Development of a Web-Based Antimicrobial Resistance (AMR) Data Analysis and Reporting Tool 

description: Topic: Development of a Web-Based Antimicrobial Resistance (AMR) Data Analysis and Reporting Tool

Background:

Antimicrobial resistance (AMR) surveillance in developing countries faces challenges like weak lab infrastructure, limited trained staff, poor communication, and inadequate data management. These hinder timely, accurate tracking of resistance, leading to ineffective interventions. Our tool addresses these gaps by automating data standardization and visualization, enabling faster, clearer AMR insights to support better clinical and public health decisions.

Research Objectives

1.	To design a web-based platform that transforms raw AMR data into real-time, actionable insights.
2.	To streamline the generation of interactive dashboards and standardized reports for clinical and administrative use.
3.	To integrate AI-driven features for future prediction, natural language querying, and treatment guidance.

Method:

A full-stack software solution will be developed using Python (Flask) for backend data processing and React for frontend visualizations. The platform will process CSV/Excel datasets, standardize them using adaptive schema mapping, and present insights via dynamic dashboards. We intend to utilize datasets contained in the Vivli AMR register to train, test, and refine the tool’s features. Key integrations will include compatibility with WHONET, EHR systems (HL7/FHIR), and global resistance databases.

Key steps include:

•	Data Standardization & Cleaning: Harmonize diverse file formats, normalize metrics, and anonymize patient data.
•	Dashboard Development: Create interactive charts, heatmaps, and antibiograms with filtering by organism, facility, and time.
•	Automated Reporting: Enable one-click export to PDF, CSV, and PNG formats using templated designs.
•	AI & NLP Roadmap: Prototype features such as natural language queries (“Show E. coli trends in ICU”) and outbreak alerts.
•	Deployment & Testing: Launch on Netlify (frontend) and Render (backend) with pilot testing in clinical settings.

Impact

The tool will enhance the capacity of healthcare professionals and public health institutions to make data-driven decisions and it will support more timely and targeted antimicrobial stewardship interventions.
DOI: 10.7910/dvn/vwvdll
title: Replication Data for Toe the Line to Survive: Loyalists, Wildcards, and Electoral Reform in Brazil

description: These are the replication materials for the paper "Toe the Line to Survive: Loyalists, Wildcards, and Electoral Reform in Brazil". They are comprised of the original dataset and the analysis script.
DOI: 10.15468/dl.mgsruj
title: Occurrence Download

description: A dataset containing 53 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pentameris thuarii P.Beauv.",
 "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 ((25.0214 -34.0501,25.5395 -34.1098,25.5395 -32.9007,20.509 -32.9007,20.509 -34.5676,20.524 -34.555,20.8859 -34.5419,20.9606 -34.4398,21.2995 -34.5131,21.5296 -34.4338,21.8696 -34.4439,22.0323 -34.2835,22.221 -34.2428,22.2566 -34.1304,22.5993 -34.0741,22.9652 -34.1674,23.4069 -34.1858,23.4955 -34.0792,23.6056 -34.0563,24.8471 -34.2877,24.9447 -34.2397,25.0214 -34.0501))"
 ]
}

 The dataset includes 53 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052061-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15659811
title: Rethinking the role of fruit color in avian fruit choices and foraging mechanisms

description: This repository contains the data and code of the manuscript "Rethinking the role of fruit color in avian fruit choices and foraging mechanisms" By João Vitor S. Messeder, Benjamin Scott Vizzachero, Juan M. Morales, Hong Ma & Tomás A. Carlo.

Our objectives consisted of:1- Analyze community level bird-fruit interactions sampled in five different communities to assess whether birds preferentially interact with fruits of colors predicted by the dispersal syndrome hypothesis.2- Analyze species level interactions of Solanum torvum sampled from 17 individuals across Puerto Rico to assess whether bats and other mammals are the main frugivores interacting with it.3- Compare germination rates between gut passage treatments of Patagioenas squamosa and hand-extracted seeds.4- Analyze whether birds interact more with artificial fruits mimicking a familiar fruiting plant or of novel colors through field experiments.

For details on research questions, hypotheses, sampling design, and analyses please refer to the original manuscript (reference information to be added after manuscript publication).

Please see the README.txt file for detailed information about datasets and code.
DOI: 10.25934/pr00011495
title: DATA CHALLENGE- A retrieval-augmented generation–language model (RAG-LM) for immediate empirical antimicrobial prescription therapy

description: Over the years, the prevalence of infections among critically ill patients admitted to the hospital has been high. The risk of mortality and length of admission in critical patient care is established to be associated with the immediacy of appropriate antimicrobial administration, especially within the first hour of admission. This clinical gap for timely antimicrobial prescription necessitates the need for initial prescriptions of targeted empirical antimicrobial therapy in critically ill patients. 
To address this problem, our focus aims at building a robust retrieval-augmented generation (RAG) – language model that assists in accurate empirical antimicrobial prescription therapy by retrieving context-aware, evidence-based recommendations based on past antimicrobial resistance (AMR) patterns, patient data, and clinical notes, and stands in line to further inform streamlining and adjustment of therapy once microbiological results become available. Our solution would involve using a dataset-based clinical decision support system (CDSS) that conducts case-matching, recommendations and infection inferences by retrieving patterns from open AMR registries (with datasets provided and outsourced), and parsing to a generative language model for a detailed and enhanced markdown of the accurate empirical antibiotic prescription therapy.
Our solution aims at developing an accurate and scalable CDSS for the immediate delivery of appropriate antibiotic therapy in critically ill patients, to reduce patient mortality and length of stay in the hospital.
DOI: 10.5281/zenodo.15681650
title: MMP12 ZINC Docking Dataset - Parts 1-3 + Extended MD Simulations

description: Large-scale ZINC molecular docking dataset for MMP12 inhibitor discovery. Contains docking parts 1-3 (45 GB) plus extended MD simulation analysis results (100-500 ns). Part 1 of 3 in a comprehensive computational drug discovery study.
DOI: 10.5281/zenodo.15681651
title: MMP12 ZINC Docking Dataset - Parts 1-3 + Extended MD Simulations

description: Large-scale ZINC molecular docking dataset for MMP12 inhibitor discovery. Contains docking parts 1-3 (45 GB) plus extended MD simulation analysis results (100-500 ns). Part 1 of 3 in a comprehensive computational drug discovery study.
DOI: 10.15468/dl.p5sdvp
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Enneacampus kaupi (Bleeker, 1863)",
 "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 ((19.1382 11.0599,10.1382 11.0599,10.1382 2.0599,19.1382 2.0599,19.1382 11.0599))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052062-250525065834625/datasets/export for details.
DOI: 10.15468/dl.8zw4j7
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pentameris thuarii P.Beauv.",
 "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 ((32.064 -28.9416,32.4847 -28.5786,30.5701 -28.5786,30.5701 -30.7329,30.6252 -30.6659,31.4179 -29.4257,31.8178 -29.0299,32.064 -28.9416))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052063-250525065834625/datasets/export for details.
DOI: 10.5281/zenodo.15682179
title: MMP12 ZINC Docking Part 4 + MD 10ns Simulations

description: MMP12 inhibitor discovery dataset - Part 2 of 3. Contains final ZINC docking part (9.9 GB) and comprehensive 10 ns MD simulation analysis data (15 GB). Related to Parts 1 and 3.
DOI: 10.5281/zenodo.15682180
title: MMP12 ZINC Docking Part 4 + MD 10ns Simulations

description: MMP12 inhibitor discovery dataset - Part 2 of 3. Contains final ZINC docking part (9.9 GB) and comprehensive 10 ns MD simulation analysis data (15 GB). Related to Parts 1 and 3.
DOI: 10.5281/zenodo.15682351
title: MMP12 Umbrella Sampling MD Dataset

description: MMP12 inhibitor discovery dataset - Part 3 of 3. Comprehensive umbrella sampling molecular dynamics analysis for free energy calculations. Contains 6 different inhibitor complexes and binding studies.
DOI: 10.5281/zenodo.15682352
title: MMP12 Umbrella Sampling MD Dataset

description: MMP12 inhibitor discovery dataset - Part 3 of 3. Comprehensive umbrella sampling molecular dynamics analysis for free energy calculations. Contains 6 different inhibitor complexes and binding studies.
DOI: 10.60503/d3/sxgx7w
title: Institute of Governmental Studies (IGS) Poll, 2017-05-04

description: The Berkeley IGS Poll is a periodic survey of California public opinion on important matters of politics, public policy, and public issues. The poll, which is disseminated widely, seeks to provide a broad measure of contemporary public opinion, and to generate data for subsequent scholarly analysis. For IGS Poll press releases please visit: eScholarship IGS Poll Press Releases
DOI: 10.5281/zenodo.15685203
title: From forests to savannas: Evidence of mandibular shape adaptation in Neotropical monkeys

description: <p>This repository contains the complete dataset and R scripts necessary to reproduce all analyses and figures presented in the article:</p>

<p>Chuma, L.L., Cerezer, F.O., & Cáceres, N.C. (2025). <strong>From forests to savannas: Evidence of mandibular shape adaptation in Neotropical monkeys</strong>. In submission</p>

<hr>

<h3><strong>Abstract</strong></h3><p>Mandibular shape in primates can reflect more than just dietary function; it could carry signals of ecological adaptations and evolutionary constraint, often overlapping in complex ways. In this study, we investigated mandibular variation in robust Capuchin monkeys (<em>Sapajus</em> spp.) across contrasting South American biomes, ranging from humid forests to dry, seasonal savannas, which provide distinct resource availability. Through geometric morphometrics analyses and accounting for shared ancestry, we tested how shape is structured by different predictors. Our results revealed a strong and consistent allometric relationship shaping mandibular form, shared across different biomes. However, shape differences after correcting for allometry became even clearer, highlighting not only a divergence across distinct biomes (forest vs. savanna) but also a convergence under similar environmental pressure (within savanna). Furthermore, monkeys inhabiting dry and seasonal areas tend to show relatively shorter and more robust mandibles, consistent with functional adaptations to fallback foods. Climatic variables, particularly those linked to precipitation and thermal seasonality, were significantly associated with mandible size variation. Phylogenetic signals, in contrast, are weak and often nonsignificant, suggesting that environmental pressures are more important than shared ancestry in this group.</p>

<hr>

<h3><strong>Contents</strong></h3><ul>    <li><strong>/data:</strong> Contains raw landmark data (.tps), phylogenetic tree (.tre), and metadata files (.csv) for climate and specimen information.</li>    <li><strong>/R:</strong> Contains all R scripts, numbered for sequential execution, to perform data processing, geometric morphometric analyses, phylogenetic comparative methods, and figure generation.</li></ul>
DOI: 10.15468/dl.xf6me3
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Enneacampus kaupi (Bleeker, 1863)",
 "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 ((14.0551 -24.7971,14.1824 -24.9401,19.1382 -24.9401,19.1382 -15.9401,11.232 -15.9401,11.1685 -16.5532,11.3443 -18.2026,12.161 -19.3946,13.5014 -21.9972,13.9613 -22.5582,13.9546 -24.0815,14.0551 -24.7971))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052065-250525065834625/datasets/export for details.
DOI: 10.15468/dl.psnun7
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pentameris thuarii P.Beauv.",
 "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 ((27.1586 -33.5889,28.2048 -32.9007,25.5395 -32.9007,25.5395 -34.1098,25.6468 -34.1222,25.7787 -34.0734,25.7098 -33.9109,25.8639 -33.797,26.4806 -33.8473,27.1586 -33.5889))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052066-250525065834625/datasets/export for details.
DOI: 10.15468/dl.wnk6mb
title: Occurrence Download

description: A dataset containing 5062 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Eragrostis intermedia Hitchc."
 ]
}

 The dataset includes 5062 records from 196 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052068-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.w85rrb
title: Occurrence Download

description: A dataset containing 3525 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Vaccinium fuscatum Aiton"
 ]
}

 The dataset includes 3525 records from 102 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052070-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qmeu7n
title: Occurrence Download

description: A dataset containing 5238 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is Specimen",
 "SpeciesKey is Agkistrodon contortrix (Linnaeus, 1766)"
 ]
}

 The dataset includes 5238 records from 49 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052069-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vn25uu
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pentameris thuarii P.Beauv.",
 "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 ((18.2339 -32.5266,18.1411 -32.657,18.1007 -32.7021,18.0224 -32.6366,17.8923 -32.6419,17.754 -32.8255,17.7723 -32.9007,20.509 -32.9007,20.509 -28.5786,16.2782 -28.5786,16.4358 -28.7202,16.726 -29.1235,17.1957 -30.3752,17.6655 -31.1743,18.1322 -31.7679,18.2495 -32.2638,18.2339 -32.5266))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052071-250525065834625/datasets/export for details.
DOI: 10.15468/dl.vxhjm7
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Enneacampus kaupi (Bleeker, 1863)",
 "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 ((11.254 -15.728,11.232 -15.9401,19.1382 -15.9401,19.1382 -6.9401,12.1951 -6.9401,12.344 -7.1754,12.8488 -8.4495,12.5495 -8.8082,12.5162 -9.2401,13.3445 -11.0815,13.2057 -11.9763,12.5854 -12.4817,12.0545 -13.266,11.8142 -14.5077,11.254 -15.728))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052073-250525065834625/datasets/export for details.
DOI: 10.15468/dl.53x4rb
title: Occurrence Download

description: A dataset containing 1291 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Butterflies"
 ]
}

 The dataset includes 1291 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052072-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15683925
title: Attributtabellen zu Projekt Flächen- und Zeitreihenanalysen (Urbanisierung mit CLC) (Methodik 4.2)

description: mit ArcGIS Pro erstellte Attributtabellen. Anhang für die Bachelorarbeit den Teil der Projekt Flächen- und Zeitreihenanalysen (Urbanisierung mit CLC) (Methodik 4.2)
DOI: 10.5281/zenodo.15683926
title: Attributtabellen zu Projekt Flächen- und Zeitreihenanalysen (Urbanisierung mit CLC) (Methodik 4.2)

description: mit ArcGIS Pro erstellte Attributtabellen. Anhang für die Bachelorarbeit den Teil der Projekt Flächen- und Zeitreihenanalysen (Urbanisierung mit CLC) (Methodik 4.2)
DOI: 10.25934/pr00011476
title: Data Challenge: Implementing change-point detection algorithms across time-series resistance

description: Expression of Interest – AMR Data Challenge 2025
We are excited to express our interest in participating in the 2025 AMR Data Challenge, building on our 2024 ResistAI platform. By leveraging a robust data foundation—including Pfizer ATLAS, Paratek KEYSTONE, and EARS surveillance datasets—we aim to integrate high-impact innovations that transform antimicrobial resistance (AMR) data into actionable insights across clinical, stewardship, public health, and health system levels.
1. Helping Improve Patient Outcomes
We will integrate Explainable AI (XAI) into our predictive models using SHAP values, enabling clinicians to understand the specific factors—such as geography, age, or drug usage—that drive a resistance prediction. This transparency empowers evidence-based prescribing decisions, reduces treatment failure, and tailors care to patient subgroups at greatest risk of resistance.
2. Strengthening Antimicrobial Stewardship
Our enhanced platform will include change-point detection algorithms (via Python’s ruptures library) to identify sudden shifts in resistance trends. These early alerts allow hospitals and stewardship teams to adjust formularies or prescribing behavior proactively—before resistance becomes entrenched.
3. Informing Public Health Practice
By stratifying resistance forecasts by region, age group, and pathogen, and highlighting temporal changes, we provide public health stakeholders with timely insights into emerging AMR threats. These tools can support surveillance programs, prioritize interventions, and align with WHO’s goals for early-warning AMR systems.
4. Strengthening Health Systems
Our user-friendly, web-based platform democratizes access to advanced analytics, even in low-resource settings. Scalable, interpretable, and responsive, it offers health systems a powerful decision-support tool that integrates forecasting, explainability, and surveillance into one accessible interface
Through these innovations, we aim to not just predict AMR—but to help understand, act, and intervene in meaningful ways. We look forward to contributing significantly to the 2025 challenge and supporting global efforts to combat AMR.
DOI: 10.15468/dl.r8uycj
title: Occurrence Download

description: A dataset containing 1023 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cyprinella proserpina (Girard, 1856)"
 ]
}

 The dataset includes 1023 records from 30 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052074-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qrpr6z
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pentameris thuarii P.Beauv.",
 "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 ((15.6372 -28.0032,16.2782 -28.5786,20.509 -28.5786,20.509 -24.0715,15.4933 -24.0715,15.4945 -24.1257,16.0509 -25.6631,15.6372 -28.0032))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052075-250525065834625/datasets/export for details.
DOI: 10.5281/zenodo.15683989
title: Attributtabelle aus ArcGIs Pro für Hotspotanalysen (Bevölkerung und Immobilienpreise auf Bezirksebene) (4.4 Methodik)

description: mit ArcGIS Pro erstellte Attributtabellen. Anhang für die Bachelorarbeit im Teil des Projekts Hotspotanalysen (Bevölkerung und Immobilienpreise auf Bezirksebene) (4.4 Methodik)
DOI: 10.5281/zenodo.15683988
title: Attributtabelle aus ArcGIs Pro für Hotspotanalysen (Bevölkerung und Immobilienpreise auf Bezirksebene) (4.4 Methodik)

description: mit ArcGIS Pro erstellte Attributtabellen. Anhang für die Bachelorarbeit im Teil des Projekts Hotspotanalysen (Bevölkerung und Immobilienpreise auf Bezirksebene) (4.4 Methodik)
DOI: 10.15468/dl.vfh5b5
title: Occurrence Download

description: A dataset containing 56 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is USA.40_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Terrapene carolina carolina",
 "Year 2015-2025"
 ]
}

 The dataset includes 56 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052076-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/12199061
title: Peer-to-Peer Boliviano (BOB) Exchange Data