cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/tkj5tj
title: FSFN: Forest Soil Fauna Network: Collembola, Flanders Belgium

description: In the period 1997-1998, the Flemish Forest Service funded a study (B&G/29/98) that initiated a region-wide soil fauna survey by a consortium of three Universities (RuG, KuL and UA; now University of Ghent, KU Leuven and University of Antwerp) and two Research Institutes (IBW and RBINS; now INBO and RBINS ) . The survey was conducted on 56 well selected forest plots representative for all forest- and soil types in Flanders Region.The goals of the study were (1) to assess the diversity of soil dwelling organisms (soil fauna) across Flanders’ forests; (2) to look for bioindicators for forest soil quality and (3) to explore if a biological forest soil classification system based on soil fauna composition could be designed. Recognizing the critical role of soil organisms in ecosystem functioning (e.g. nutrient cycling), the study sought to establish a link between soil biodiversity and soil condition. Here we publish the Collembola data sampled in this initial project, as a T0. Over time, other organism groups and soil bioindicators were assessed on the same FSFN plots by various studies. However, 25 years later, all plots are getting resurveyed by the studies ‘FOURCAST’ and ‘Biota4C’ following the same sampling schemes and methodologies as in the initial project. Therefore we wish to publish all initial datasets in order to compare them with the recent findings. All published data can be retrieved using collectionCode ‘FSFN’Issues with the dataset can be reported at https://github.com/inbo/data-publication-fsfn/issuesWe have released this dataset to the public domain under a Creative Commons Zero waiver. We would appreciate it if you follow the INBO norms for data use (https://www.inbo.be/en/norms-data-use) when using the data. If you have any questions regarding this dataset, don't hesitate to contact us via the contact information provided in the metadata or via opendata@inbo.be.For all published Soil classification datasets, see https://www.gbif.org/dataset/search?project_id=fsfn
DOI: 10.5281/zenodo.17900560
title: A Jupiter System III–Locked Modulation in Global Ground Magnetometer Data

description: We report evidence for a nanotesla-scale component in 2020 ground Z-magnetometer data that is phase-locked to Jupiter’s System III rotation. Using ephemeris-locked mixing, Welch PSD, extensive surrogate/null tests, and quiet-time AE/Dst/Kp gating, we find a persistent spectral envelope consistent with a System III reference.Robustness: comparisons to randomized ephemerides; sensitivity to AE/Dst/Kp thresholds; Welch segment/overlap/taper variants; X/Y vs Z controls; station-level consistency and out-of-sample checks.Reproducibility: package includes station manifest, cohort-windows-cvs (set→months), scripts, and checksums plus Supplements A1–A4.

Licensing: Text/figures CC BY 4.0. Code/scripts Apache-2.0 (see LICENSE in the ZIP).Data citation: INTERMAGNET; WDC Kyoto AE/Dst (DOIs: 10.17593/15031-54800, 10.17593/14515-74000); GFZ Kp (DOI: 10.5880/Kp.0001); NASA/JPL HORIZONS (Giorgini et al., 1996).ORCID: https://orcid.org/0009-0003-5655-0052
description: Version v4.3.1 update. 2025-12-11 This version aligns the white paper and archive with the AGU Earth and Space Science transfer. It adds the Remaining_sets_robustness directory with summary robustness outputs for the other station sets, includes a new carrier+Io sideband schematic (Figure 4), and expands the Open Research section and data citation to point explicitly to this Zenodo package. The locked estimator, headline Z_tot ≈ 6.5σ, and main physical conclusions are unchanged.
DOI: 10.15468/dl.gubyfq
title: Occurrence Download

description: A dataset containing 513 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is Mexico",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Sisymbrium irio"
 ]
}

 The dataset includes 513 records from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047502-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17333201
title: A Jupiter System III–Locked Modulation in Global Ground Magnetometer Data

description: We report evidence for a nanotesla-scale component in 2020 ground Z-magnetometer data that is phase-locked to Jupiter’s System III rotation. Using ephemeris-locked mixing, Welch PSD, extensive surrogate/null tests, and quiet-time AE/Dst/Kp gating, we find a persistent spectral envelope consistent with a System III reference.Robustness: comparisons to randomized ephemerides; sensitivity to AE/Dst/Kp thresholds; Welch segment/overlap/taper variants; X/Y vs Z controls; station-level consistency and out-of-sample checks.Reproducibility: package includes station manifest, cohort-windows-cvs (set→months), scripts, and checksums plus Supplements A1–A4.

Licensing: Text/figures CC BY 4.0. Code/scripts Apache-2.0 (see LICENSE in the ZIP).Data citation: INTERMAGNET; WDC Kyoto AE/Dst (DOIs: 10.17593/15031-54800, 10.17593/14515-74000); GFZ Kp (DOI: 10.5880/Kp.0001); NASA/JPL HORIZONS (Giorgini et al., 1996).ORCID: https://orcid.org/0009-0003-5655-0052
description: Version v4.3.1 update. 2025-12-11 This version aligns the white paper and archive with the AGU Earth and Space Science transfer. It adds the Remaining_sets_robustness directory with summary robustness outputs for the other station sets, includes a new carrier+Io sideband schematic (Figure 4), and expands the Open Research section and data citation to point explicitly to this Zenodo package. The locked estimator, headline Z_tot ≈ 6.5σ, and main physical conclusions are unchanged.
DOI: 10.15468/dl.z4p52z
title: Occurrence Download

description: A dataset containing 38851 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CoordinateUncertaintyInMeters 0.0-1000.0",
 "Geometry POLYGON((-6.25617 41.0851,27.48128 41.0851,27.48128 72.26782,-6.25617 72.26782,-6.25617 41.0851))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Selaginella selaginoides"
 ]
}

 The dataset includes 38851 records from 183 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047500-251120083545085/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.30862121
title: Plasma injection probe

description: Plasma injection probe dataset
DOI: 10.6084/m9.figshare.30862121.v2
title: Plasma injection probe

description: Plasma injection probe dataset
DOI: 10.6084/m9.figshare.30862121.v1
title: Plasma injection probe

description: Plasma injection probe dataset
DOI: 10.15468/dl.xtsxw3
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{"type":"and","predicates":[{"type":"within","geometry":"POLYGON ((113.45 -0.9868170000000001, 113.379727 -0.992383, 113.311183 -1.008945, 113.246055 -1.036094, 113.185948 -1.073163, 113.132339 -1.119238, 113.086549 -1.173187, 113.049706 -1.23368, 113.022717 -1.299229, 113.006247 -1.36822, 113.000702 -1.438955, 113.006219 -1.509693, 113.022665 -1.57869, 113.049635 -1.644249, 113.086465 -1.704755, 113.132251 -1.758716, 113.185863 -1.804805, 113.245984 -1.841886, 113.311131 -1.869045, 113.379699 -1.885613, 113.45 -1.891181, 113.520301 -1.885613, 113.588869 -1.869045, 113.654016 -1.841886, 113.714137 -1.804805, 113.767749 -1.758716, 113.813535 -1.704755, 113.850365 -1.644249, 113.877335 -1.57869, 113.893781 -1.509693, 113.899298 -1.438955, 113.893753 -1.36822, 113.877283 -1.299229, 113.850294 -1.23368, 113.813451 -1.173187, 113.767661 -1.119238, 113.714052 -1.073163, 113.653945 -1.036094, 113.588817 -1.008945, 113.520273 -0.992383, 113.45 -0.9868170000000001))"},{"type":"equals","key":"CLASS_KEY","value":"212","matchCase":false},{"type":"greaterThanOrEquals","key":"YEAR","value":"2015","matchCase":false},{"type":"not","predicate":{"type":"in","key":"BASIS_OF_RECORD","values":["MATERIAL_CITATION","MATERIAL_SAMPLE","PRESERVED_SPECIMEN"],"matchCase":false}},{"type":"lessThanOrEquals","key":"COORDINATE_UNCERTAINTY_IN_METERS","value":"10000","matchCase":false},{"type":"equals","key":"LICENSE","value":"CC BY 4.0","matchCase":false}]}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047503-251120083545085/datasets/export for details.
DOI: 10.15468/dl.3wgr3m
title: Occurrence Download

description: A dataset containing 51533 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Continent is Europe",
 "TaxonKey is Xylocopa violacea"
 ]
}

 The dataset includes 51533 records from 744 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047415-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xb24qy
title: Occurrence Download

description: A dataset containing 20394 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((12.469457 63.224658, 12.487681 63.290493, 12.387746 63.290493, 12.369668 63.224658, 12.469457 63.224658))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2015",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 20394 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047504-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17899193
title: BacTaxID: reproducible analysis pipeline and genomic datasets for publication

description: BacTaxID Supplementary Analysis Workflow

Description

This repository contains the complete reproducible analytical workflow for validating and benchmarking the BacTaxID bacterial classification system. The analysis encompasses comprehensive performance evaluation across multiple clinically relevant bacterial genera, including comparative studies with established typing methodologies and outbreak detection case studies.

Overview

BacTaxID is a hierarchical k-mer-based bacterial classification system that assigns genomic signatures to six taxonomic levels (L_0 through L_5) using locality-sensitive hashing (LSH) and k-mer profiling algorithms. This supplementary material provides detailed computational validation demonstrating that BacTaxID classifications exhibit strong concordance with:





Multi-locus sequence typing (MLST)




In silico serotyping (HiCap, SISTR, ClermonTyping)




Phylogenetic grouping systems




Species-level profiling tools (Sylph, miniphy)




Alternative ANI estimation methods (Mash, Sourmash, BinDash)



Analysis Scope

1. Database Completeness Assessment





Quantification of classification completeness across hierarchical levels




Correlation analysis between database size and classification success




Distribution of reference genomes across bacterial genera




Identification of sampling biases and coverage gaps



2. Taxonomic Concordance Validation

Eight clinically important bacterial genera analyzed:





Klebsiella species complex - Validation against Kleborate (MLST, virulence, resistance)




Haemophilus species complex - HiCap capsular serotyping and MLST concordance




Salmonella enterica - Serovar prediction, cgMLST, and SISTR concordance




Escherichia coli - Phylogroup assignment (ClermonTyping) and MLST validation




Streptococcus species - MLST-based typing concordance




Staphylococcus species - Species identification and ST distribution




Enterococcus species - Species-level resoluti
DOI: 10.15468/dl.rs4aca
title: Occurrence Download

description: A dataset containing 189339 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON((-92.56221 14.75083,-93.49373 13.95239,-90.20238 12.55956,-89.46604 13.41123,-92.56221 14.75083))"
 ]
}

 The dataset includes 189339 records from 299 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0047375-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tms7jr
title: Occurrence Download

description: A dataset containing 549939 species occurrences available in GBIF matching the query:
{
 "and" : [
 "SpeciesKey is one of (Strix varia Barton, 1799)",
 "BasisOfRecord is one of (Human Observation, Observation, Occurrence evidence)",
 "Year is greater than or equal to 1901",
 "Year is less than or equal to 2019",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 549939 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008990-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kfxv5u
title: Occurrence Download

description: A dataset containing 18973 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Scolymus hispanicus L.",
 "OccurrenceStatus is Present",
 "Country is not null",
 "Year is not null"
 ]
}

 The dataset includes 18973 records from 280 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008994-241007104925546/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.27000547.v1
title: Associations between visceral and liver fat and cardiac structure and function: a UK Biobank study

description: Supplementary figure and tables summarise the associations between visceral fat, liver fat and cardiac remodelling in the general population in the UK Biobank.
DOI: 10.6084/m9.figshare.25593075.v1
title: Supplementary table 4

description: Ticks are vectors of arboviruses in many parts of the world. The rising incidence and emergence of tick-borne arboviral infections across human populations indicates that further transmission control strategies including those based on vectors, will be required to reduce the burden of disease. However, arbovirus-tick interactions at the cellular level remain poorly understood in general, and particularly neglected for negative strand RNA arboviruses.In this study we developed a proteomics informed by transcriptomics approach to characterize the cellular response of <i>Rhipicephalus microplus-</i>derived cell cultures to infection with tick-borne severe fever with thrombocytopenia syndrome virus (SFTSV, <i>Phenuiviridae</i>). For this, we generated the first <i>de novo</i> transcriptomes and confirmed proteomes of infected and uninfected tick vector cells for SFTSV. Through comprehensive annotation of genes and proteins and pathway analysis, we identified core host responses and regulatory processes to SFTSV infection. Moreover, the viral nucleoprotein N interactome allowed us to integrate host responses with the analysis of cellular factors required for viral replication. The influence of specific genes on viral replication was assessed through dsRNA-mediated gene silencing, pinpointing two tick proteins, the RNA helicase DHX9 and the Up Frameshift Protein 1 (UPF1), as a critical antiviral tick protein controlling SFTSV. Collectively, our findings enrich the repository of resources available for understanding the antiviral response in <i>Rh. microplus</i> vector cells to SFTSV infection and pave the way for the development of novel vector control strategies.
DOI: 10.6084/m9.figshare.25592907.v1
title: Supplementary Table 4

description: Ticks are vectors of arboviruses in many parts of the world. The rising incidence and emergence of tick-borne arboviral infections across human populations indicates that further transmission control strategies including those based on vectors, will be required to reduce the burden of disease. However, arbovirus-tick interactions at the cellular level remain poorly understood in general, and particularly neglected for negative strand RNA arboviruses.In this study we developed a proteomics informed by transcriptomics approach to characterize the cellular response of <i>Rhipicephalus microplus-</i>derived cell cultures to infection with tick-borne severe fever with thrombocytopenia syndrome virus (SFTSV, <i>Phenuiviridae</i>). For this, we generated the first <i>de novo</i> transcriptomes and confirmed proteomes of infected and uninfected tick vector cells for SFTSV. Through comprehensive annotation of genes and proteins and pathway analysis, we identified core host responses and regulatory processes to SFTSV infection. Moreover, the viral nucleoprotein N interactome allowed us to integrate host responses with the analysis of cellular factors required for viral replication. The influence of specific genes on viral replication was assessed through dsRNA-mediated gene silencing, pinpointing two tick proteins, the RNA helicase DHX9 and the Up Frameshift Protein 1 (UPF1), as a critical antiviral tick protein controlling SFTSV. Collectively, our findings enrich the repository of resources available for understanding the antiviral response in <i>Rh. microplus</i> vector cells to SFTSV infection and pave the way for the development of novel vector control strategies.
DOI: 10.6084/m9.figshare.27000547
title: Associations between visceral and liver fat and cardiac structure and function: a UK Biobank study

description: Supplementary figure and tables summarise the associations between visceral fat, liver fat and cardiac remodelling in the general population in the UK Biobank.
DOI: 10.15468/dl.u4ssmw
title: Occurrence Download

description: A dataset containing 82 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Bolitoglossa sima (Vaillant, 1911)"
 ]
}

 The dataset includes 82 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008998-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dngxde
title: Occurrence Download

description: A dataset containing 37569 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Batrachoseps attenuatus (Eschscholtz, 1833)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1850",
 "StateProvince is California"
 ]
}

 The dataset includes 37569 records from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008996-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e9twzf
title: Occurrence Download

description: A dataset containing 2598 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Scolymus maculatus L.",
 "OccurrenceStatus is Present",
 "Country is not null",
 "Year is not null"
 ]
}

 The dataset includes 2598 records from 130 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008997-241007104925546/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.25593075
title: Supplementary table 4

description: Ticks are vectors of arboviruses in many parts of the world. The rising incidence and emergence of tick-borne arboviral infections across human populations indicates that further transmission control strategies including those based on vectors, will be required to reduce the burden of disease. However, arbovirus-tick interactions at the cellular level remain poorly understood in general, and particularly neglected for negative strand RNA arboviruses.In this study we developed a proteomics informed by transcriptomics approach to characterize the cellular response of <i>Rhipicephalus microplus-</i>derived cell cultures to infection with tick-borne severe fever with thrombocytopenia syndrome virus (SFTSV, <i>Phenuiviridae</i>). For this, we generated the first <i>de novo</i> transcriptomes and confirmed proteomes of infected and uninfected tick vector cells for SFTSV. Through comprehensive annotation of genes and proteins and pathway analysis, we identified core host responses and regulatory processes to SFTSV infection. Moreover, the viral nucleoprotein N interactome allowed us to integrate host responses with the analysis of cellular factors required for viral replication. The influence of specific genes on viral replication was assessed through dsRNA-mediated gene silencing, pinpointing two tick proteins, the RNA helicase DHX9 and the Up Frameshift Protein 1 (UPF1), as a critical antiviral tick protein controlling SFTSV. Collectively, our findings enrich the repository of resources available for understanding the antiviral response in <i>Rh. microplus</i> vector cells to SFTSV infection and pave the way for the development of novel vector control strategies.
DOI: 10.6084/m9.figshare.25592907
title: Supplementary Table 4

description: Ticks are vectors of arboviruses in many parts of the world. The rising incidence and emergence of tick-borne arboviral infections across human populations indicates that further transmission control strategies including those based on vectors, will be required to reduce the burden of disease. However, arbovirus-tick interactions at the cellular level remain poorly understood in general, and particularly neglected for negative strand RNA arboviruses.In this study we developed a proteomics informed by transcriptomics approach to characterize the cellular response of <i>Rhipicephalus microplus-</i>derived cell cultures to infection with tick-borne severe fever with thrombocytopenia syndrome virus (SFTSV, <i>Phenuiviridae</i>). For this, we generated the first <i>de novo</i> transcriptomes and confirmed proteomes of infected and uninfected tick vector cells for SFTSV. Through comprehensive annotation of genes and proteins and pathway analysis, we identified core host responses and regulatory processes to SFTSV infection. Moreover, the viral nucleoprotein N interactome allowed us to integrate host responses with the analysis of cellular factors required for viral replication. The influence of specific genes on viral replication was assessed through dsRNA-mediated gene silencing, pinpointing two tick proteins, the RNA helicase DHX9 and the Up Frameshift Protein 1 (UPF1), as a critical antiviral tick protein controlling SFTSV. Collectively, our findings enrich the repository of resources available for understanding the antiviral response in <i>Rh. microplus</i> vector cells to SFTSV infection and pave the way for the development of novel vector control strategies.
DOI: 10.15468/dl.kc58wj
title: Occurrence Download

description: A dataset containing 627 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Scolymus grandiflorus Desf.",
 "OccurrenceStatus is Present",
 "Country is not null",
 "Year is not null"
 ]
}

 The dataset includes 627 records from 60 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008999-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.de5544
title: Occurrence Download

description: A dataset containing 899 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Didelta carnosa (L.fil.) Aiton",
 "OccurrenceStatus is Present",
 "Country is not null",
 "Year is not null"
 ]
}

 The dataset includes 899 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009000-241007104925546/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.