cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.18112/openneuro.ds006450.v1.0.0
title: 7T spinal cord fMRI dataset1
DOI: 10.5281/zenodo.16022194
title: Intermittent Vibrational after ACLR

description: Dataset related to the paper "Intermittent Vibrational Stimulation Can Affect the Lower Limb Kinematics Three Months After Anterior Cruciate Ligament Reconstruction: A Randomised Controlled Trial"
DOI: 10.5281/zenodo.16022193
title: Intermittent Vibrational after ACLR

description: Dataset related to the paper "Intermittent Vibrational Stimulation Can Affect the Lower Limb Kinematics Three Months After Anterior Cruciate Ligament Reconstruction: A Randomised Controlled Trial"
DOI: 10.15468/dl.mcdn74
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Paspalum dilatatum",
 "Country is Slovenia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000024-250717074847783/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tb72en
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is BOLD:AAY3429"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000026-250717074847783/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9xbng5
title: Occurrence Download

description: A dataset containing 1472288 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tracheophyta",
 "Country is Ukraine",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1472288 records from 334 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000017-250717074847783/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wk8azb
title: Occurrence Download

description: A dataset containing 66 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Solenopsis richteri, Xylosandrus crassiusculus, Schizachyrium scoparium, Heracleum sosnowskyi, Turanoclytus namaganensis, Megaplatypus mutatus, Humulus scandens, Tetropium gracilicorne, Xylosandrus crassiusculus, Anoplophora glabripennis, Anoplophora glabripennis, Polygraphus proximus, Hyphantria cunea, Agrilus anxius, Heracleum persicum, Agrilus auroguttatus, Agrilus planipennis, Sicyos angulatus, Lymantria mathura, Enaphalodes rufulus, Dendrolimus superans, Solanum carolinense, Pulvinaria hydrangeae, Corythucha arcuata, Hylobitelus xiaoi, Vespa mandarinia, Saperda candida, Microstegium vimineum, Xylosandrus mutilatus, Dendrolimus sibiricus, Platypus quercivorus, Pulvinaria hydrangeae, Xylosandrus germanus, Sirex ermak, Megachile sculpturalis, Phedimus stolonifer, Agrilus planipennis, Amaranthus tuberculatus, Toumeyella parvicornis, Baccharis spicata, Vespula pensylvanica, Dryocosmus kuriphilus, Gryon japonicum)",
 "Year is one of (2000, 2001, 2002, 2003, 2004, 2005, 2006, 2007, 2008, 2009, 2010, 2011, 2012, 2013, 2014, 2015, 2016, 2017, 2018, 2019, 2020, 2021, 2022, 2023, 2024, 2025)",
 "DecimalLatitude is greater than or equal to -46.681898695999905",
 "DecimalLatitude is less than or equal to -2.555840752999927",
 "DecimalLongitude is greater than or equal to 113.156979514",
 "DecimalLongitude is less than or equal to 178.56617272200003",
 "Year is not null",
 "HasCoordinate is TRUE",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is FALSE"
 ]
}

 The dataset includes 66 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000028-250717074847783/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.29588924
title: data.docx

description: Cervical cancer remains a significant global health burden, and CCRT is a standard treatment for locally advanced cases. However, patient outcomes vary widely, and there is a critical need for reliable prognostic tools to guide personalized treatment strategies. In this study, we integrated multi-omics data from GEO and TCGA to identify key biomarkers and construct a robust prognostic model. Our model was further validated using an independent cohort, demonstrating its potential clinical utility in predicting survival outcomes for cervical cancer patients undergoing CCRT.
DOI: 10.6084/m9.figshare.29588924.v1
title: data.docx

description: Cervical cancer remains a significant global health burden, and CCRT is a standard treatment for locally advanced cases. However, patient outcomes vary widely, and there is a critical need for reliable prognostic tools to guide personalized treatment strategies. In this study, we integrated multi-omics data from GEO and TCGA to identify key biomarkers and construct a robust prognostic model. Our model was further validated using an independent cohort, demonstrating its potential clinical utility in predicting survival outcomes for cervical cancer patients undergoing CCRT.
DOI: 10.5281/zenodo.14273587
title: Supplementary dataset to publication: Accurately assembling nanopore sequencing data of highly pathogenic bacteria for outbreak analysis

description: Background: Bacterial genome exploration and outbreak analysis rely heavily on robust whole-genome sequencing and bioinformatics analysis. Widely-used genomic methods, such as genotyping and detection of genetic markers demand high sequencing accuracy and precise genome assembly for reliable results. 

Methods: To assess the utility of nanopore sequencing for genotyping highly pathogenic bacteria with low mutation rates, we sequenced six reference strains using Oxford Nanopore Technologies (ONT) R10.4.1 chemistry and Illumina and evaluated different assembly strategies. The publicly available RefSeq assemblies were chosen as the ground truth. Publicly available sequencing data from key foodborne and public-health-related bacterial pathogens were examined to provide a broader context for the analysis.

Results: While for Bacillus (Ba.) anthracis an almost perfect assembly was achieved, results varied for other species. For Brucella (Br.) spp., the final assemblies comprised five to 46 different nucleotides in comparison to Sanger-sequenced references. For some key foodborne and public-health-related bacterial pathogens (Klebsiella (K.) variicola, Listeria spp., Mycobacterium (M.) tuberculosis, Staphylococcus (Sta.) aureus, and Streptococcus (Str.) pyogenes) perfect genomes were obtained. Enhanced basecalling models have generally improved assembly accuracy, however, for certain species such as Br. abortus, older models have produced higher accuracy. While long-read polishing mainly improves assembly quality with only one round needed, our results indicate that this process may also degrade assembly quality. Overall, 81% of the observed errors in ONT assemblies were located within coding sequences (CDS). Furthermore, we found that methylation caused 6.5% of the errors, and the bacterial methylation-aware medaka polishing model reduced the number of errors linked to methylation. Core-genome Multilocus Sequence Typing (cgMLST) analysis revealed allele differences in Ba. anthracis, Br. abortus, and Francisella (F.) tularensis for some assemblers, although with fewer than five allele differences. In the case of Br. melitensis, some assemblies included five allele differences, whereas for Br. suis the correct cgMLST alleles were observed.

Conclusions: Assembling nanopore data from pathogenic bacteria vary in quality across different species and methods. However, errors persist in the final assemblies, including within cgMLST loci, influencing the reliability of outbreak predictions. Nevertheless, specific combinations of existing tools can generate perfect genome assemblies from bacterial ONT sequencing data for outbreak analysis without short-read polishing.
description: Link URL: https://www.ebi.ac.uk/ena/browser/view/PRJEB83096 and https://www.ebi.ac.uk/ena/browser/view/PRJEB88823 

Sequencing data was submitted to ENA and is available under acession number PRJEB83096 and PRJEB88823.
DOI: 10.5281/zenodo.14273588
title: Supplementary dataset to publication: Accurately assembling nanopore sequencing data of highly pathogenic bacteria for outbreak analysis

description: Background: Bacterial genome exploration and outbreak analysis rely heavily on robust whole-genome sequencing and bioinformatics analysis. Widely-used genomic methods, such as genotyping and detection of genetic markers demand high sequencing accuracy and precise genome assembly for reliable results. 

Methods: To assess the utility of nanopore sequencing for genotyping highly pathogenic bacteria with low mutation rates, we sequenced six reference strains using Oxford Nanopore Technologies (ONT) R10.4.1 chemistry and Illumina and evaluated different assembly strategies. The publicly available RefSeq assemblies were chosen as the ground truth. Publicly available sequencing data from key foodborne and public-health-related bacterial pathogens were examined to provide a broader context for the analysis.

Results: While for Bacillus (Ba.) anthracis an almost perfect assembly was achieved, results varied for other species. For Brucella (Br.) spp., the final assemblies comprised five to 46 different nucleotides in comparison to Sanger-sequenced references. For some key foodborne and public-health-related bacterial pathogens (Klebsiella (K.) variicola, Listeria spp., Mycobacterium (M.) tuberculosis, Staphylococcus (Sta.) aureus, and Streptococcus (Str.) pyogenes) perfect genomes were obtained. Enhanced basecalling models have generally improved assembly accuracy, however, for certain species such as Br. abortus, older models have produced higher accuracy. While long-read polishing mainly improves assembly quality with only one round needed, our results indicate that this process may also degrade assembly quality. Overall, 81% of the observed errors in ONT assemblies were located within coding sequences (CDS). Furthermore, we found that methylation caused 6.5% of the errors, and the bacterial methylation-aware medaka polishing model reduced the number of errors linked to methylation. Core-genome Multilocus Sequence Typing (cgMLST) analysis revealed allele differences in Ba. anthracis, Br. abortus, and Francisella (F.) tularensis for some assemblers, although with fewer than five allele differences. In the case of Br. melitensis, some assemblies included five allele differences, whereas for Br. suis the correct cgMLST alleles were observed.

Conclusions: Assembling nanopore data from pathogenic bacteria vary in quality across different species and methods. However, errors persist in the final assemblies, including within cgMLST loci, influencing the reliability of outbreak predictions. Nevertheless, specific combinations of existing tools can generate perfect genome assemblies from bacterial ONT sequencing data for outbreak analysis without short-read polishing.
description: Link URL: https://www.ebi.ac.uk/ena/browser/view/PRJEB83096 and https://www.ebi.ac.uk/ena/browser/view/PRJEB88823 

Sequencing data was submitted to ENA and is available under acession number PRJEB83096 and PRJEB88823.
DOI: 10.5281/zenodo.16022303
title: Simulation results for "Assessing and enhancing Noah-MP land surface modeling over tropical environments"
DOI: 10.5281/zenodo.16022302
title: Simulation results for "Assessing and enhancing Noah-MP land surface modeling over tropical environments"
DOI: 10.15468/dl.wxk763
title: Occurrence Download

description: A dataset containing 457 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Solenopsis richteri, Xylosandrus crassiusculus, Schizachyrium scoparium, Heracleum sosnowskyi, Turanoclytus namaganensis, Megaplatypus mutatus, Humulus scandens, Tetropium gracilicorne, Xylosandrus crassiusculus, Anoplophora glabripennis, Anoplophora glabripennis, Polygraphus proximus, Hyphantria cunea, Agrilus anxius, Heracleum persicum, Agrilus auroguttatus, Agrilus planipennis, Sicyos angulatus, Lymantria mathura, Enaphalodes rufulus, Dendrolimus superans, Solanum carolinense, Pulvinaria hydrangeae, Corythucha arcuata, Hylobitelus xiaoi, Vespa mandarinia, Saperda candida, Microstegium vimineum, Xylosandrus mutilatus, Dendrolimus sibiricus, Platypus quercivorus, Pulvinaria hydrangeae, Xylosandrus germanus, Sirex ermak, Megachile sculpturalis, Phedimus stolonifer, Agrilus planipennis, Amaranthus tuberculatus, Toumeyella parvicornis, Baccharis spicata, Vespula pensylvanica, Dryocosmus kuriphilus, Gryon japonicum)",
 "Year is one of (2020, 2021, 2022, 2023, 2024)",
 "DecimalLatitude is greater than or equal to 47.3024876979",
 "DecimalLatitude is less than or equal to 54.983104153",
 "DecimalLongitude is greater than or equal to 5.98865807458",
 "DecimalLongitude is less than or equal to 15.0169958839",
 "Year is not null",
 "HasCoordinate is TRUE",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is FALSE"
 ]
}

 The dataset includes 457 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000027-250717074847783/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rc8h99
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Paspalum dilatatum",
 "Country is Solomon Islands",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000029-250717074847783/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/37j-7rl-nqg
title: Rumex arifolius All.

description: Digital Specimen for the physical specimen hosted at Natural History Museum Vienna.
DOI: 10.3535/0bj-fef-pfk
title: Rumex arifolius All.

description: Digital Specimen for the physical specimen hosted at Natural History Museum Vienna.
DOI: 10.17887/wur01-4djqnf
title: Raw data files used for O-glycan identification underlying the publication: Akkermansia muciniphila engrafts as a probiotic in an in vitro synthetic community

description: In the publication we show that a community lacking  A. muciniphila still harbours a niche for this bacterium and that A. muciniphila did not induce major changes in an in vitro mucosal synthetic community . This implies that A. muciniphila applied as a probiotic can engraft and exert its beneficial effects on the host, without major impact on the human gut mucosal microbiota composition and function, but with great benefit for the host. However, further research is warranted to verify this hypothesis in vivo. 

The raw data files support the graph showing the degradation of O-glycans over time by the bacterial community.
DOI: 10.15468/dl.rccwkp
title: Occurrence Download

description: A dataset containing 693 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Paspalum dilatatum",
 "Country is South Africa",
 "HasCoordinate is true"
 ]
}

 The dataset includes 693 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000030-250717074847783/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.3535/gly-r7n-b8f
title: Dicotyledoneae DC.

description: Digital Specimen for the physical specimen hosted at Natural History Museum Vienna.
DOI: 10.15468/dl.bf6um9
title: Occurrence Download

description: A dataset containing 116 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Polypterus weeksii"
 ]
}

 The dataset includes 116 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000000-250717080932627/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mkdc5j
title: Occurrence Download

description: A dataset containing 3022 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Paspalum dilatatum",
 "Country is Spain",
 "HasCoordinate is true"
 ]
}

 The dataset includes 3022 records from 49 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000001-250717080932627/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.15845737
title: Role of ANT2 in mitochondrial function and cancer cell survival: a target for therapeutic intervention - supplementary data
DOI: 10.5281/zenodo.15845738
title: Role of ANT2 in mitochondrial function and cancer cell survival: a target for therapeutic intervention - supplementary data
DOI: 10.15468/dl.pca9j8
title: Occurrence Download

description: A dataset containing 134 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (China, Chinese Taipei)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Taxus chinensis mairei"
 ]
}

 The dataset includes 134 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000002-250717080932627/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2rc94d
title: Occurrence Download

description: A dataset containing 1484 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Myristica fragrans"
 ]
}

 The dataset includes 1484 records from 137 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000003-250717080932627/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.29588885
title: electronic supplementary material

description: Electronic supplementary material for the research article (New observation on <i>Corynetis</i> from the early Cambrian Guanshan Biota reflect burrowing life)
DOI: 10.6084/m9.figshare.29588885.v1
title: electronic supplementary material.rar

description: Electronic supplementary material for the research article (New observation on <i>Corynetis</i> from the early Cambrian Guanshan Biota reflect burrowing life)
DOI: 10.6084/m9.figshare.29588885.v2
title: electronic supplementary material

description: Electronic supplementary material for the research article (New observation on <i>Corynetis</i> from the early Cambrian Guanshan Biota reflect burrowing life)
DOI: 10.15468/dl.dc59zw
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Paspalum dilatatum",
 "Country is Suriname",
 "HasCoordinate is true"
 ]
}

 The dataset includes 5 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000004-250717080932627/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48804/702kaf
title: Data for paper: Patient-Centered Communication in A Diverse General Practice Setting: A Multi-Perspective Case Study

description: This is the dataset used for the paper Patient-Centered Communication in A Diverse General Practice Setting: A Multi-Perspective Case Study. The dataset consists of the transcriptions of the two discussed cases in the paper and the open recall interviews with the treating doctor and the intercultural mediator. These data aren't made publicly available because of their sensitive content and ethical regulations. Acces can be requested through the author, after explicit approval of EC Research UZ/KU Leuven.
DOI: 10.15468/dl.guzcau
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is BOLD:ADH8726"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000006-250717080932627/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.16021805
title: Dataset: Observed prey items of Scolopendromorpha from global literature and Japanese crowdsourced data

description: File: centipede_prey_from_literature.xlsxThis file contains records of prey items consumed by giant centipedes (Order Scolopendromorph) as reported in published scientific literature.

File: centipede_prey_from_crowedsource.xlsxThis file contains records of prey items observed in SNS and citizen science platforms involving Japanese centipedes. This dataset is based on publicly available SNS posts, each of which is linked via URL. No copyrighted materials are directly included in the file. Data were collected for research purposes under ethical guidelines and with attribution to original posters where possible.
DOI: 10.5281/zenodo.16021806
title: Dataset: Observed prey items of Scolopendromorpha from global literature and Japanese crowdsourced data

description: File: centipede_prey_from_literature.xlsxThis file contains records of prey items consumed by giant centipedes (Order Scolopendromorph) as reported in published scientific literature.

File: centipede_prey_from_crowedsource.xlsxThis file contains records of prey items observed in SNS and citizen science platforms involving Japanese centipedes. This dataset is based on publicly available SNS posts, each of which is linked via URL. No copyrighted materials are directly included in the file. Data were collected for research purposes under ethical guidelines and with attribution to original posters where possible.
DOI: 10.3535/kcq-a4s-p0k
title: Leguminosae Juss.

description: Digital Specimen for the physical specimen hosted at Natural History Museum Vienna.
DOI: 10.3535/yg5-vng-cj2
title: Leguminosae Juss.

description: Digital Specimen for the physical specimen hosted at Natural History Museum Vienna.