cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15156/bio/sh1413197.10fu
title: SH1413197.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1413198.10fu
title: SH1413198.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1413202.10fu
title: SH1413202.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1413203.10fu
title: SH1413203.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1413204.10fu
title: SH1413204.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1413205.10fu
title: SH1413205.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1413206.10fu
title: SH1413206.10FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15468/dl.u3skmg
title: Occurrence Download

description: A dataset containing 4133 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Sarcoramphus papa",
 "Country is Peru",
 "HasCoordinate is true",
 "Year is greater than or equal to 2018",
 "Year is less than or equal to 2025",
 "BasisOfRecord is one of (Human Observation, Observation, Machine Observation, Specimen)"
 ]
}

 The dataset includes 4133 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010120-251009101135966/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9agbas
title: Occurrence Download

description: A dataset containing 127708 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Human Observation, Occurrence evidence, Machine Observation)",
 "TaxonKey is Delphinus delphis"
 ]
}

 The dataset includes 127708 records from 484 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025455-260208012135463/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/13678294
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.5281/zenodo.17143147
title: UPR Updated Assemblies
DOI: 10.15468/dl.tzseu3
title: Occurrence Download

description: A dataset containing 106593 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cephalanthera damasonium",
 "BasisOfRecord is one of (Human Observation, Machine Observation, Observation, Occurrence evidence)",
 "OccurrenceStatus is Present",
 "HasCoordinate is true"
 ]
}

 The dataset includes 106593 records from 547 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024667-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17224300
title: UPR Updated Assemblies
DOI: 10.15468/dl.59ggbf
title: Occurrence Download

description: A dataset containing 478 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Geocoris lineolus"
 ]
}

 The dataset includes 478 records from 59 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024688-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17199078
title: transcriptome of Neoechinorhynchus agilis and sex-biased and size-biased gene expression

description: Background Thorny-headed worms (Acanthocephala) occur worldwide in gnathostome vertebrates feeding on mandibulate arthropods. They can manipulate host behavior, accumulate heavy metals, and have lately gained economic relevance as a pest in fish aquaculture. Yet, despite their ecological and economic significance, little is known about the gene-expressional background of acanthocephalan development, maturation, and reproduction in the definitive host. To fill this gap in knowledge, we studied Neoechinorhynchus agilis (Eoacanthocephala) specimens sampled from the digestive tracts of naturally infected thin-lipped mullets (Chelon ramada). 

Results We generated a nuclear draft genome and a whole-body transcriptome assembly. Differential expression analysis based on transcript abundances of 36 males and 30 females revealed that 30% of the transcripts had sex-biased expression. Gene ontologies relating to energy metabolism and microtubules were enriched with male-biased genes; female-biased genes indicated increased cell division and transcription activity. Only 0.19% of genes were differentially expressed as a function of female size (using whole-body RNA weight as a proxy for size), versus 5.4% in males. 

Conclusions Transcriptome annotations underlined energy metabolism and reproduction as major tasks in N. agilis life. Our results suggest that males, smaller than females and thus supposedly less competitive, struggle for sufficient energy to produce large quantities of sperm. Female-biased genes were consistent with the production and development of numerous eggs. Finally, we identified genes with particular importance in the growth or reproduction of N. agilis, that could be investigated as candidate targets for acanthocephalan control in fish aquaculture.
DOI: 10.5281/zenodo.15016811
title: transcriptome of Neoechinorhynchus agilis and sex-biased and size-biased gene expression

description: Background Thorny-headed worms (Acanthocephala) occur worldwide in gnathostome vertebrates feeding on mandibulate arthropods. They can manipulate host behavior, accumulate heavy metals, and have lately gained economic relevance as a pest in fish aquaculture. Yet, despite their ecological and economic significance, little is known about the gene-expressional background of acanthocephalan development, maturation, and reproduction in the definitive host. To fill this gap in knowledge, we studied Neoechinorhynchus agilis (Eoacanthocephala) specimens sampled from the digestive tracts of naturally infected thin-lipped mullets (Chelon ramada). 

Results We generated a nuclear draft genome and a whole-body transcriptome assembly. Differential expression analysis based on transcript abundances of 36 males and 30 females revealed that 30% of the transcripts had sex-biased expression. Gene ontologies relating to energy metabolism and microtubules were enriched with male-biased genes; female-biased genes indicated increased cell division and transcription activity. Only 0.19% of genes were differentially expressed as a function of female size (using whole-body RNA weight as a proxy for size), versus 5.4% in males. 

Conclusions Transcriptome annotations underlined energy metabolism and reproduction as major tasks in N. agilis life. Our results suggest that males, smaller than females and thus supposedly less competitive, struggle for sufficient energy to produce large quantities of sperm. Female-biased genes were consistent with the production and development of numerous eggs. Finally, we identified genes with particular importance in the growth or reproduction of N. agilis, that could be investigated as candidate targets for acanthocephalan control in fish aquaculture.
DOI: 10.5281/zenodo.17570032
title: UPR Updated Assemblies
DOI: 10.5281/zenodo.17143146
title: UPR Updated Assemblies
DOI: 10.15468/dl.8s5vcc
title: Occurrence Download

description: A dataset containing 196 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-1.10894 47.48205,-1.14409 47.44224,-1.13174 47.43447,-1.06723 47.44198,-1.06979 47.45123,-1.09542 47.47347,-1.10894 47.48205))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Animalia"
 ]
}

 The dataset includes 196 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024690-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.13140/rg.2.2.22353.19047
title: DATDA — Hybrid Defense & Image Classification Model — Defense Against The Dark Arts
DOI: 10.15468/dl.ancnx7
title: Occurrence Download

description: A dataset containing 48 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is one of (China, Chinese Taipei)",
 "OccurrenceStatus is Present",
 "TaxonKey is Petromyzonti"
 ]
}

 The dataset includes 48 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024693-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17551209
title: ARISE: Natural adaptation of atoll islands to sea-level rise offering opportunities for ongoing human occupation
DOI: 10.5281/zenodo.17551208
title: ARISE: Natural adaptation of atoll islands to sea-level rise offering opportunities for ongoing human occupation
DOI: 10.15468/dl.uuptyv
title: Occurrence Download

description: A dataset containing 3192 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-1.07002 47.39501,-1.06797 47.44179,-1.09261 47.44549,-1.11622 47.4404,-1.13779 47.44063,-1.13471 47.40219,-1.09706 47.38551,-1.07002 47.39501))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Animalia"
 ]
}

 The dataset includes 3192 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024697-251025141854904/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.30580559
title: Supplementary Material for: Phospho-proteomic analysis of interleukin (IL)-13 signaling in airway cells reveals SRC family kinase involvement in IL-13–induced inflammatory responses

description: Introduction: Allergic asthma is a chronic inflammatory airway disease driven by the cytokine interleukin-13 (IL-13). Although IL-13 signals through the canonical JAK1/TYK2/STAT6 pathway, our understanding of the totality of IL-13-induced signaling intermediates is incomplete. 
Methods: To address this, we performed an unbiased phospho-proteomic analysis of IL-13-stimulated A549 human airway epithelial cells. IL-13 stimulation led to differential phosphorylation at 145 unique serine/threonine residues across 92 proteins involved in diverse cellular processes. In silico analysis was used to predict novel signaling intermediates, and the role of these intermediates was tested in vitro using molecular techniques, and in vivo using an IL-13-induced model of asthma.
Results: In silico analysis of differentially phosphorylated proteins revealed several pathways activated downstream of IL-13 exposure included RNA splicing, cytoskeletal remodeling, GTPase activity, and focal adhesion complex formation. Network analysis identified SRC, a non-receptor tyrosine kinase, as a potential regulator of IL-13-induced changes in phosphorylation. Kinetic molecular approaches confirmed that SRC is rapidly activated following IL-13 stimulation, prior to activation of the canonical IL-13 signaling intermediate STAT6 in both human and mouse lung fibroblasts. Pharmacological inhibition of SRC reduced IL-13–induced STAT6 phosphorylation and downstream gene expression in vitro. In vivo, SRC antagonism attenuated IL-13–induced airway hyperresponsiveness (AHR) without significantly affecting inflammatory cell infiltration or gene expression in bronchoalveolar lavage fluid. 
Conclusion: These findings support a role for SRC in IL-13–driven airway responses and suggest they may represent therapeutic targets in allergic asthma.
DOI: 10.6084/m9.figshare.30580559.v1
title: Supplementary Material for: Phospho-proteomic analysis of interleukin (IL)-13 signaling in airway cells reveals SRC family kinase involvement in IL-13–induced inflammatory responses

description: Introduction: Allergic asthma is a chronic inflammatory airway disease driven by the cytokine interleukin-13 (IL-13). Although IL-13 signals through the canonical JAK1/TYK2/STAT6 pathway, our understanding of the totality of IL-13-induced signaling intermediates is incomplete. 
Methods: To address this, we performed an unbiased phospho-proteomic analysis of IL-13-stimulated A549 human airway epithelial cells. IL-13 stimulation led to differential phosphorylation at 145 unique serine/threonine residues across 92 proteins involved in diverse cellular processes. In silico analysis was used to predict novel signaling intermediates, and the role of these intermediates was tested in vitro using molecular techniques, and in vivo using an IL-13-induced model of asthma.
Results: In silico analysis of differentially phosphorylated proteins revealed several pathways activated downstream of IL-13 exposure included RNA splicing, cytoskeletal remodeling, GTPase activity, and focal adhesion complex formation. Network analysis identified SRC, a non-receptor tyrosine kinase, as a potential regulator of IL-13-induced changes in phosphorylation. Kinetic molecular approaches confirmed that SRC is rapidly activated following IL-13 stimulation, prior to activation of the canonical IL-13 signaling intermediate STAT6 in both human and mouse lung fibroblasts. Pharmacological inhibition of SRC reduced IL-13–induced STAT6 phosphorylation and downstream gene expression in vitro. In vivo, SRC antagonism attenuated IL-13–induced airway hyperresponsiveness (AHR) without significantly affecting inflammatory cell infiltration or gene expression in bronchoalveolar lavage fluid. 
Conclusion: These findings support a role for SRC in IL-13–driven airway responses and suggest they may represent therapeutic targets in allergic asthma.
DOI: 10.5281/zenodo.17568784
title: KISTI-CWTS Leiden Ranking 2025 indicators for South Korean organisations, benchmark institutions and selected countries

description: This file presents all indicators that are computed for the CWTS Leiden Ranking 2025 for South Korean organisations and benchmark institutions.

The two 'Results' worksheets for Korean Main organisations and for the 25 benchmark organisations present separate results for combinations of fields (indicated in column C), a time period (indicated in column D), and a counting method (indicated in column E).

Stability intervals have been calculated for most size-independent indicators. On the 'Results' worksheet, the lower and upper bounds of a stability interval are presented in columns with labels ending with '_lb' and '_ub', respectively.

More information can be found on the website: http://www.leidenranking.com
DOI: 10.5281/zenodo.17570136
title: Diabetes and its complications research dataset

description: The data in this study were derived from the de-identified follow-up dataset of diabetes patients in the Department of Diabetes and Endocrinology at the Sixth People's Hospital Affiliated to Shanghai Jiao Tong University from February 2012 to April 2012.The dataset encompasses demographic and clinical characteristics of diabetic patients, including fundamental traits and obesity indices, with a focus on their correlations and mechanistic impacts on diabetes onset. Detailed demographic information and basic physiological profiles of diabetic patients are provided in the Appendix. This dataset enables in-depth analysis of the specific effects of glycemic status, lipid profiles, insulin levels, as well as hepatic, renal, and hematologic parameters, integrated with disease history, lifestyle factors, complication profiles, and genetic predispositions, on the development and progression of diabetes mellitus.  Furthermore, it facilitates investigations into associations between diabetes and retinopathy, patient awareness of diabetes, and treatment adherence.

Special Note: The dataset is stored in the data folder. To ensure data security, only the first 300 data entries are displayed temporarily(v2). Once our paper is officially accepted, the complete dataset will be uploaded. Thank you for your understanding. In addition, if you need access to the full dataset in advance, please contact our corresponding author.
DOI: 10.15468/dl.jumefh
title: Occurrence Download

description: A dataset containing 48 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is one of (China, Chinese Taipei)",
 "OccurrenceStatus is Present",
 "TaxonKey is Petromyzonti"
 ]
}

 The dataset includes 48 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0024700-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.