cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.sadbce
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Human Observation, Machine Observation, Occurrence evidence, Observation)",
 "TaxonKey is one of (Leiothlypis virginiae)",
 "Country is one of (Afghanistan, Armenia, Azerbaijan, Bahrain, Bangladesh, Bhutan, Brunei Darussalam, Cambodia, China, Cyprus, Georgia, Hong Kong, India, Indonesia, Iran (Islamic Republic of), Iraq, Israel, Japan, Jordan, Kazakhstan, Korea (Democratic People’s Republic of), Korea, Republic of, Kuwait, Kyrgyzstan, Lao People’s Democratic Republic, Lebanon, Macao, Malaysia, Maldives, Mongolia, Myanmar, Nepal, Oman, Pakistan, Palestine, State of, Philippines, Qatar, Saudi Arabia, Singapore, Sri Lanka, Syrian Arab Republic, Tajikistan, Thailand, Timor-Leste, Türkiye, Turkmenistan, United Arab Emirates, Uzbekistan, Viet Nam, Yemen)"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009644-250802193616735/datasets/export for details.
DOI: 10.5281/zenodo.14720668
title: Knowledge bases for explainable benchmarking (QALD10, QALD9+DB, QALD9+WK)

description: This project provides three knowledge graphs that we created for the three QA benchmarks: QALD-9 plus DBpedia, QALD-9 plus Wikidata, and QALD-10. Here are some more details:

1. Preprocessing





We remove all questions from the three QA datasets that have an empty ground truth answer set.




We preprocessed the DBpedia reference graph by:





Removing 43,618 triples with IRIs that do not pass through the RDF checker.




Removing properties of the http://dbpedia.org/property/ namespace.




Inferring the classes of all entities based on the class hierarchy.






We preprocessed Wikidata by replacing the property http://www.wikidata.org/prop/direct/P31 with http://www.w3.org/1999/02/22-rdf\textbackslash-syntax-ns\#type.



2. Knowledge Base Structure

In the first step of our benchmarking framework, we generate a knowledge graph comprising information from the dataset used during the benchmarking process. Our work relies on the QALD datasets, which include three types of data for each question:





Natural language questionEach question comes with a representation in several languages. From the English question, we extract linguistic features such as:





The length of the question (dqb:hasLength)                                                                                                                      Note: The prefix dqb: refers to the namespacehttp://w3id.org/dice-research/qa-bench#.




The presence of negation (dqb:hasNegation)




The question word (dqb:hasQuestionWord)




The NLP parse tree (dqb:hasNlpParseTreeRoot)Note: We employ the Stanford NLP toolkit for the extraction.






Answer(s)Each question comes with the ground truth answers. We add these answers to the generated graph with three different properties distinguishing:





IRI answers (dqb:hasIRIAnswer)




Boolean answers (dqb:hasBooleanAnswer)




Other literal answers (dqb:hasLiteralAnswer)For each IRI listed as an answer, we add its concise bounded description (CBD) extracted from the reference knowledge graph.






SPARQL queryEach question has a SPARQL query that returns the ground truth answer when used on the reference knowledge graph. We adopt LSQ to add the following SPARQL query features to our knowledge graph:





Entities (dqb:hasEntity), properties (dqb:hasProperty) contained in the query, and the CBD of the entities




Type of query




The number of triple patterns




The number of basic graph patterns




The average degree of vertices




The median degree of vertices involved in join operations




The minimum, maximum, and median number of triple patterns in a basic graph pattern




The presence of certain keywords such as FILTER, DISTINCT, and GROUP BY
DOI: 10.5281/zenodo.14720669
title: Knowledge bases for explainable benchmarking (QALD10, QALD9+DB, QALD9+WK)

description: This project provides three knowledge graphs that we created for the three QA benchmarks: QALD-9 plus DBpedia, QALD-9 plus Wikidata, and QALD-10. Here are some more details:

1. Preprocessing





We remove all questions from the three QA datasets that have an empty ground truth answer set.




We preprocessed the DBpedia reference graph by:





Removing 43,618 triples with IRIs that do not pass through the RDF checker.




Removing properties of the http://dbpedia.org/property/ namespace.




Inferring the classes of all entities based on the class hierarchy.






We preprocessed Wikidata by replacing the property http://www.wikidata.org/prop/direct/P31 with http://www.w3.org/1999/02/22-rdf\textbackslash-syntax-ns\#type.



2. Knowledge Base Structure

In the first step of our benchmarking framework, we generate a knowledge graph comprising information from the dataset used during the benchmarking process. Our work relies on the QALD datasets, which include three types of data for each question:





Natural language questionEach question comes with a representation in several languages. From the English question, we extract linguistic features such as:





The length of the question (dqb:hasLength)                                                                                                                      Note: The prefix dqb: refers to the namespacehttp://w3id.org/dice-research/qa-bench#.




The presence of negation (dqb:hasNegation)




The question word (dqb:hasQuestionWord)




The NLP parse tree (dqb:hasNlpParseTreeRoot)Note: We employ the Stanford NLP toolkit for the extraction.






Answer(s)Each question comes with the ground truth answers. We add these answers to the generated graph with three different properties distinguishing:





IRI answers (dqb:hasIRIAnswer)




Boolean answers (dqb:hasBooleanAnswer)




Other literal answers (dqb:hasLiteralAnswer)For each IRI listed as an answer, we add its concise bounded description (CBD) extracted from the reference knowledge graph.






SPARQL queryEach question has a SPARQL query that returns the ground truth answer when used on the reference knowledge graph. We adopt LSQ to add the following SPARQL query features to our knowledge graph:





Entities (dqb:hasEntity), properties (dqb:hasProperty) contained in the query, and the CBD of the entities




Type of query




The number of triple patterns




The number of basic graph patterns




The average degree of vertices




The median degree of vertices involved in join operations




The minimum, maximum, and median number of triple patterns in a basic graph pattern




The presence of certain keywords such as FILTER, DISTINCT, and GROUP BY
DOI: 10.15468/dl.wy8zxr
title: Occurrence Download

description: A dataset containing 7 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is BOLD:AAC4835"
 ]
}

 The dataset includes 7 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009647-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fzktqx
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Micropanchax ehrichi)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence, Human Observation, Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009646-250802193616735/datasets/export for details.
DOI: 10.15468/dl.gsgbde
title: Occurrence Download

description: A dataset containing 2 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Potentilla muldaschevii"
 ]
}

 The dataset includes 2 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009648-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vexe3h
title: Occurrence Download

description: A dataset containing 282 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Thlaspi alliaceum",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 282 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009649-250802193616735/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.29820923
title: Supplementary Material for: Causal association of 91 circulating inflammatory proteins with allergic rhinitis: a Mendelian randomisation study

description: Abstract
Objective
Allergic rhinitis (AR) is a common chronic allergic inflammatory disease, and circulating inflammatory markers have been found to play an important role in the pathogenesis of allergic rhinitis. The aim of this study was to elucidate the causal relationship between 91 circulating inflammatory markers and AR using Mendelian randomisation (MR) analysis.
Method
The inverse variance weighted (IVW) approach to Mendelian randomisation analysis focuses on exploring causal relationships between exposures and outcomes using publicly available genetic variation from large genome-wide association studies (GWAS). That is, single nucleotide polymorphisms (SNPs) associated with 91 circulating inflammatory markers (14,824 participants of the European ancestry) were used as the exposure, and AR was used as the outcome variable with the aim of exploring the causal relationship between the 91 circulating inflammatory markers and AR. MR-Egger, weighted median (WM) and weighted models were employed as complementary methods to IVW in assessing the reliability of causal relationships.In addition, we utilised the MR robust adjusted profile score (MR-RAPS) method to fully assess Steiger's test was used to confirm whether the causal relationship between exposure and outcome was biased by reverse causality. Sensitivity analyses used Cochran's Q statistic and funnel plots to detect heterogeneity, and the MR-Egger intercept test and leave-one-out to assess horizontal multidimensionality.
Results
This study revealed a causal relationship between 91 circulating inflammatory markers and AR, especially DNER consistently presented as a risk factor for AR and TNF -beta levels consistently as a protective factor for AR. In addition, elevated levels of CCL19, CXCL11, CXCL5, DNER, IL - 18R1 , IL-17C, IL-6, IL-7, IL-4, and FGF19 may increase AR susceptibility. These results not only enhance our understanding of the pathological mechanisms of AR, but also provide potential biomarkers for risk assessment and intervention in clinical practice.
Conclusion
This MR analysis reinforces the importance of 91 circulating inflammatory markers in the diagnosis and prediction of AR. Future studies should further explore the mechanisms of action of these biomarkers and their potential as therapeutic targets for AR.
DOI: 10.6084/m9.figshare.29820923.v1
title: Supplementary Material for: Causal association of 91 circulating inflammatory proteins with allergic rhinitis: a Mendelian randomisation study

description: Abstract
Objective
Allergic rhinitis (AR) is a common chronic allergic inflammatory disease, and circulating inflammatory markers have been found to play an important role in the pathogenesis of allergic rhinitis. The aim of this study was to elucidate the causal relationship between 91 circulating inflammatory markers and AR using Mendelian randomisation (MR) analysis.
Method
The inverse variance weighted (IVW) approach to Mendelian randomisation analysis focuses on exploring causal relationships between exposures and outcomes using publicly available genetic variation from large genome-wide association studies (GWAS). That is, single nucleotide polymorphisms (SNPs) associated with 91 circulating inflammatory markers (14,824 participants of the European ancestry) were used as the exposure, and AR was used as the outcome variable with the aim of exploring the causal relationship between the 91 circulating inflammatory markers and AR. MR-Egger, weighted median (WM) and weighted models were employed as complementary methods to IVW in assessing the reliability of causal relationships.In addition, we utilised the MR robust adjusted profile score (MR-RAPS) method to fully assess Steiger's test was used to confirm whether the causal relationship between exposure and outcome was biased by reverse causality. Sensitivity analyses used Cochran's Q statistic and funnel plots to detect heterogeneity, and the MR-Egger intercept test and leave-one-out to assess horizontal multidimensionality.
Results
This study revealed a causal relationship between 91 circulating inflammatory markers and AR, especially DNER consistently presented as a risk factor for AR and TNF -beta levels consistently as a protective factor for AR. In addition, elevated levels of CCL19, CXCL11, CXCL5, DNER, IL - 18R1 , IL-17C, IL-6, IL-7, IL-4, and FGF19 may increase AR susceptibility. These results not only enhance our understanding of the pathological mechanisms of AR, but also provide potential biomarkers for risk assessment and intervention in clinical practice.
Conclusion
This MR analysis reinforces the importance of 91 circulating inflammatory markers in the diagnosis and prediction of AR. Future studies should further explore the mechanisms of action of these biomarkers and their potential as therapeutic targets for AR.
DOI: 10.6084/m9.figshare.29820926
title: Supplementary Material for: Acute mood episodes in patients of atopic dermatitis treated with dupilumab: insights from two cases

description: Introduction: Atopic dermatitis (AD) is a chronic skin disease that can affect patient’s quality of life through recurrent inflammatory skin condition, which is often associated with psychiatric effect including depression and anxiety. Treatment with biologics such as dupilumab, an anti-IL-4 receptor alpha antibody, is an effective treatment AD for both resolving skin conditions and reducing the risk of psychiatric comorbidities. However, the impact of its systemic effects on rare types of patients who were predisposed to psychiatric conditions are not fully understood.
Case Presentations: We report two cases of AD patients who experienced acute mood episodes during the treatment with dupilumab. While showing remarkable improvement in their skin condition and itch, both patients reported recurrent depressive moods after each injection. The first patient extended the interval of injection from every 2 weeks to every 4 weeks after 24 injections of dupilumab. The second patient switched to another systemic treatment due to severe ocular itch after 7 times of administration of dupilumab. Both patients achieved stable control of the disease after these changes. 
Conclusion: These cases highlight the dupilumab’s efficacy in managing AD but also reveal potential psychological effects. It is advisable for the clinicians to exercise caution for emerging or exacerbation of the psychiatric condition during the period from the beginning of dupilumab till the patient achieve stable condition.
DOI: 10.6084/m9.figshare.29820926.v1
title: Supplementary Material for: Acute mood episodes in patients of atopic dermatitis treated with dupilumab: insights from two cases

description: Introduction: Atopic dermatitis (AD) is a chronic skin disease that can affect patient’s quality of life through recurrent inflammatory skin condition, which is often associated with psychiatric effect including depression and anxiety. Treatment with biologics such as dupilumab, an anti-IL-4 receptor alpha antibody, is an effective treatment AD for both resolving skin conditions and reducing the risk of psychiatric comorbidities. However, the impact of its systemic effects on rare types of patients who were predisposed to psychiatric conditions are not fully understood.
Case Presentations: We report two cases of AD patients who experienced acute mood episodes during the treatment with dupilumab. While showing remarkable improvement in their skin condition and itch, both patients reported recurrent depressive moods after each injection. The first patient extended the interval of injection from every 2 weeks to every 4 weeks after 24 injections of dupilumab. The second patient switched to another systemic treatment due to severe ocular itch after 7 times of administration of dupilumab. Both patients achieved stable control of the disease after these changes. 
Conclusion: These cases highlight the dupilumab’s efficacy in managing AD but also reveal potential psychological effects. It is advisable for the clinicians to exercise caution for emerging or exacerbation of the psychiatric condition during the period from the beginning of dupilumab till the patient achieve stable condition.
DOI: 10.15468/dl.asfdpb
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Human Observation, Machine Observation, Occurrence evidence, Observation)",
 "TaxonKey is one of (Leiothlypis virginiae)",
 "Country is one of (American Samoa, Australia, Christmas Island, Cocos (Keeling) Islands, Cook Islands, Fiji, French Polynesia, Guam, Heard Island and McDonald Islands, Kiribati, Marshall Islands, Micronesia (Federated States of), Nauru, New Caledonia, New Zealand, Niue, Norfolk Island, Northern Mariana Islands, Palau, Papua New Guinea, Pitcairn, Samoa, Solomon Islands, Tokelau, Tonga, Tuvalu, United States Minor Outlying Islands, Vanuatu, Wallis and Futuna)"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009652-250802193616735/datasets/export for details.
DOI: 10.7910/dvn/mgpunh
title: Limits To AI Speech Illuminate Limits To General AI

description: The AI speech to human speech comparative video referenced in the paper "Limits To AI Speech Illuminate Limits To General AI".
DOI: 10.15468/dl.ce2q69
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Human Observation, Machine Observation, Occurrence evidence, Observation)",
 "TaxonKey is one of (Leiothlypis virginiae)",
 "Country is one of (Algeria, Angola, Benin, Botswana, British Indian Ocean Territory, Burkina Faso, Burundi, Cabo Verde, Cameroon, Central African Republic, Chad, Comoros, Congo, Congo, Democratic Republic of the, Côte d’Ivoire, Djibouti, Egypt, Equatorial Guinea, Eritrea, Eswatini, Ethiopia, French Southern Territories, Gabon, Gambia, Ghana, Guinea, Guinea-Bissau, Kenya, Lesotho, Liberia, Libya, Madagascar, Malawi, Mali, Mauritania, Mauritius, Mayotte, Morocco, Mozambique, Namibia, Niger, Nigeria, Réunion, Rwanda, Saint Helena, Ascension and Tristan da Cunha, Sao Tome and Principe, Senegal, Seychelles, Sierra Leone, Somalia, South Africa, South Sudan, Sudan, Tanzania, United Republic of, Togo, Tunisia, Uganda, Western Sahara, Zambia, Zimbabwe)"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009650-250802193616735/datasets/export for details.
DOI: 10.15468/dl.feq934
title: Occurrence Download

description: A dataset containing 1546 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Plecoglossus altivelis",
 "Country is Japan",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1546 records from 31 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009651-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s6gsdj
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Psidium guineense",
 "Country is Angola",
 "HasCoordinate is true"
 ]
}

 The dataset includes 4 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009653-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.s7yhfg
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is BOLD:AAC4832"
 ]
}

 The dataset includes 3 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009654-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.16737564
title: Impact of Soil Substrates and Microbial Inoculants on Engineering Roles of Earthworm in Soil Structure and Physicochemical Properties
DOI: 10.5281/zenodo.16737565
title: Impact of Soil Substrates and Microbial Inoculants on Engineering Roles of Earthworm in Soil Structure and Physicochemical Properties
DOI: 10.15468/dl.ed7tyv
title: Occurrence Download

description: A dataset containing 53 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Characidium alipioi)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence, Human Observation, Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 53 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009655-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fe2bp3
title: Occurrence Download

description: A dataset containing 13548 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Thlaspi arvense",
 "Country is United States of America",
 "HasCoordinate is true"
 ]
}

 The dataset includes 13548 records from 176 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009657-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ydftcf
title: Occurrence Download

description: A dataset containing 13332 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON ((16.436021837060025 48.23998982496768, 16.6165490460608 48.229296764582884, 16.63253480478986 48.35078628495116, 16.451577224201383 48.36150906420721, 16.436021837060025 48.23998982496768))"
 ]
}

 The dataset includes 13332 records from 76 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009658-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vtfdx6
title: Occurrence Download

description: A dataset containing 5512 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lepomis macrochirus",
 "Country is Japan",
 "HasCoordinate is true"
 ]
}

 The dataset includes 5512 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009659-250802193616735/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.