cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.c6kj2
title: Data from: An approach for identifying cryptic barriers to gene flow that limit species' geographic ranges

description: Species' geographic range limits are most often not demarcated by
 obvious dispersal barriers. Poor-quality habitat at the edge of a
 species' range can prevent range expansion by preventing outward
 migration or through reducing adaptive potential resulting from decreased
 genetic diversity. We identified habitat variables that constrain gene
 flow across the entire geographic range of an endemic salamander
 (Ambystoma barbouri) in the eastern United States, and we tested whether
 increased resistance resulting from these variables provides cryptic
 dispersal barriers at the range edges. Using polymorphic microsatellite
 loci, we first identified three genetic clusters that are separated by the
 Ohio and Kentucky rivers. Through a combination of landscape genetic
 analyses and generalized dissimilarity modelling, we then classified
 variables that (i) restrict gene flow in each of the genetic clusters
 across the geographic distribution of A. barbouri and (ii) become more
 common towards the peripheries of the distribution. A decrease in
 limestone availability and an increase in growing season precipitation
 were correlated with high resistance to gene flow across the range, and
 both became more common at the edges of the species' distribution.
 However, other landscape variables were more important for explaining
 variation in geneflow rates in different portions of the range, such as
 increased mean annual temperature and frost-free period in the south vs.
 growing season precipitation in the north. Taken together, these results
 suggest that there are both range-wide and regionally specific cryptic
 habitat barriers preventing geographic range expansion. Species
 ‘geographic range limits are probably governed by a set of ecological and
 evolutionary factors, and our landscape genetic approach could be applied
 to gain additional insight into many systems.
description: At-site landscape values
 and locationsFile containing
 environmental values and approximate locality information for all of the
 collection localities used in the study.dryad_gdm.csvGenetic distancesGenetic distances (FST, DPS, and Jost's D) between every collection locality used in the studydryad_dist.xlsMicrosatellite gentoypesGenotypes for 11 microsatellite loci used in this study. All individuals are included with a collection site identifier.Genotype.txt
DOI: 10.5061/dryad.809s2
title: Data from: Dental status of New Caledonian children: is there a need for a new oral health promotion programme?

description: Background: Before implementing a new oral health promotion program in the
 French overseas territory of Nouvelle Calédonie, the health authorities
 needed recent data about dental status of the New Caledonian child
 population. Objectives: This study aimed to describe the dental status of
 6, 9 and 12-yr-old New Caledonian children and to investigate the
 environmental and behavioural risk factors related to oral health.
 Methods: A randomly selected sample of 2734 children (744 6-yr-olds, 789
 9-yr-olds, and 1201 12-yr-olds) was examined clinically by seven
 calibrated investigators and participants responded to a questionnaire.
 The main variables were objective criteria about dental status and
 subjective criteria about experience of dental care, dental fear,
 self-perception of oral health, cultural or ethnic identity and
 environmental and behavioural risk factors. Results: Overall, most of the
 children had infectious oral diseases: more than 50% had gingivitis, and
 60% of 6- and 9 yr-olds had at least one deciduous or permanent tooth with
 untreated caries. The mean 12-yr-old number of decayed missing and filled
 teeth (DMFT) was 2.09±2.82. The number of carious lesions was related to
 the unfavourable lifestyle, deprived social status and no preventive
 dental care. Kanak, Polynesians and Caledonians (respectively 27%, 18% and
 45% of the study sample) were more affected by caries than metropolitan
 French and Asian children. Children with many untreated carious lesions
 had negative perceptions of their oral health; they complained of chewing
 difficulty and had higher scores for dental anxiety. Conclusion: This
 study highlights the need for new strategies aimed at improving oral
 health and at reducing inequalities in New Caledonia. An oral health
 promotion program would need to be developed in connection with other
 health programmes using the common risk factor approach within the context
 of the local environment.
description: PONE data Pichot et al
 R2data on dental status in
 New Caledonian 6-,9- and 12- yrs old childrenPONE data Pichot et
 al.xls
DOI: 10.5061/dryad.rd66f
title: Data from: Calling in sick: impacts of fever on intra-urban human mobility

description: Pathogens inflict a wide variety of disease manifestations on their hosts,
 yet the impacts of disease on the behaviour of infected hosts are rarely
 studied empirically and are seldom accounted for in mathematical models of
 transmission dynamics. We explored the potential impacts of one of the
 most common disease manifestations, fever, on a key determinant of
 pathogen transmission, host mobility, in residents of the Amazonian city
 of Iquitos, Peru. We did so by comparing two groups of febrile individuals
 (dengue-positive and dengue-negative) with an afebrile control group. A
 retrospective, semi-structured interview allowed us to quantify multiple
 aspects of mobility during the two-week period preceding each interview.
 We fitted nested models of each aspect of mobility to data from interviews
 and compared models using likelihood ratio tests to determine whether
 there were statistically distinguishable differences in mobility
 attributable to fever or its aetiology. Compared with afebrile
 individuals, febrile study participants spent more time at home, visited
 fewer locations, and, in some cases, visited locations closer to home and
 spent less time at certain types of locations. These multifaceted impacts
 are consistent with the possibility that disease-mediated changes in host
 mobility generate dynamic and complex changes in host contact network
 structure.
description: Time spent at
 homeEach row corresponds to
 a retrospective interview (interview_id) of a study participant
 (part_code) who provided information about time spent at home. Information
 about time spent at home was summarized as the daily frequency of bouts of
 time spent at home (freqHome) and the average fraction of the day between
 5:00 AM and 10:00 PM spent at home (durnHome). Individuals are stratified
 by their demographic category (category) and fever status
 (pathogen).partHome.csvTime spent at locations other than homeEach row corresponds to information from a retrospective interview (interview_id) of a study participant (part_code) who provided information about time spent at a location other than home. Information about time spent at each location was summarized as the daily frequency of visits to that location (absolute_frequency) and the average fraction of the day between 5:00 AM and 10:00 PM spent at that location (absolute_duration). Individuals are stratified by their demographic category (category) and fever status (pathogen). Locations are classified by their landuse designation (landuse_class).partLoc.csv
DOI: 10.5061/dryad.846st51
title: Data from: Experimental heatwaves compromise sperm function and cause transgenerational damage in a model insect

description: Climate change is affecting biodiversity, but proximate drivers remain
 poorly understood. Here, we examine how experimental heatwaves impact on
 reproduction in an insect system. Male sensitivity to heat is recognised
 in endotherms, but ectotherms have received limited attention, despite
 comprising most of biodiversity and being more influenced by temperature
 variation. Using a flour beetle model system, we find that heatwave
 conditions (5 to 7 °C above optimum for 5 days) damaged male, but not
 female, reproduction. Heatwaves reduce male fertility and sperm
 competitiveness, and successive heatwaves almost sterilise males.
 Heatwaves reduce sperm production, viability, and migration through the
 female. Inseminated sperm in female storage are also damaged by heatwaves.
 Finally, we discover transgenerational impacts, with reduced reproductive
 potential and lifespan of offspring when fathered by males, or sperm, that
 had experienced heatwaves. This male reproductive damage under heatwave
 conditions provides one potential driver behind biodiversity declines and
 contractions through global warming.
description: Source data for all
 analysesExcel spreadsheet
 containing all raw data.Source Data for
 NCOMMS-18-24197-T FINAL
 kris.xlsxfigure1reproductivefitnessrangeFigure 1 R codefigure2aheatwavereproductivefitnessFigure 2a R codefigure2bcompetitionFigure 2b R codefigure2cheatwavehardeningFigure 2c R codefigure3acspermlivedeadFigure 3a R codefigure3bheatwavegfpspermdistributionFigure 3b R codefigure3hlifestageFigure 3h R codefigure4abtransgenlifeFigure 4a R codefigure4cdeftransgenfertFigure 4c R codefigures1abheatwavebehaviourSupp. Figure 1a R codefigureS2heatwaveeggSupp. Figure 2 R code
DOI: 10.5061/dryad.5892n
title: Data from: Comparing the intersex genetic correlation for fitness across novel environments in the fruit fly, Drosophila serrata

description: Sexually antagonistic genetic variation can pose limits to the independent
 evolution and adaptation of the sexes. The extent of sexually antagonistic
 variation is reflected in the intersex genetic correlation for fitness
 (rwFM). Previous estimates of this correlation have been mostly limited to
 populations in environments to which they are already well adapted, making
 it difficult to gauge the importance of sexually antagonistic genetic
 variance during the early stages of adaptation, such as that occurring
 following abrupt environmental change or upon the colonization of new
 habitat. Here we assayed male and female lifetime fitness in a population
 of Drosophila serrata in four novel laboratory environments. We found that
 rwFM varied significantly across environments, with point estimates
 ranging from positive to negative values of considerable magnitude. We
 also found that the variability among estimates was because, at least in
 part, of significant differences among environments in the genetic
 variances of both male and female fitness, with no evidence of any
 significant changes in the intersex covariance itself, although standard
 errors of these estimates were large. Our results illustrate the
 unpredictable nature of rwFM in novel environments and suggest that,
 although sexually antagonistic genetic variance can be pronounced in some
 novel environments, it may have little effect in constraining the early
 stages of adaptation in others.
description: Punzalan et al
 2013_DryadFitness data (i.e.
 wildtype and mutant offspring number) from laboratory crosses of inbred
 lines against (inbred) reference lines, when reared in 4 novel
 environments (C = corn, R = rice, S = salt, Y = yeast). "Trait"
 is simply a merger of "Sex" and "Environment" columns.
 Each row corresponds to a replicate cross (vial).
DOI: 10.15468/dl.uq3ywc
title: Occurrence Download

description: A dataset listing the 2 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-37.76431 -9.62473,-37.75691 -9.62473,-37.75691 -9.61803,-37.76431 -9.61803,-37.76431 -9.62473))",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset's 2 records were derived from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025491-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q37tpb
title: Occurrence Download

description: A dataset containing 66 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pareiorhina rudolphi)",
 "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 66 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0025496-250811113504898/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.16911155
title: Intensivkapazitäten und COVID-19-Intensivbettenbelegung in Deutschland

description: Das Intensivregister (www.intensivregister.de) ist eine digitale Plattform zur Echtzeiterfassung von intensivmedizinischen Behandlungs- und Bettenkapazitäten sowie den Fallzahlen intensivmedizinisch behandelter COVID-19-Patient:innen der etwa 1.300 Akut-Krankenhäuser Deutschlands. Bis 12 Uhr ist die tägliche Meldung laut Verordnung für die Krankenhäuser verpflichtend. Darüber hinaus kann beliebig oft gemeldet werden, sodass Veränderungen in den Kapazitäten aktuell berichtet werden können.
Damit ermöglicht das Intensivregister in der Pandemie sowie darüber hinaus, Engpässe in der intensivmedizinischen Versorgung im regionalen und zeitlichen Vergleich zu erkennen. Es schafft somit eine wertvolle Grundlage zur Reaktion und zur datengestützten Handlungssteuerung in Echtzeit. Zur Aufrechterhaltung der Krankenhausversorgung bietet das DIVI-Intensivregister demnach ein Portal zur Suche freier Intensivbetten und zur Kontaktaufnahme zwischen Fachkolleg*innen, um die gegenseitige Unterstützung bei Behandlungsfragen im intensivmedizinischen Kontext zu erleichtern. Ebenso liefert es eine maßgebliche Informationsgrundlage für staatliche Steuerungs- und Planungsmaßnahmen sowie für die lokale und überregionale Steuerung und Koordinierung der Bettenbelegung.
DOI: 10.15468/dl.bkbaq8
title: Occurrence Download

description: A dataset containing 108173 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rumex acetosella L.",
 "Country is Sweden"
 ]
}

 The dataset includes 108173 records from 60 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010371-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14565575
title: (LAPIS - not synced)

description: (this is only an old record that cannot be deleted)
DOI: 10.5281/zenodo.16962735
title: (LAPIS - not synced)

description: (this is only an old record that cannot be deleted)
DOI: 10.34740/kaggle/dsv/12885052
title: Trending Youtube Video Statistics (113 Countries)
DOI: 10.15468/dl.aqm9yk
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tenuiproboscis clupei",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000550-260129131611470/datasets/export for details.
DOI: 10.15468/dl.dqt8xv
title: Occurrence Download

description: A dataset containing 1985 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Occurrence evidence, Specimen, Fossil, Living Specimen)",
 "Continent is Asia",
 "Country is one of (Nepal, India, Pakistan)",
 "OccurrenceStatus is Present",
 "TaxonKey is Amaranthus hypochondriacus"
 ]
}

 The dataset includes 1985 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000551-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18419784
title: Paired Code Smells and Test Smells: A Fine-Grained Longitudinal Empirical Study

description: Artifact for Paired Code Smells and Test Smells: A Fine-Grained Longitudinal Empirical Study

 

├── gitlog_plus_smell.py          # Enriches smell data with Git commit logs├── filtering.py                # Processing the input scv by filtering for resolved smells├── filter_paired.py       # filters out paired smells from code smell and test smell├── single_smell.py               # Post-processing: Adds Git stats (LOC, files) to survival data├── rq1_analysis.py               # RQ1: Association Rule Mining ├── rq2_analysis.py               # RQ2: Survival Analysis (KM Curves, Cox PH, Log-rank)│├── stat/                         # Statistical aggregation & Evaluation scripts│   ├── counts_rq1.py             # Aggregates RQ1 association rules from multiple files│   ├── counts_rq2.py             # Aggregates RQ2 survival statistics│   ├── eval_direct_root_agreement.py # Evaluates agreement on manual vs. AI labeling│   ├── gpt_eval.py               # Main script to query OpenAI for causal analysis│   ├── gpt-as-judge.py           # Uses LLM to evaluate/judge removal reasons│   ├── run.sh                    # Shell script for batch execution│   │├── paired_smell_annotation.csv   # Annotations for paired smells├── unpaired_smell_annotation.csv # Annotations for unpaired smells└── rules_summary.csv             # Summary of rules
DOI: 10.5281/zenodo.18419783
title: Paired Code Smells and Test Smells: A Fine-Grained Longitudinal Empirical Study

description: Artifact for Paired Code Smells and Test Smells: A Fine-Grained Longitudinal Empirical Study

 

├── gitlog_plus_smell.py          # Enriches smell data with Git commit logs├── filtering.py                # Processing the input scv by filtering for resolved smells├── filter_paired.py       # filters out paired smells from code smell and test smell├── single_smell.py               # Post-processing: Adds Git stats (LOC, files) to survival data├── rq1_analysis.py               # RQ1: Association Rule Mining ├── rq2_analysis.py               # RQ2: Survival Analysis (KM Curves, Cox PH, Log-rank)│├── stat/                         # Statistical aggregation & Evaluation scripts│   ├── counts_rq1.py             # Aggregates RQ1 association rules from multiple files│   ├── counts_rq2.py             # Aggregates RQ2 survival statistics│   ├── eval_direct_root_agreement.py # Evaluates agreement on manual vs. AI labeling│   ├── gpt_eval.py               # Main script to query OpenAI for causal analysis│   ├── gpt-as-judge.py           # Uses LLM to evaluate/judge removal reasons│   ├── run.sh                    # Shell script for batch execution│   │├── paired_smell_annotation.csv   # Annotations for paired smells├── unpaired_smell_annotation.csv # Annotations for unpaired smells└── rules_summary.csv             # Summary of rules
DOI: 10.15468/dl.94hbv2
title: Occurrence Download

description: A dataset containing 1161 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Rhizophora apiculata",
 "HasCoordinate is true",
 "Year is greater than or equal to 1980",
 "Year is less than or equal to 2010",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 {
 "not" : {
 "HasGeospatialIssue" : [
 "is true"
 ]
 }
 }
 ]
}

 The dataset includes 1161 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000554-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mbj2c6
title: Occurrence Download

description: A dataset containing 4264 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ambystoma rosaceum"
 ]
}

 The dataset includes 4264 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000553-260129131611470/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.31194313
title: Cerebral microbleed burden is associated with domain-specific cognitive impairment pattern in acute stroke

description: Cerebral microbleeds (CMBs) represent a key imaging marker of cerebral small vessel disease (CSVD). This study aimed to investigate the relationship between CMB burden and domain-specific cognitive impairment in acute stroke patients. We enrolled 163 acute stroke patients stratified by Montreal Cognitive Assessment (MoCA) scores into cognitively impaired (MoCA ≤22, <i>n</i> = 79) and preserved (MoCA &gt; 22, <i>n</i> = 84) groups. Demographic, clinical, laboratory, and neuroimaging data were collected. Multivariable logistic regression was used to identify factors associated with global cognitive impairment, while linear regression models were applied to evaluate the associations between CMB burden and specific cognitive domains. Patients with cognitive impairment were older, less educated, and exhibited a higher CSVD burden (all <i>p</i> &lt; 0.05). In multivariate analyses, only age was independently associated with global cognitive impairment (OR = 1.082, <i>p</i> = 0.002). However, linear regression revealed that total CMB number was inversely correlated with visuospatial/executive function (β = −0.156) and memory recall (β = −0.201) after adjustment for confounding factors. Location-specific analysis demonstrated that mixed CMBs (involving both lobar and deep regions) were independently associated with visuospatial/executive deficits (β = −0.255), while deep CMBs specifically impacted abstract reasoning (β = −0.220). CMB burden, particularly mixed and deep distributions, is independently associated with specific cognitive domain impairments in acute stroke patients, highlighting the importance of CMB assessment for cognitive risk stratification.
DOI: 10.6084/m9.figshare.31194313.v1
title: Cerebral microbleed burden is associated with domain-specific cognitive impairment pattern in acute stroke

description: Cerebral microbleeds (CMBs) represent a key imaging marker of cerebral small vessel disease (CSVD). This study aimed to investigate the relationship between CMB burden and domain-specific cognitive impairment in acute stroke patients. We enrolled 163 acute stroke patients stratified by Montreal Cognitive Assessment (MoCA) scores into cognitively impaired (MoCA ≤22, <i>n</i> = 79) and preserved (MoCA &gt; 22, <i>n</i> = 84) groups. Demographic, clinical, laboratory, and neuroimaging data were collected. Multivariable logistic regression was used to identify factors associated with global cognitive impairment, while linear regression models were applied to evaluate the associations between CMB burden and specific cognitive domains. Patients with cognitive impairment were older, less educated, and exhibited a higher CSVD burden (all <i>p</i> &lt; 0.05). In multivariate analyses, only age was independently associated with global cognitive impairment (OR = 1.082, <i>p</i> = 0.002). However, linear regression revealed that total CMB number was inversely correlated with visuospatial/executive function (β = −0.156) and memory recall (β = −0.201) after adjustment for confounding factors. Location-specific analysis demonstrated that mixed CMBs (involving both lobar and deep regions) were independently associated with visuospatial/executive deficits (β = −0.255), while deep CMBs specifically impacted abstract reasoning (β = −0.220). CMB burden, particularly mixed and deep distributions, is independently associated with specific cognitive domain impairments in acute stroke patients, highlighting the importance of CMB assessment for cognitive risk stratification.