cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.94t550j
title: Data from: Evaluating alternative explanations for an association of extinction risk and evolutionary uniqueness in multiple insular lineages.

description: Studies in insular environments have often documented a positive
 association of extinction risk and evolutionary uniqueness (i.e. how
 distant a species is from its closest living relative). However, the cause
 of this association is unclear. One explanation is that species threatened
 with extinction are evolutionarily unique because they are old, implying
 that extinction risk increases with time since speciation (age-dependent
 extinction). An alternative explanation is that such threatened species
 are last survivors of clades that have undergone an elevated extinction
 rate, and that their uniqueness results from the extinction of their close
 relatives. Distinguishing between these explanations is difficult but
 important, since they imply different biological processes determining
 extinction patterns. Here we designed a simulation approach to distinguish
 between these alternatives using living species, and applied it to twelve
 insular radiations that show a positive association between extinction
 risk and evolutionary uniqueness. We also tested the sensitivity of
 results to underlying assumptions and variable extinction rates. Despite
 differences among the radiations considered, age-dependent extinction was
 supported as best explaining the majority of the empirical cases.
 Biological processes driving characteristic changes in abundance with
 species duration (age-dependency) may merit further investigation.
description: R Scripts, empirical and
 simulated data for 12 insular radiationsOnce unzipped, the
 folder "IUCN status of species" lists the species in each
 radiation, and their IUCN status (1, threatened; 0, non-threatened). The
 folder "Scripts for calculation of Bayes Factors" contains the
 two R scripts used to calculate Bayes Factors and obtain box plots. The
 folder "Scripts to obtain branch lengths" contains the R scripts
 used for each of the three main models (Constant birth-death, Aging and
 Shift) to identify threatened species, prune extinct species, and obtain
 branch lengths of threatened species across the simulations. The folder
 “Simulated Data” contains the branch lengths of species across
 simulations. For each simulated tree, branch lengths of threatened species
 follow the column “threatened spp”. The folder “Trees” contains the six
 pseudo-empirical trees used in the validation test, and twelve empirical
 trees used in the final analyses.Scripts_Data.zip
DOI: 10.5281/zenodo.18337762
title: WE_Brand4_100F_2_23C_0k_EDLC_single

description: MetSuperCap Project Dataset 100F SC sample 2 WE   - EDLC Single - Brand4

Part of the Constant Temperature DataBase
DOI: 10.5061/dryad.668950m
title: Data from: Spatiotemporal sampling patterns in the 230 million year fossil record of terrestrial crocodylomorphs and their impact on diversity

description: The 24 extant crocodylian species are the remnants of a once much more
 diverse and widespread clade. Crocodylomorpha has an approximately 230
 million year evolutionary history, punctuated by a series of radiations
 and extinctions. However, the group's fossil record is biased.
 Previous studies have reconstructed temporal patterns in subsampled
 crocodylomorph palaeobiodiversity, but have not explicitly examined
 variation in spatial sampling, nor the quality of this record. We compiled
 a dataset of all taxonomically diagnosable non‐marine crocodylomorph
 species (393). Based on the number of phylogenetic characters that can be
 scored for all published fossils of each species, we calculated a
 completeness value for each taxon. Mean average species completeness (56%)
 is largely consistent within subgroups and for different body size
 classes, suggesting no significant biases across the crocodylomorph tree.
 In general, average completeness values are highest in the Mesozoic, with
 an overall trend of decreasing completeness through time. Many extant taxa
 are identified in the fossil record from very incomplete remains, but this
 might be because their provenance closely matches the species’ present‐day
 distribution, rather than through autapomorphies. Our understanding of
 nearly all crocodylomorph macroevolutionary ‘events’ is essentially driven
 by regional patterns, with no global sampling signal. Palaeotropical
 sampling is especially poor for most of the group's history.
 Spatiotemporal sampling bias impedes our understanding of several Mesozoic
 radiations, whereas molecular divergence times for Crocodylia are
 generally in close agreement with the fossil record. However, the latter
 might merely be fortuitous, i.e. divergences happened to occur during our
 ephemeral spatiotemporal sampling windows.
description: Supplementary
 InformationData on valid
 crocodylomorph species, completeness, crocodylomorph-bearing collections,
 and body size, as well as temporal and spatial series for crocodylomorph
 diversity, completeness, and sampling
DOI: 10.5281/zenodo.18337761
title: WE_Brand4_100F_2_23C_0k_EDLC_single

description: MetSuperCap Project Dataset 100F SC sample 2 WE   - EDLC Single - Brand4

Part of the Constant Temperature DataBase
DOI: 10.5061/dryad.2gf6910
title: Data from: Phylogeny, ecology and deep time: 2D outline analysis of anuran skulls from the Early Cretaceous to Recent

description: Anurans have a long fossil record, spanning from the Early Jurassic to
 Recent. However, specimens are often severely flattened, limiting their
 inclusion in quantitative analyses of morphological evolution. We perform
 a two-dimensional morphometric analysis of anuran skull outlines,
 incorporating 42 Early Cretaceous to Miocene species, as well as 93 extant
 species in 32 families. Outlines were traced in tpsDig2 and analysed with
 elliptical Fourier analysis. Fourier coefficients were used in MANOVAs,
 phylogenetic MANOVAs (as significant phylogenetic signal was found) and
 disparity analyses across multiple ecological and life history groupings.
 The Neotropical realm showed higher disparity than the Australian,
 Palearctic and Oriental realms (p = 0.007, 0.013, 0.038, respectively),
 suggesting concordance of disparity and diversity. Developmental strategy
 had a weak effect on skull shape (R2 = 0.02, p = 0.039), and disparity was
 similar in metamorphosing and direct developing frogs. Ecological niche
 was a significant discriminator of skull shape (F = 1.43, p = 0.004), but
 not after phylogenetic correction. Evolutionary allometry had a small but
 significant influence on the cranial outlines of the combined extant and
 fossil dataset (R2 = 0.05, p = 0.004). Finally, morphospace occupation
 appears to have changed over time (F = 1.59, p = 5 × 10-10). However, as
 with ecological signal, this shift appears to be largely driven by
 phylogeny and was not significant after phylogenetic correction (R2 =
 0.26, p = 0.22). This study thus suggests that frog skull evolution is
 shaped more by phylogenetic constraints than by ecology.
description: Supplementary
 information Bardua et alSupplementary
 information including seven figures, two tables (with specimen data) and
 two photos of specimens.Bardua_et_al_Supplementary_information.docxBardua_et_al_composite_extant_fossil_treeComposite tree of extant and fossil frogs used in this study. Consists of 87 extant frogs and 38 fossil frogs. Please see Bardua et al paper for details.
DOI: 10.5061/dryad.27tn2gs
title: Data from: Evidence for seasonal variation in δ13C and δ18O profiles of Baculites and implications for growth rate

description: The life histories of ammonites and the life strategies they employed are
 difficult to assess without robust modern analogues but placing
 constraints on ammonite growth rates provides a fundamental first step to
 understanding this abundant, but poorly understood, fossil group. Here we
 interpret periodic variations in carbon and oxygen stable isotope profiles
 from Campanian and Maastrichtian ammonites (Baculites) as seasonally
 driven and use these records to determine their rate of shell
 precipitation. Several of these samples are housed in museums and were
 originally prepared using sealants for display and preservation but
 testing of these sealants indicated no alteration of the isotopic values
 of treated carbonate. Diagenetic alteration, as determined by shell
 microstructure, affected the preservation of isotopic signals, resulting
 in the loss of seasonal variation in less well‐preserved specimens, and
 the δ13C signal is more robust than δ18O. The periodicity of isotopic
 profiles from Baculites shells presented here suggest that these organisms
 grew at rapid rates (c. 340 mm per year), which may imply an r‐type life
 strategy in which the animals reach maturity quickly, spawn large
 quantities of progeny, and die at a young age. Because of the potential
 mobility of Baculites, reconstructing palaeoenvironmental conditions from
 these isotopic records is challenging and should be conducted cautiously.
 Unfortunately, well‐preserved Baculites shells much longer than 350 mm are
 rarely recovered, which complicates the statistical treatment of potential
 periodicity in isotopic profiles.
description: Sealant Testing δ18O and
 δ13C DataThis file contains all
 of the δ18O and δ13C data sampled from modern bivalves for the sealant
 testing portion of this study. Data are divided into three sections (A, B,
 and C), where A and C are samples taken from the control areas and B are
 samples taken from the treated area.Appendix_Sealants.xlsxBaculites Ontogeny δ18O and δ13C DataThis file contains all of the ontogenetically sampled δ18O and δ13C data used to construct the isotopic profiles for each of the baculites in this study.Appendix_Baculites.xlsxAll Baculites δ18O and δ13C DataThis supplementary figure shows all δ18O and δ13C data for all baculites sampled during this study on single plotsAll signals.tif
DOI: 10.15468/dl.h3r87q
title: Occurrence Download

description: A dataset containing 50602 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Lonicera nigra"
 ]
}

 The dataset includes 50602 records from 440 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001517-260126135527185/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.28710763
title: Nonparametric Quantile Regression and Uniform Inference with Unknown Error Distribution

description: This article studies the nonparametric estimation and uniform inference for the conditional quantile regression function (CQRF) with covariates exposed to measurement errors. We consider the case that the distribution of the measurement error is unknown and allowed to be either ordinary or super smooth. We estimate the density of the measurement error by the repeated measurements and propose the deconvolution kernel estimator for the CQRF. We derive the uniform Bahadur representation of the proposed estimator and construct the uniform confidence bands for the CQRF, uniformly in the sense for all covariates and a set of quantile indices, and establish the theoretical validity of the proposed inference. A data-driven approach for selecting the tuning parameter is also included. Monte Carlo simulations and a real data application demonstrate the usefulness of the proposed method.
DOI: 10.6084/m9.figshare.28710763.v2
title: Nonparametric Quantile Regression and Uniform Inference with Unknown Error Distribution

description: This article studies the nonparametric estimation and uniform inference for the conditional quantile regression function (CQRF) with covariates exposed to measurement errors. We consider the case that the distribution of the measurement error is unknown and allowed to be either ordinary or super smooth. We estimate the density of the measurement error by the repeated measurements and propose the deconvolution kernel estimator for the CQRF. We derive the uniform Bahadur representation of the proposed estimator and construct the uniform confidence bands for the CQRF, uniformly in the sense for all covariates and a set of quantile indices, and establish the theoretical validity of the proposed inference. A data-driven approach for selecting the tuning parameter is also included. Monte Carlo simulations and a real data application demonstrate the usefulness of the proposed method.
DOI: 10.6084/m9.figshare.28710763.v1
title: Non-parametric Quantile Regression and Uniform Inference with Unknown Error Distribution*

description: This paper studies the non-parametric estimation and uniform inference for the conditional quantile regression function (CQRF) with covariates exposed to measurement errors. We consider the case that the distribution of the measurement error is unknown and allowed to be either ordinary or super smooth. We estimate the density of the measurement error by the repeated measurements and propose the deconvolution kernel estimator for the CQRF. We derive the uniform Bahadur representation of the proposed estimator and construct the uniform confidence bands for the CQRF, uniformly in the sense for all covariates and a set of quantile indices, and establish the theoretical validity of the proposed inference. A data-driven approach for selecting the tuning parameter is also included. Monte Carlo simulations and a real data application demonstrate the usefulness of the proposed method.
DOI: 10.17632/fm49hhpdg3.1
title: Separation-of-function mutants reveal the NF-kB-independent involvement of IkBα in the regulation of intestinal stemness

description: We have previously shown that the NF-κB inhibitor IkBa binds the chromatin together with PRC2 to confer responsiveness to PRC2 targets in the presence of inflammatory cues. This alternative function has been elusive in both physiological and disease conditions because of the predominant role of IkBa as a negative regulator of NF-κB. Here, we uniquely characterize the specific residues of IkBa that allow the generation of separation-of-function (SOF) mutants that are defective for either NF-κB-related (SOF NF-κB) or chromatin-related (SOF H2A,H4) activities. Expression of IkBa SOF NF-κB, but not SOF H2A/H4, is sufficient to negatively regulate a specific stemness program in intestinal cells, thereby rescuing the differentiation block imposed by IkBa deficiency. By ChIP assay, we demonstrated that IkBa binds to several stemness genes that are transcriptionally repressed upon IkBa SOF NF-κB induction. Our data suggest that SOF mutants provide an exclusive tool for studying IkBa functions in physiology and disease.
DOI: 10.15468/dl.jkcrwb
title: Occurrence Download

description: A dataset containing 18862 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Andrena wilkella (Kirby, 1802)"
 ]
}

 The dataset includes 18862 records from 224 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009607-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rkntsj
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bathytroctes microlepis Günther, 1878",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "BasisOfRecord is one of (Specimen, Living Specimen, Observation, Human Observation, Machine Observation, Material sample, Literature Occurrence, Material citation, Occurrence evidence)",
 "Geometry POLYGON ((54.0145 -15.8532,54.1138 -16.1504,54.9312 -16.1504,55.0218 -15.961,54.8989 -15.5532,54.5521 -15.3811,54.2381 -15.4633,54.0145 -15.8532))"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010678-250525065834625/datasets/export for details.
DOI: 10.15468/dl.cjg8uz
title: Occurrence Download

description: A dataset containing 277643 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Africa",
 "Country is Burkina Faso",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 277643 records from 338 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009420-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.a8edxc
title: Occurrence Download

description: A dataset containing 359916 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Tracheophyta",
 "DecimalLatitude is greater than or equal to 19.085278",
 "DecimalLatitude is less than or equal to 24.085278",
 "DecimalLongitude is greater than or equal to -160.0",
 "DecimalLongitude is less than or equal to -155.0",
 "HasCoordinate is TRUE",
 "HasGeospatialIssue is FALSE"
 ]
}

 The dataset includes 359916 records from 211 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009426-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fc4xm3
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Bungarus wanghaotingi)",
 "DecimalLatitude is greater than or equal to 0",
 "DecimalLatitude is less than or equal to 60",
 "DecimalLongitude is greater than or equal to 60",
 "DecimalLongitude is less than or equal to 150",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 5 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009470-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.69ccep
title: Occurrence Download

description: A dataset containing 30466 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lonicera caerulea"
 ]
}

 The dataset includes 30466 records from 459 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009471-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.wjmx5e
title: Occurrence Download

description: A dataset containing 16957 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Continent is North America",
 "DatasetKey is EOD – eBird Observation Dataset",
 "TaxonKey is Charadrius melodus",
 "Year 2018-2018"
 ]
}

 The dataset includes 16957 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009473-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.c8v645
title: Occurrence Download

description: A dataset containing 11610156 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is Asia",
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 11610156 records from 4150 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009394-251120083545085/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17603/ds2-6egd-6q32
title: Prolonged Unplanned School Closures Caused by Hurricanes

description: Dataset and code for the following paper: Abbasi, D., Safari, S., Nateghi, R., & Reilly, A. C. (2025). Learning after the Storm: Characterizing and Understanding Prolonged Unplanned School Closures after Hurricanes. International Journal of Disaster Risk Reduction, 105611.

Schools are vital for providing both education and social services, but when closures extend for long periods due to disasters, they can disrupt student learning and cause widespread negative consequences for families and the broader community. This dataset compiles information on Prolonged Unplanned School Closures (PUSCs)—those lasting seven or more unexpected days—linked to hurricanes from the 2011/12 to 2018/19 school years across East and Gulf Coast school districts. It includes data on districts that closed, as well as counterfactuals where closures were avoided or brief. Supplementary district-level data cover socioeconomic factors, geography, school district capacity, and hazard characteristics, along with code used for analysis. This dataset (CSV and XLSX) and code underpin the study “Learning after the Storm: Characterizing and Understanding Prolonged Unplanned School Closures After Hurricanes.”
DOI: 10.18739/a2h98zf7r
title: Understand and forecast long-term variations of in-situ geophysical and geomechanical characteristics of degrading permafrost in the Arctic - continuously observed ground temperatures, Utqiagvik, Alaska, 2022-2023

description: This project is part of the NSF United States Department of Agriculture-National Institute of Food and Agriculture (NIFA)-jointly-funded Signals in the Soil (SitS) program whose goal is to support collaborative research on dynamic soil processes and soil formation through advances in sensor systems and predictive, process-based and mechanistic modeling.
 This dataset provides ground temperature data in the active layer and near-surface permafrost to provide a baseline for assessing the future changes in the near-surface temperatures in the natural environment at Utqiagvik, Alaska. Collected ground temperature data are intended to help researchers ground-truth measurements of geophysical and geomechanical properties measured using a 1.5-kilometer-long fiber-optic distributed acoustic sensing array. The project outcomes will enable realistic evaluation of the performances of infrastructure in Arctic Alaska and improve the design of more robust infrastructure in the Arctic.
DOI: 10.15468/dl.kd6ex4
title: Occurrence Download

description: A dataset containing 155 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Oecomys mamorae (Thomas, 1906)"
 ]
}

 The dataset includes 155 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0015995-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14866250
title: Data for: Recurrent evolution of cryptic triploids in domesticated enset increases yield

description: This repository contains datasets for the article "Recurrent evolution of cryptic triploids in domesticated enset increases yield" (https://doi.org/10.1101/2025.02.14.638218). Files include:



VCF file for the whole dataset

VCF files for diploid enset individuals & clone-corrected dataset

VCF files for triploid enset individuals & clone-corrected dataset

Metadata for sequenced enset idividuals
DOI: 10.5281/zenodo.14866251
title: Data for: Recurrent evolution of cryptic triploids in domesticated enset increases yield

description: This repository contains datasets for the article "Recurrent evolution of cryptic triploids in domesticated enset increases yield" (https://doi.org/10.1101/2025.02.14.638218). Files include:



VCF file for the whole dataset

VCF files for diploid enset individuals & clone-corrected dataset

VCF files for triploid enset individuals & clone-corrected dataset

Metadata for sequenced enset idividuals
DOI: 10.7910/dvn/fl4f5j
title: Impact of China–Latin America Transportation Infrastructure Cooperation on Latin American Economies: A Project Data Study (2009–2023)

description: This dataset is used to share the main text, relevant data, tables, and figures from the author's paper titled Impact of China–Latin America Transportation Infrastructure Cooperation on Latin American Economies: A Project Data Study (2009–2023).