cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.30223501.v1
title: <b>Delgadillo et al, 2025. Dataset_lithonaetes</b>

description: Naturally discontinuous habitats provide a valuable system for studying how geographic isolation, limited gene flow, and environmental heterogeneity influence species' developmental plasticity. We investigated patterns of genomic and phenotypic divergence in the tropical frog <i>Leptodactylus lithonaetes</i>, which is distributed across scattered rocky outcrops along an environmental gradient. We tested three hypotheses: (1) habitat discontinuity restricts gene flow, structuring plastic responses geographically; (2) environmental heterogeneity promotes divergent selection on plasticity based on local environmental conditions; and (3) reduced genetic diversity constrains adaptive plasticity. Across nine populations, we assessed isothermality, temperature, and precipitation seasonality and characterized natural breeding ponds. Using double-digest RAD sequencing, we obtained 11,254 single-nucleotide polymorphisms from 281 individuals across all nine populations. In a common garden experiment, we exposed tadpoles from four populations along the geographical gradient to simulated desiccation risk. Dataset 1 contains survival data from the common garden experiment. Dataset 2 contains data from the metamorphs at the end of the common garden experiment. Dataset 3 contains variables from the larvae during the common garden experiment. Dataset 4 contains data from the ponds characterized in each locality. Dataset 5 is the R Markdown code used to analyze datasets 1, 2, 3, and 4. Dataset 6 includes the R code used to analyze genomic data.
DOI: 10.6084/m9.figshare.28720685
title: Kerr et al. 2025 – Limb osteology and functional morphology of the extinct kangaroo <i>Dorcopsoides fossilis</i> (Macropodinae, Marsupialia) from Late Miocene central Australia – Supplementary Information

description: Supplementary Information for the publication 'Limb osteology and functional morphology of the extinct kangaroo <i>Dorcopsoides fossilis</i> (Macropodinae, Marsupialia) from Late Miocene central Australia' - Kerr et al. 2025.
DOI: 10.6084/m9.figshare.28720685.v1
title: Kerr et al. 2025 – Limb osteology and functional morphology of the extinct kangaroo <i>Dorcopsoides fossilis</i> (Macropodinae, Marsupialia) from Late Miocene central Australia – Supplementary Information

description: Supplementary Information for the publication 'Limb osteology and functional morphology of the extinct kangaroo <i>Dorcopsoides fossilis</i> (Macropodinae, Marsupialia) from Late Miocene central Australia' - Kerr et al. 2025.
DOI: 10.15468/dl.rxepzm
title: Occurrence Download

description: A dataset containing 10 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Epinephelus fuscoguttatus",
 "Country is China",
 "HasCoordinate is true"
 ]
}

 The dataset includes 10 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032323-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7910/dvn/9gc6zl
title: University of Venda 2025/2026 Undergraduate Form, Diploma Form Is On Sales! Call Admin Via WhatsApp +27780430015‬ To Apply Contact The Registrar Office Via WhatsApp ‪(+27780430015) ‪(+27780430015) For Guidelines On How To Apply And Register Before Closing Date! Registrar Office Via WhatsApp ‪+27780430015.

description: University of Venda 2025/2026 Undergraduate Form, Diploma Form Is On Sales! Call Admin Via WhatsApp +27780430015‬ To Apply Contact The Registrar Office Via WhatsApp ‪(+27780430015) ‪(+27780430015) For Guidelines On How To Apply And Register Before Closing Date! Registrar Office Via WhatsApp ‪+27780430015.
description: University of Venda 2025/2026 Undergraduate Form, Diploma Form Is On Sales! Call Admin Via WhatsApp +27780430015‬ To Apply Contact The Registrar Office Via WhatsApp ‪(+27780430015) ‪(+27780430015) For Guidelines On How To Apply And Register Before Closing Date! Registrar Office Via WhatsApp ‪+27780430015.
DOI: 10.6084/m9.figshare.30243355
title: Typhoon landfall track significantly changes coastal nitrogen cycling pathways by altering hydrodynamic regimes

description: We conducted a high-frequency field investigation encompassing one pre-typhoon and four post-typhoon cruises for two typhoons with contrasting landfall positions: Lionrock (left-side) and Chaba (right-side). This study integrates measurements of physicochemical parameters with nitrate dual isotopes (δ<sup>15</sup>N-NO<sub>3</sub><sup>-</sup> and δ<sup>18</sup>O-NO<sub>3</sub><sup>-</sup>), applying a two-end-member mixing model and a Bayesian (SIAR) mixing model.
DOI: 10.6084/m9.figshare.30243355.v1
title: Typhoon landfall track significantly changes coastal nitrogen cycling pathways by altering hydrodynamic regimes

description: We conducted a high-frequency field investigation encompassing one pre-typhoon and four post-typhoon cruises for two typhoons with contrasting landfall positions: Lionrock (left-side) and Chaba (right-side). This study integrates measurements of physicochemical parameters with nitrate dual isotopes (δ<sup>15</sup>N-NO<sub>3</sub><sup>-</sup> and δ<sup>18</sup>O-NO<sub>3</sub><sup>-</sup>), applying a two-end-member mixing model and a Bayesian (SIAR) mixing model.
DOI: 10.7910/dvn/k2tho9
title: University of South Africa (Unisa) 2025/2026 Undergraduate Form, Diploma Form Is On Sales! Call Admin Via WhatsApp +27780430015‬ To Apply Contact The Registrar Office Via WhatsApp ‪(+27780430015) ‪(+27780430015) For Guidelines On How To Apply And Register Before Closing Date! Registrar Office Via WhatsApp ‪+27780430015.

description: University of South Africa (Unisa) 2025/2026 Undergraduate Form, Diploma Form Is On Sales! Call Admin Via WhatsApp +27780430015‬ To Apply Contact The Registrar Office Via WhatsApp ‪(+27780430015) ‪(+27780430015) For Guidelines On How To Apply And Register Before Closing Date! Registrar Office Via WhatsApp ‪+27780430015.
description: University of South Africa (Unisa) 2025/2026 Undergraduate Form, Diploma Form Is On Sales! Call Admin Via WhatsApp +27780430015‬ To Apply Contact The Registrar Office Via WhatsApp ‪(+27780430015) ‪(+27780430015) For Guidelines On How To Apply And Register Before Closing Date! Registrar Office Via WhatsApp ‪+27780430015.
DOI: 10.15468/dl.bykzas
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pseudanthias tuka",
 "Country is China",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032324-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7910/dvn/i9j5ba
title: Nelson Mandela University 2025/2026 Undergraduate Form, Diploma Form Is On Sales! Call Admin Via WhatsApp +27780430015‬ To Apply Contact The Registrar Office Via WhatsApp ‪(+27780430015) ‪(+27780430015) For Guidelines On How To Apply And Register Before Closing Date! Registrar Office Via WhatsApp ‪+27780430015.

description: Nelson Mandela University 2025/2026 Undergraduate Form, Diploma Form Is On Sales! Call Admin Via WhatsApp +27780430015‬ To Apply Contact The Registrar Office Via WhatsApp ‪(+27780430015) ‪(+27780430015) For Guidelines On How To Apply And Register Before Closing Date! Registrar Office Via WhatsApp ‪+27780430015.
description: Nelson Mandela University 2025/2026 Undergraduate Form, Diploma Form Is On Sales! Call Admin Via WhatsApp +27780430015‬ To Apply Contact The Registrar Office Via WhatsApp ‪(+27780430015) ‪(+27780430015) For Guidelines On How To Apply And Register Before Closing Date! Registrar Office Via WhatsApp ‪+27780430015.
DOI: 10.7910/dvn/0l5tax
title: Walter Sisulu University 2025/2026 Undergraduate Form, Diploma Form Is On Sales! Call Admin Via WhatsApp +27780430015‬ To Apply Contact The Registrar Office Via WhatsApp ‪(+27780430015) ‪(+27780430015) For Guidelines On How To Apply And Register Before Closing Date! Registrar Office Via WhatsApp ‪+27780430015.

description: Walter Sisulu University 2025/2026 Undergraduate Form, Diploma Form Is On Sales! Call Admin Via WhatsApp +27780430015‬ To Apply Contact The Registrar Office Via WhatsApp ‪(+27780430015) ‪(+27780430015) For Guidelines On How To Apply And Register Before Closing Date! Registrar Office Via WhatsApp ‪+27780430015.
description: Walter Sisulu University 2025/2026 Undergraduate Form, Diploma Form Is On Sales! Call Admin Via WhatsApp +27780430015‬ To Apply Contact The Registrar Office Via WhatsApp ‪(+27780430015) ‪(+27780430015) For Guidelines On How To Apply And Register Before Closing Date! Registrar Office Via WhatsApp ‪+27780430015.
DOI: 10.15468/dl.eajbgg
title: Occurrence Download

description: A dataset containing 54 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pampus argenteus",
 "Country is China",
 "HasCoordinate is true"
 ]
}

 The dataset includes 54 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032325-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.vzfqaa
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pampus argenteus",
 "Country is Croatia",
 "HasCoordinate is true"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032326-250920141307145/datasets/export for details.
DOI: 10.18742/28256156
title: Inscriptions of Aphrodisias 2007: The EpiDoc files

description: The texts have been edited in EpiDoc XML EpiDoc DTD v. 5
DOI: 10.18742/28256156.v1
title: Inscriptions of Aphrodisias 2007: The EpiDoc files

description: The texts have been edited in EpiDoc XML EpiDoc DTD v. 5
DOI: 10.5284/1125782
title: Site Data from Archaeological Works on the Land at Ivy House, Bull Lane, Peakirk, Peterborough, January and December 2022

description: This collection comprises images, reports, and site records from an archaeological evaluation and excavation at Ivy House, Bull Lane, Peakirk, Peterborough. This work was undertaken by Pre-Construct Archaeology Ltd. in January and December 2022. The investigations revealed two north-south aligned ditches and a series of pits which contained a small amount pottery dating to the medieval period. The site lies circa 150 metres south of St Pega church, which has Saxon origins, and the features may be part of settlement evidence related to early medieval occupation at Peakirk or agricultural activity in its close vicinity.
DOI: 10.15468/dl.nuzu4g
title: Occurrence Download

description: A dataset containing 4386 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Acromyrmex Mayr, 1865",
 "Year 2000-2025"
 ]
}

 The dataset includes 4386 records from 76 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023318-250127130748423/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10814567
title: 20240216 SPS Transfer Function Data

description: Raw data from the SPS cable transfer functions. Transfer functions were measured from after the hybrid combiner to the oscilloscope in the SPS Faraday cage in BA3. The oscilloscope used to measure the MD scope data was the Tektronix DPO 7254C. The other data was measured on a Teledyne LeCroy waverunner 8254M-MS. Note that the BQM signal saturated so the data is not useable to generate a reliable transfer function. Analysis scripts published here are depricated and should be optained from GitLab.
DOI: 10.5281/zenodo.10814568
title: 20240216 SPS Transfer Function Data

description: Raw data from the SPS cable transfer functions. Transfer functions were measured from after the hybrid combiner to the oscilloscope in the SPS Faraday cage in BA3. The oscilloscope used to measure the MD scope data was the Tektronix DPO 7254C. The other data was measured on a Teledyne LeCroy waverunner 8254M-MS. Note that the BQM signal saturated so the data is not useable to generate a reliable transfer function. Analysis scripts published here are depricated and should be optained from GitLab.
DOI: 10.5281/zenodo.14848273
title: Seismic denoising by deep learning from natural repeating earthquakes

description: We propose that similar waveforms from repeating earthquakes can be used to evaluate the performance of seismic denoising methods. Our training dataset is from natural repeating earthquakes, without any synthetic data as labels or assumptions about the noise. Once downloaded, you'll find a folder named "example". Inside this folder are sample SAC data and the denoising program.The provided script (written in Python) processes the SAC data to remove noise. Simply place your SAC files into the "example" folder, replacing the provided SAC example data.
DOI: 10.5281/zenodo.14848274
title: Seismic denoising by deep learning from natural repeating earthquakes

description: We propose that similar waveforms from repeating earthquakes can be used to evaluate the performance of seismic denoising methods. Our training dataset is from natural repeating earthquakes, without any synthetic data as labels or assumptions about the noise. Once downloaded, you'll find a folder named "example". Inside this folder are sample SAC data and the denoising program.The provided script (written in Python) processes the SAC data to remove noise. Simply place your SAC files into the "example" folder, replacing the provided SAC example data.
DOI: 10.5284/1126017
title: Site Data from Archaeological Evaluation and Metal Detector Survey at Woodland Planting Belt at Lion Road, Palgrave, Suffolk, September 2023

description: This collection consists of images, text, spreadsheets, databases and site records from an archaeological evaluation and metal detector survey by ECUS Ltd at the woodland planting belt, Lion Road, Palgrave, Suffolk, in September 2023. The evaluation trenches identified three features, a pit, a large pit or hollow, and a post-medieval or modern gully while the metal detector survey did not find any pre-modern material.
DOI: 10.13127/cfti/landslides
title: CFTIlandslides, Italian database of historical earthquake-induced landslides
title: CFTIlandslides, database italiano delle frane sismo-indotte storiche
title: CFTIlandslides

description: The CFTIlandslides, Italian database of historical earthquake-induced landslides by Istituto Nazionale di Geofisica e Vulcanologia (INGV), was developed within the project “Multi-scale, integrated approach for the definition of earthquake-induced landslide hazard in Italy”, funded by the Italian Ministry for the Environment, and completed in 2022. The goal of the project was to develop a multidisciplinary approach for assessing the earthquake-induced landslide hazard at national, regional, and local scales, combining existing databases and integrating them with the results from previous projects and research activities. The main objective was the investigation of the central Apennine region.

One of the main scopes of the project was locating more accurately all recorded landslides. To this end we focused on the review of historical sources - either newly found or already archived in our database - and on the analysis of scientific articles and technical reports. In summary, our working group reviewed and integrated data relating to historical earthquake-induced landslides that were already included in the CFTI5Med.

The combination of the relatively frequent seismic release with a very high landslide susceptibility, makes the Italian territory especially prone to the occurrence of earthquake-induced landslides. For this reason, over the past two years we continued our activity by reviewing all events included in the CFTI5Med for which landslide effects were reported, then we broadened the investigated area to the entire Italian territory.
DOI: 10.13127/cfti/visual
title: CFTIvisual, Atlante delle fonti visive dei terremoti italiani
title: Atlas of the visual sources of Italian earthquakes
title: CFTIvisual

description: More than three decades of historical earthquake studies has produced many iconographic testimonies that may be used by scholars to gain further insight into the extent and economical value of the damage suffered. The type of images that emerged from specific research on the effects of earthquakes is very rich and varied: it includes drawings associated with damage assessment, engravings taken from real life drawings, prints, paintings, watercolors, mosaics, frescoes, and photographs. A class of its own, very valuable for the study of historical earthquakes, is the exact localization of earthquake effects on topographic maps; a type of source that allows the impact of specific major earthquakes to be displayed in great geographical detail.
description: Durante oltre tre decenni di studio dei terremoti storici italiani sono state reperite molte fonti visive (incisioni, dipinti, fotografie, documenti cinematografici ecc.) che possono essere utili agli studiosi di diverse discipline per integrare le informazioni sull'entità e la stima dei danni, la risposta delle istituzioni, le osservazioni scientifiche ecc. Molto ricca e varia è la tipologia delle fonti visive sugli effetti dei terremoti emerse da ricerche specifiche: disegni, talvolta anche associati a perizie, incisioni tratte da disegni dal vero, stampe, dipinti, acquerelli, mosaici, affreschi, hanno spesso arricchito i documenti editi e inediti che descrivono i terremoti del passato.
DOI: 10.5281/zenodo.14844791
title: The circulating cell-free DNA landscape in sepsis is dominated by impaired liver clearance

description: Abstract:

Circulating cell-free DNA (cfDNA) is a promising molecular biomarker. However, its utility in severe infection remains poorly understood. Here, we isolated cfDNA from sepsis patients and controls, demonstrating a 41-fold increase in the amount of cfDNA in circulation during disease. We used sequencing to reconstruct cfDNA methylomes, fragmentation profiles, and nucleosome footprints across 58 samples. We observed no difference in cfDNA composition between patients and controls, challenging the idea that cfDNA increases due to higher immune cell death during sepsis. Instead, we suggest that liver dysfunction prevents efficient clearance of cfDNA during disease. This was supported by fragmentation and end-motif patterns, both of which showed evidence of cfDNA being exposed to circulating nucleases for a prolonged period, proportionally to the extent of liver dysfunction. Variation in cfDNA of megakaryocyte-erythroid progenitor origin was also a significant contributor in sepsis, increasing over time. Moreover, we showed that cfDNA retains nucleosome footprints with cell type-specific gene activity information. We developed a novel approach to study nucleosome phasing that successfully recovers tissue-specific signatures. By combining this with single-cell data, we demonstrated that sepsis patients with liver dysfunction have higher amounts of cfDNA derived from Kupffer cells and the liver parenchyma. In conclusion, we present the first high-throughput multi-modal study of cfDNA during sepsis, which will serve as a reference point for future studies on the role of this biomarker in critical illness.

 

Contents:

This data set contains methylation estimates (i.e. percentage of methylated reads) for 56 high-quality cfDNA samples from sepsis patients and healthy controls. Methylation is reported for 19.28 million autosomal CpG sites which passed QC filters and were considered variable. The data set is compsoed of three interlinked files:

 

a) Methylation matrix: Measured CpG methylation perecentages

b) CpG annotations: Genomic position (corresponding to the GRCh38 refernece genome) and coverage information for each CpG site included in the study

c) Sample metadata: Techincal and biological information for each sample included in the study (e.g. disease status, sequencing batch, etc)

 

Associated software and methods:

For a more detailed understanding of how these methylation estimates were generated from raw sequencing reads, please refer to the associated data analysis pipeline available in GitHub: https://github.com/jknightlab/TAPS-pipeline/
DOI: 10.5281/zenodo.14844792
title: The circulating cell-free DNA landscape in sepsis is dominated by impaired liver clearance

description: Abstract:

Circulating cell-free DNA (cfDNA) is a promising molecular biomarker. However, its utility in severe infection remains poorly understood. Here, we isolated cfDNA from sepsis patients and controls, demonstrating a 41-fold increase in the amount of cfDNA in circulation during disease. We used sequencing to reconstruct cfDNA methylomes, fragmentation profiles, and nucleosome footprints across 58 samples. We observed no difference in cfDNA composition between patients and controls, challenging the idea that cfDNA increases due to higher immune cell death during sepsis. Instead, we suggest that liver dysfunction prevents efficient clearance of cfDNA during disease. This was supported by fragmentation and end-motif patterns, both of which showed evidence of cfDNA being exposed to circulating nucleases for a prolonged period, proportionally to the extent of liver dysfunction. Variation in cfDNA of megakaryocyte-erythroid progenitor origin was also a significant contributor in sepsis, increasing over time. Moreover, we showed that cfDNA retains nucleosome footprints with cell type-specific gene activity information. We developed a novel approach to study nucleosome phasing that successfully recovers tissue-specific signatures. By combining this with single-cell data, we demonstrated that sepsis patients with liver dysfunction have higher amounts of cfDNA derived from Kupffer cells and the liver parenchyma. In conclusion, we present the first high-throughput multi-modal study of cfDNA during sepsis, which will serve as a reference point for future studies on the role of this biomarker in critical illness.

 

Contents:

This data set contains methylation estimates (i.e. percentage of methylated reads) for 56 high-quality cfDNA samples from sepsis patients and healthy controls. Methylation is reported for 19.28 million autosomal CpG sites which passed QC filters and were considered variable. The data set is compsoed of three interlinked files:

 

a) Methylation matrix: Measured CpG methylation perecentages

b) CpG annotations: Genomic position (corresponding to the GRCh38 refernece genome) and coverage information for each CpG site included in the study

c) Sample metadata: Techincal and biological information for each sample included in the study (e.g. disease status, sequencing batch, etc)

 

Associated software and methods:

For a more detailed understanding of how these methylation estimates were generated from raw sequencing reads, please refer to the associated data analysis pipeline available in GitHub: https://github.com/jknightlab/TAPS-pipeline/
DOI: 10.5519/qd.vvfdwlwa
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (5939712 records)