cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.47223c
title: Occurrence Download

description: A dataset containing 13512 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Cuscuta campestris Yunck.)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Living Specimen, Machine Observation, Literature Occurrence)",
 "Geometry POLYGON((-180 -90,180 -90,180 90,-180 90,-180 -90))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1945"
 ]
}

 The dataset includes 13512 records from 449 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009657-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7xstrv
title: Occurrence Download

description: A dataset containing 10826 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (United States of America, Canada, Netherlands, Russian Federation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Spiraea douglasii Hook."
 ]
}

 The dataset includes 10826 records from 117 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009659-250402121839773/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.28747646
title: Field measurements dataset for identifying DOC dynamics with coupling of EMMA and DOC-Q at a small mountainous headwater catchment of the Danjiangkou Reservoir, China

description: This study investigates rainfall(1-h), streamflow(1-min), streamflow dissolved organic carbon (DOC) (grab samples), streamflow specific conductivity (SC) (grab samples) and riparian soil water SC(1-min) across five storms in summer 2021 at Huanggou catchment, a small mountainous headwater catchment of the Danjiangkou Reservoir in Hanjiang River basin, central China. Streamflow was sourced from overland flow, subsurface flow and groundwater. Full-time DOC dynamics on fluxes and yields across five events were evaluated with coupling of SC-traced EMMA and DOC-Q relations of end-members. The study aims to provide insights into the event-scale DOC-Q of streamflow and two end-members, three end-member fluxes and yields of water/DOC during and between events, and shifts on DOC sources with antecedent condition and rainfall-runoff response.
DOI: 10.15468/dl.x2pnju
title: Occurrence Download

description: A dataset containing 659 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Cuscuta chinensis Lam.)",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Living Specimen, Machine Observation, Literature Occurrence)",
 "Geometry POLYGON((-180 -90,180 -90,180 90,-180 90,-180 -90))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1945"
 ]
}

 The dataset includes 659 records from 45 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009660-250402121839773/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14799287
title: Raw data for the article "Ultrafast Plasmonics Beyond the Perturbative Regime: Breaking the Electronic-Optical Dynamics Correspondence"
DOI: 10.5281/zenodo.14799288
title: Raw data for the article "Ultrafast Plasmonics Beyond the Perturbative Regime: Breaking the Electronic-Optical Dynamics Correspondence"
DOI: 10.6084/m9.figshare.25466395
title: Data from: Questioning the sixth mass extinction

description: <b>Abstract</b>The idea that Earth is currently experiencing a sixth mass extinction is widespread. We critically evaluate this claim. Very few studies have tested this idea. Some studies showed that recent extinction rates are faster than fossil background rates, but extinction rates can exceed background rates outside mass extinctions. Other studies extrapolated from recent extinctions to project 75% global species loss. But these recent extinctions were mostly of island species. No cause was specified for these future extinctions, and &gt;50% of assessed species are considered non-threatened. We find numerous other issues. Proponents of the sixth mass extinction have made invaluable contributions by highlighting recent extinctions, but these extinctions may not be equivalent to past mass extinctions or relevant to current threats.
DOI: 10.15468/dl.5psvxw
title: Occurrence Download

description: A dataset containing 1917 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "MediaType is Image",
 "ScientificName is Salvia glutinosa L."
 ]
}

 The dataset includes 1917 records from 69 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003560-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zmwup7
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Pneumocystis murina Keely, J.M.Fisch., Cushion & Stringer"
 ]
}

 The dataset includes 13 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003561-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jjw3an
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Dasyprocta prymnolopha Wagler, 1831",
 "Year 1978-2019"
 ]
}

 The dataset includes 15 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003562-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.xmxpaw
title: Occurrence Download

description: A dataset containing 3746 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "MediaType is Image",
 "ScientificName is Salvia pratensis L."
 ]
}

 The dataset includes 3746 records from 109 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003563-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rqtkbh
title: Occurrence Download

description: A dataset containing 11374 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Canada, United States of America)",
 "TaxonKey is Lysimachia terrestris (L.) Britton, Sterns & Poggenb."
 ]
}

 The dataset includes 11374 records from 191 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003564-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.60520/ieda/113682
title: Whole-rock and mineral trace elements of granitic veins in the Tongbai orogen, China

description: The dataset includes whole rock trace elements and mineral trace elementsfor granitic veins in the Tongbai orogen. The data were obtained by ICP-MS in the Wuhan SampleSolution Analytical Technology Co., Ltd. and by LA-ICP-MS at University of Science and Teconology of China. The data were used to trace the trace element behaviors during intracrustal differentiation.
DOI: 10.15468/dl.2h69rg
title: Occurrence Download

description: A dataset containing 2240 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "MediaType is Image",
 "ScientificName is Saxifraga rotundifolia L."
 ]
}

 The dataset includes 2240 records from 59 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003566-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.sq744b
title: Occurrence Download

description: A dataset containing 3 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Aspergillus puulaauensis Jurjević, S.W.Peterson & B.W.Horn"
 ]
}

 The dataset includes 3 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003565-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.n9f26w
title: Occurrence Download

description: A dataset containing 287 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "MediaType is Image",
 "ScientificName is Scilla siberica Andrews"
 ]
}

 The dataset includes 287 records from 32 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003567-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jt6xeh
title: Occurrence Download

description: A dataset containing 184 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "StateProvince is one of (RIO GRaNdE dO SUL, Rio Grabde do Sul)",
 "TaxonKey is Sporophila pileata (P.L.Sclater, 1865)"
 ]
}

 The dataset includes 184 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003569-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gcgu4p
title: Occurrence Download

description: A dataset containing 52 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is BOLD:AAC8494"
 ]
}

 The dataset includes 52 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003570-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.q6362g
title: Occurrence Download

description: A dataset containing 4 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Lindgomyces ingoldianus (Shearer & K.D.Hyde) K.Hiray., Kaz.Tanaka & Shearer"
 ]
}

 The dataset includes 4 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003571-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.twhxbc
title: Occurrence Download

description: A dataset containing 1056 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "MediaType is Image",
 "ScientificName is Sempervivum tectorum L."
 ]
}

 The dataset includes 1056 records from 72 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003572-250214102907787/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.28431047
title: HC010_Export_2024-06-10 Abbott Paper.xlsx

description: Dried blood spot samples (DBS) can help improve access to hepatitis C virus (HCV) testing for hard-to-reach populations. We conducted a multicentre diagnostic accuracy study to evaluate the performance of the Abbott m2000 platform for the detection of HCV RNA using DBS. The study was conducted at four sites in Cameroon, Rwanda, Georgia and Greece. The diagnostic accuracy of the Abbott RealTime HCV assay was assessed using DBS prepared from capillary and venous samples collected in three targeted populations: persons at risk of HCV, living with HCV, and treated for HCV. Abbott m2000 plasma samples were used as reference tests. In total, samples from 936 individuals (76.6% HCV antibody positive) were tested. Both capillary DBS and venous DBS showed a high sensitivity and specificity with 95.2% (95% CI: 92.9–96.8) and 95.6% (95%CI: 93.3–97.1), respectively, using capillary DBS and 95.4% (95% CI: 93.1–97.0) and 96.0% (95% CI: 93.8–97.4), respectively, using venous DBS. Overall, the Abbot RealTime HCV assay on the Abbott m2000 platform demonstrated strong performance in detecting HCV RNA using DBS. Our findings suggest that DBS can be used to screen for HCV infection in minoritized populations and in decentralized contexts. As a less costly and resource-dependent approach than plasma, DBS can improve HCV testing uptake, and accelerate access to HCV treatment.
DOI: 10.6084/m9.figshare.28431047.v1
title: HC010_Export_2024-06-10 Abbott Paper.xlsx

description: Dried blood spot samples (DBS) can help improve access to hepatitis C virus (HCV) testing for hard-to-reach populations. We conducted a multicentre diagnostic accuracy study to evaluate the performance of the Abbott m2000 platform for the detection of HCV RNA using DBS. The study was conducted at four sites in Cameroon, Rwanda, Georgia and Greece. The diagnostic accuracy of the Abbott RealTime HCV assay was assessed using DBS prepared from capillary and venous samples collected in three targeted populations: persons at risk of HCV, living with HCV, and treated for HCV. Abbott m2000 plasma samples were used as reference tests. In total, samples from 936 individuals (76.6% HCV antibody positive) were tested. Both capillary DBS and venous DBS showed a high sensitivity and specificity with 95.2% (95% CI: 92.9–96.8) and 95.6% (95%CI: 93.3–97.1), respectively, using capillary DBS and 95.4% (95% CI: 93.1–97.0) and 96.0% (95% CI: 93.8–97.4), respectively, using venous DBS. Overall, the Abbot RealTime HCV assay on the Abbott m2000 platform demonstrated strong performance in detecting HCV RNA using DBS. Our findings suggest that DBS can be used to screen for HCV infection in minoritized populations and in decentralized contexts. As a less costly and resource-dependent approach than plasma, DBS can improve HCV testing uptake, and accelerate access to HCV treatment.
DOI: 10.6084/m9.figshare.26410992
title: Laplacian eigenvalue distribution, diameter and domination number of trees

description: For a graph <i>G</i> with domination number <i>γ</i>, Hedetniemi, Jacobs and Trevisan (2016) proved that mG[0,1)≤γ, where mG[0,1) means the number of Laplacian eigenvalues of <i>G</i> in the interval [0,1). Let <i>T</i> be a tree with diameter <i>d</i>. In this paper, we show that mT[0,1)≥(d+1)/3. All trees achieving the lower bound are completely characterized. Moreover, we prove that the domination number of a tree is (d+1)/3 if and only if it has exactly (d+1)/3 Laplacian eigenvalues less than one. As an application, it also provides a new type of tree, which shows the sharpness of the inequality due to Hedetniemi, Jacobs and Trevisan.
DOI: 10.6084/m9.figshare.26410992.v1
title: Laplacian eigenvalue distribution, diameter and domination number of trees

description: For a graph <i>G</i> with domination number <i>γ</i>, Hedetniemi, Jacobs and Trevisan (2016) proved that mG[0,1)≤γ, where mG[0,1) means the number of Laplacian eigenvalues of <i>G</i> in the interval [0,1). Let <i>T</i> be a tree with diameter <i>d</i>. In this paper, we show that mT[0,1)≥(d+1)/3. All trees achieving the lower bound are completely characterized. Moreover, we prove that the domination number of a tree is (d+1)/3 if and only if it has exactly (d+1)/3 Laplacian eigenvalues less than one. As an application, it also provides a new type of tree, which shows the sharpness of the inequality due to Hedetniemi, Jacobs and Trevisan.
DOI: 10.6084/m9.figshare.26311007.v1
title: On the matrix Heinz means and Rényi divergences

description: Bhatia, Lim and Yamazaki obtained results on the norm minimality of the Kubo-Ando Heinz means of positive semidefinite matrices. Namely, they proved that
|||A♯αB+A♯1−αB|||≤|||AαB1−α+A1−αBα|||,for α∈(0,1), in the case of the Schatten 1-norm or 2-norm. In this article, we refine these results via the matrix function in the definition of the Rényi divergence. We show that four different types of inequalities hold, under certain conditions, for Schatten 1- and 2-norms.
DOI: 10.6084/m9.figshare.26311007
title: On the matrix Heinz means and Rényi divergences

description: Bhatia, Lim and Yamazaki obtained results on the norm minimality of the Kubo-Ando Heinz means of positive semidefinite matrices. Namely, they proved that
|||A♯αB+A♯1−αB|||≤|||AαB1−α+A1−αBα|||,for α∈(0,1), in the case of the Schatten 1-norm or 2-norm. In this article, we refine these results via the matrix function in the definition of the Rényi divergence. We show that four different types of inequalities hold, under certain conditions, for Schatten 1- and 2-norms.
DOI: 10.15468/dl.pfjgq7
title: Occurrence Download

description: A dataset containing 1746 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "MediaType is Image",
 "ScientificName is Senecio nemorensis L."
 ]
}

 The dataset includes 1746 records from 55 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003573-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.b6apj6
title: Occurrence Download

description: A dataset containing 6552 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Cucurbita moschata (Duchesne) Duchesne ex Poir."
 ]
}

 The dataset includes 6552 records from 177 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003574-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14884688
title: Simulated data for a magnetic flux rope

description: Data for the paper of Zhuang et al. Solar Physics, 2025

[1] cf08 is the simulated eruption of the flux rope.

[2] READF.FOR is written in FORTRAN and used to obtain the flux rope parameters.

[3] wang_fit and yu_fit include the fitted results.
DOI: 10.5281/zenodo.14884689
title: Simulated data for a magnetic flux rope

description: Data for the paper of Zhuang et al. Solar Physics, 2025

[1] cf08 is the simulated eruption of the flux rope.

[2] READF.FOR is written in FORTRAN and used to obtain the flux rope parameters.

[3] wang_fit and yu_fit include the fitted results.
DOI: 10.15468/dl.spwqty
title: Occurrence Download

description: A dataset containing 7881 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "MediaType is Image",
 "ScientificName is Silene acaulis (L.) Jacq."
 ]
}

 The dataset includes 7881 records from 118 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003575-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7582nr
title: Occurrence Download

description: A dataset containing 17641 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "OccurrenceStatus is Present",
 "TaxonKey is Chaetothyriales"
 ]
}

 The dataset includes 17641 records from 43 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003576-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6wpgdd
title: Occurrence Download

description: A dataset containing 261225 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "Geometry POLYGON((-72.74229 43.65289,-71.58337 43.65289,-71.58337 44.98004,-72.74229 44.98004,-72.74229 43.65289))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "Year 2010-2023"
 ]
}

 The dataset includes 261225 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003568-250214102907787/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14802059
title: MetaTIS: A tool to predict eukaryotic translation initiation sites

description: As the ribosome makes its foray unto a sequence of mRNA, ribosomes typically commence translation at a methionine-encoding AUG codon flanked by a so-called Kozak region, a short nucleic acid motif serving as an initiation site in many eukaryotes. Though, the characteristic AUG start codon of an mRNA is not always effective in initiating translation. In more seldom cases, near-cognate codon sequences may also be recognized as start sites. Ribosome profiling techniques, characterized by the stymieing of mRNA-ribosome complex translation function via chemical treatment, are able to elucidate active translation start sites. Historically, several bioinformatics classifiers have been trained on translation start site data, gleaned from ribosomal profiling, to predict putative translation initiation sites from mRNA sequence features. A stacking approach was formulated for the MetaTIS tool that can differentiate spurious and true translation initiation sites. The tool was trained on experimental data for translation initiation in HEK293 cells produced by the TISCA protocol, a method allowing for accurate translation initiation site identification. Our classifier delivers a notable ROC-AUC of 0.93 while performing on its own test set, as well as multiple external validation sets. Moreover, it was able to almost quantitively predict whether overlapping open-reading frames suppress translation from the main ORF for 11 genes in HeLa cells, as validated by experimental luciferase assays. The MetaTIS tool is publicly available as a webserver

 

The FlanksERF, KmersERF, and MetaTIS models with their training data can be found below. For information on how these models are utilized please refer to github. The datasets are composed of 229 columns. Whereby, the first 168 represent the upstream (U) and downstream (D) kmers of sizes 1 till 3. Then comes the start codon used and the normalized Noderer et al. efficiency values based on the flanking region. Next, 40 columns representing the 20 upsteam (U) and 20 downstream (D) nucleotides with respect to the initiation site. The final 19 features represent the relative binding scores of the 9 RNA binding proteins (RBPs) considered. Note that some RBPs have multiple binding motifs.

 

The FlanksERF and KmersERF are each composed of 40 random forest classifiers which are stored as a dictionary. scikit-learn version 1.5.1 was used to create these models. The DownstreamNegatives and Positives datasets were used to train the KmersERF model, while the UpstreamNegatives and Positives datasets were used to train the FlanksERF model.