cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.23174702
title: Data from "Maintenance of species boundaries amid hybridization in two island gingers with similar ecological niches"

description: <b>Zingiber_SSR.csv</b>Microsatellite loci of <i>Zingiber pleiostachyum</i> and <i>Zingiber shuanglongense</i> in GenAlEx format<br>- First two rows:<br>- Column 1: Number of loci<br>- Column 2: Number of samples<br>- Column 3: Number of populations<br>- Column 4 & 5: Sample size for each population<br>- From third rows:<br>- Column 1: Sample ID<br>- Column 2: Population ID<br>- Column 3 to 42: diploid genotype from 20 microsatellite loci. Missing data was labeled as -9.<b>Zingiber_occ.csv</b>Occurrence data for species distribution modeling<br>- Column 1: Species ID (ZP: <i>Zingiber pleiostachyum</i>; ZS: <i>Zingiber shuanglongense</i>)<br>- Column 2: Longitude<br>- Column 3: Latitude
DOI: 10.6084/m9.figshare.23174702.v1
title: Data from "Maintenance of species boundaries amid hybridization in two island gingers with similar ecological niches"

description: <b>Zingiber_SSR.csv</b>Microsatellite loci of <i>Zingiber pleiostachyum</i> and <i>Zingiber shuanglongense</i> in GenAlEx format<br>- First two rows:<br>- Column 1: Number of loci<br>- Column 2: Number of samples<br>- Column 3: Number of populations<br>- Column 4 & 5: Sample size for each population<br>- From third rows:<br>- Column 1: Sample ID<br>- Column 2: Population ID<br>- Column 3 to 42: diploid genotype from 20 microsatellite loci. Missing data was labeled as -9.<b>Zingiber_occ.csv</b>Occurrence data for species distribution modeling<br>- Column 1: Species ID (ZP: <i>Zingiber pleiostachyum</i>; ZS: <i>Zingiber shuanglongense</i>)<br>- Column 2: Longitude<br>- Column 3: Latitude
DOI: 10.22008/fk2/fb9axp/ikrpdv
title: T250_Kap_Lyngbæk_79v2a_400dpi.tif

description: :unav
DOI: 10.22008/fk2/fb9axp/zgc79t
title: T250_Kap_Lyngbæk_79v2a_400dpi.pdf

description: :unav
DOI: 10.22008/fk2/fb9axp
title: 79 V.2a Kap Lyngbæk. Topographic map, 1:250 000

description: Topographic map of Greenland, 1:250 000, 79 V.2a Kap Lyngbæk. 400 dpi. Coloured maps at 1:250 000 with contour interval 100 m. A set of 53 digital maps covers North and North-East Greenland from lnglefield Land in the west to Scoresby Sund in the east. One additional sheet provides an index map and a legend. The maps show the usual range of physiographic features, viz. coasts, rivers, lakes and ice. They are coloured with a 100 m contour interval over both land and ice, and with selected spot heights in metres. They have been drawn at the Survey from air photographs using Kort & Matrikelstyrelsen (KMS) ground control points and aerotriangulation. Map projection is Universal Transverse Mercator, zone 24. The maps are a sequel to a set of geological sheets at the same scale but with four extra sheets covering lnglefield Land and Humboldt Gletscher.
DOI: 10.6084/m9.figshare.24885036
title: Supplementary Material for: Exploring the relationship between lesion morphology and pathogenesis in acute small subcortical infarction

description: Introduction
Acute small subcortical infarctions (SSIs) result from occlusions of small penetrating arteries, and the underlying pathological factors can have different clinical implications. The objective of this study was to assess the clinical relevance of acute SSIs based on their sizes and morphologies.
Methods 
This retrospective case-control study analyzed clinical and imaging data of stroke patients with acute SSIs in penetrating artery territories who underwent MRI within 5 days of stroke onset, registered between 2016 and 2020. We categorized these patients into three groups based on size and morphology: diameter &lt; 20mm, diameter ≧ 20mm, and separated lesions. We then evaluated their clinical characteristics and outcomes.
Results 
We analyzed 726 stroke patients with SSIs, among whom 573 had a diameter &lt;20mm, 99 had a diameter ≥20mm, and 54 had separated lesions. The patients had a median age of 70 years and a median National Institutes of Health Stroke Scale (NIHSS) score of 4 on arrival. Patients who experienced early neurological deterioration (END) had a significantly lower chance of good functional outcomes (27.3% vs. 64.4%, p&lt;0.001). Patients with a diameter ≧20mm had the most severe NIHSS on arrival and at day 3, the highest rate of END, and the lowest rate of good outcome at 3 months. The incidence of cardioembolism did not differ between patients with diameters of ≥20mm and &lt;20mm. However, multiple logistic regression analysis revealed that separated lesions were more likely to be associated with cardioembolic stroke (adjusted odds ratio [aOR], 7.6; 95% confidence interval [CI], 2.0–28.5) and parent artery stenosis &gt;50% (aOR, 3.8; 95% CI, 2.1–7.0) than a diameter of &lt;20mm. Moreover, SSIs with a diameter of ≥20mm was found to be associated with an increased risk of END compared to that with a diameter of &lt;20mm (aOR, 2.9; 95% CI, 1.7–5.2).
Conclusion
Our study suggests that the sizes and morphologies of acute SSIs may indicate different underlying pathologies and be linked to diverse clinical outcomes. Our findings also challenge the current imaging criteria for embolic stroke of undetermined source, as we did not find a link between large subcortical infarction and cardioembolic stroke.
DOI: 10.6084/m9.figshare.22303480
title: Frogs reveal the global importance and interplay of colour-based protective and thermoregulatory functions

description: DEFINITION OF VARIABLE NAMES IN DATA FOR: 

Frogs reveal the global importance and interplay of colour-based protective and thermoregulatory functions

Ricarda Laumeier, Martin Brändle, Mark-Oliver Rödel, Stefan Brunzel, Roland Brandl, Stefan Pinkert



Legend:

ID = Identifier from MGRS (Military grid reference system 100 km × 100 km)

mean_RGB = Coverage weighted mean RGB of colour lightness values of co-occurring species (grid cells)

RGB_P_comp = Phylogenetically predicted component of the mean_RGB of co-occurring species (grid cells)

RGB_S_comp = Deviation of mean_RGB from phylogenetically predicted component of co-occurring species (grid cells)

Longitude = Longitude of grid cell centroids (EPSG:4326, longlat)

Latitude = Latitude of grid cell centroids (EPSG:4326, longlat)

Sp_rich = Number of species per grid with colour lightness data 

SES_CLD = Colour lightness diversity: Standardized effect sizes of mean pairwise distances of co-occurring species (grid cells) minus a null model of 1,000 alternative species sets with the same number of species randomly drawn from the species pool.
DOI: 10.6084/m9.figshare.22303480.v1
title: Frogs reveal the global importance and interplay of colour-based protective and thermoregulatory functions

description: DEFINITION OF VARIABLE NAMES IN DATA FOR: 

Frogs reveal the global importance and interplay of colour-based protective and thermoregulatory functions

Ricarda Laumeier, Martin Brändle, Mark-Oliver Rödel, Stefan Brunzel, Roland Brandl, Stefan Pinkert



Legend:

ID = Identifier from MGRS (Military grid reference system 100 km × 100 km)

mean_RGB = Coverage weighted mean RGB of colour lightness values of co-occurring species (grid cells)

RGB_P_comp = Phylogenetically predicted component of the mean_RGB of co-occurring species (grid cells)

RGB_S_comp = Deviation of mean_RGB from phylogenetically predicted component of co-occurring species (grid cells)

Longitude = Longitude of grid cell centroids (EPSG:4326, longlat)

Latitude = Latitude of grid cell centroids (EPSG:4326, longlat)

Sp_rich = Number of species per grid with colour lightness data 

SES_CLD = Colour lightness diversity: Standardized effect sizes of mean pairwise distances of co-occurring species (grid cells) minus a null model of 1,000 alternative species sets with the same number of species randomly drawn from the species pool.
DOI: 10.22008/fk2/c9id2w/uni1ig
title: T250_Kap_Morris_Jesup_83v2_400dpi.pdf

description: :unav
DOI: 10.22008/fk2/c9id2w/ctlrxx
title: T250_Kap_Morris_Jesup_83v2_400dpi.tif

description: :unav
DOI: 10.22008/fk2/c9id2w
title: 83 Ø.2 Kap Morris Jesup. Topographic map, 1:250 000

description: Topographic map of Greenland, 1:250 000, 83 Ø.2 Kap Morris Jesup. 400 dpi. Coloured maps at 1:250 000 with contour interval 100 m. A set of 53 digital maps covers North and North-East Greenland from lnglefield Land in the west to Scoresby Sund in the east. One additional sheet provides an index map and a legend. The maps show the usual range of physiographic features, viz. coasts, rivers, lakes and ice. They are coloured with a 100 m contour interval over both land and ice, and with selected spot heights in metres. They have been drawn at the Survey from air photographs using Kort & Matrikelstyrelsen (KMS) ground control points and aerotriangulation. Map projection is Universal Transverse Mercator, zone 24. The maps are a sequel to a set of geological sheets at the same scale but with four extra sheets covering lnglefield Land and Humboldt Gletscher.
DOI: 10.5281/zenodo.10417653
title: Code and data for "Machine-learning-boosted ab-initio study of the thermal conductivity of Janus PtSTe van der Waals heterostructures"

description: Code and data for Machine-learning-boosted ab-initio study of the thermal conductivity of Janus PtSTe van der Waals heterostructures

 

Contents:



neuralil.tar.xz: version used in the manuscript of the force-field code described in the articles  A Differentiable Neural-Network Force Field for Ionic Liquids and Deep ensembles vs committees for uncertainty estimation in neural-network force fields: Comparison and application to active learning. General-purpose releases can be found here.

DFT_data.tar.xz: first-principles data created for training and validating the force field, stored as ASE databases in JSON format.

model_params_plain_ensemble_DEEP_413E12A9.pkl: saved parameters of the fully trained force field.

0001-Use-equipartition-occupancies.patch: patch for Phono3py to use classical (equipartition) occupations instead of Bose-Einstein values.
DOI: 10.5281/zenodo.10417652
title: Code and data for "Machine-learning-boosted ab-initio study of the thermal conductivity of Janus PtSTe van der Waals heterostructures"

description: Code and data for Machine-learning-boosted ab-initio study of the thermal conductivity of Janus PtSTe van der Waals heterostructures

 

Contents:



neuralil.tar.xz: version used in the manuscript of the force-field code described in the articles  A Differentiable Neural-Network Force Field for Ionic Liquids and Deep ensembles vs committees for uncertainty estimation in neural-network force fields: Comparison and application to active learning. General-purpose releases can be found here.

DFT_data.tar.xz: first-principles data created for training and validating the force field, stored as ASE databases in JSON format.

model_params_plain_ensemble_DEEP_413E12A9.pkl: saved parameters of the fully trained force field.

0001-Use-equipartition-occupancies.patch: patch for Phono3py to use classical (equipartition) occupations instead of Bose-Einstein values.
DOI: 10.17031/10.17031/1768.1
title: 2006 Essex Wildlife Trust Essex Undaria pinnatifida records

description: A record of an Undaria pinnatifida sporophyte reported on the website of the Essex Wildlife Trust.
DOI: 10.6084/m9.figshare.24885021
title: Afre.gff3Auanema freiburgense Genome

description: Auanema freiburgense chromosomal-scal genome assembly. The PacBio data was assembled using Canu (version 1.6), using a minimum read length (minReadLength) of 3kb and setting the corrected error rate (correctedErrorRate) to 0.030 as this resulted in the most contiguous assembly. The estimated genome size (genomeSize) was set to 55Mb. Bacterial contamination was identified and removed through BLASTn (version 2.7.1), alignments to a contaminant database that included 3,000 bacterial genomes downloaded from the European Nucleotide Archive (ENA) on March 30, 2018. The genome was polished first using Quiver with PacBio raw reads (version 0.3.1). Then the genome was further polished using Pilon with all available Illumina short reads. The assembled genome polished with Illumina reads was used as a reference genome to genotype all 100 RIAILs built using two A. freiburgensis strains (APS14 and APS7). A genetic linkage map was constructed with the genotyped lines using R/qtl and ASMap R packages. Scaffolds were anchored into the genetic map, producing a chromosomal assembly, where scaffolds were ordered into their respective position within each linkage group
DOI: 10.6084/m9.figshare.24885021.v1
title: Afre.gff3Auanema freiburgense Genome

description: Auanema freiburgense chromosomal-scal genome assembly. The PacBio data was assembled using Canu (version 1.6), using a minimum read length (minReadLength) of 3kb and setting the corrected error rate (correctedErrorRate) to 0.030 as this resulted in the most contiguous assembly. The estimated genome size (genomeSize) was set to 55Mb. Bacterial contamination was identified and removed through BLASTn (version 2.7.1), alignments to a contaminant database that included 3,000 bacterial genomes downloaded from the European Nucleotide Archive (ENA) on March 30, 2018. The genome was polished first using Quiver with PacBio raw reads (version 0.3.1). Then the genome was further polished using Pilon with all available Illumina short reads. The assembled genome polished with Illumina reads was used as a reference genome to genotype all 100 RIAILs built using two A. freiburgensis strains (APS14 and APS7). A genetic linkage map was constructed with the genotyped lines using R/qtl and ASMap R packages. Scaffolds were anchored into the genetic map, producing a chromosomal assembly, where scaffolds were ordered into their respective position within each linkage group
DOI: 10.6084/m9.figshare.24885024
title: Afr_proteins.fastaAuanema freiburgense Genome

description: Auanema freiburgense chromosomal-scal genome assembly. The PacBio data was assembled using Canu (version 1.6), using a minimum read length (minReadLength) of 3kb and setting the corrected error rate (correctedErrorRate) to 0.030 as this resulted in the most contiguous assembly. The estimated genome size (genomeSize) was set to 55Mb. Bacterial contamination was identified and removed through BLASTn (version 2.7.1), alignments to a contaminant database that included 3,000 bacterial genomes downloaded from the European Nucleotide Archive (ENA) on March 30, 2018. The genome was polished first using Quiver with PacBio raw reads (version 0.3.1). Then the genome was further polished using Pilon with all available Illumina short reads. The assembled genome polished with Illumina reads was used as a reference genome to genotype all 100 RIAILs built using two A. freiburgensis strains (APS14 and APS7). A genetic linkage map was constructed with the genotyped lines using R/qtl and ASMap R packages. Scaffolds were anchored into the genetic map, producing a chromosomal assembly, where scaffolds were ordered into their respective position within each linkage group
DOI: 10.6084/m9.figshare.24885024.v1
title: Afr_proteins.fastaAuanema freiburgense Genome

description: Auanema freiburgense chromosomal-scal genome assembly. The PacBio data was assembled using Canu (version 1.6), using a minimum read length (minReadLength) of 3kb and setting the corrected error rate (correctedErrorRate) to 0.030 as this resulted in the most contiguous assembly. The estimated genome size (genomeSize) was set to 55Mb. Bacterial contamination was identified and removed through BLASTn (version 2.7.1), alignments to a contaminant database that included 3,000 bacterial genomes downloaded from the European Nucleotide Archive (ENA) on March 30, 2018. The genome was polished first using Quiver with PacBio raw reads (version 0.3.1). Then the genome was further polished using Pilon with all available Illumina short reads. The assembled genome polished with Illumina reads was used as a reference genome to genotype all 100 RIAILs built using two A. freiburgensis strains (APS14 and APS7). A genetic linkage map was constructed with the genotyped lines using R/qtl and ASMap R packages. Scaffolds were anchored into the genetic map, producing a chromosomal assembly, where scaffolds were ordered into their respective position within each linkage group
DOI: 10.6084/m9.figshare.24885027
title: Afre-v5_Repeats.gffAuanema freiburgense Genome

description: Auanema freiburgense chromosomal-scal genome assembly. The PacBio data was assembled using Canu (version 1.6), using a minimum read length (minReadLength) of 3kb and setting the corrected error rate (correctedErrorRate) to 0.030 as this resulted in the most contiguous assembly. The estimated genome size (genomeSize) was set to 55Mb. Bacterial contamination was identified and removed through BLASTn (version 2.7.1), alignments to a contaminant database that included 3,000 bacterial genomes downloaded from the European Nucleotide Archive (ENA) on March 30, 2018. The genome was polished first using Quiver with PacBio raw reads (version 0.3.1). Then the genome was further polished using Pilon with all available Illumina short reads. The assembled genome polished with Illumina reads was used as a reference genome to genotype all 100 RIAILs built using two A. freiburgensis strains (APS14 and APS7). A genetic linkage map was constructed with the genotyped lines using R/qtl and ASMap R packages. Scaffolds were anchored into the genetic map, producing a chromosomal assembly, where scaffolds were ordered into their respective position within each linkage group
DOI: 10.6084/m9.figshare.24885030.v1
title: Afre-v5_genome.fastaAuanema freiburgense Genome

description: Auanema freiburgense chromosomal-scal genome assembly. The PacBio data was assembled using Canu (version 1.6), using a minimum read length (minReadLength) of 3kb and setting the corrected error rate (correctedErrorRate) to 0.030 as this resulted in the most contiguous assembly. The estimated genome size (genomeSize) was set to 55Mb. Bacterial contamination was identified and removed through BLASTn (version 2.7.1), alignments to a contaminant database that included 3,000 bacterial genomes downloaded from the European Nucleotide Archive (ENA) on March 30, 2018. The genome was polished first using Quiver with PacBio raw reads (version 0.3.1). Then the genome was further polished using Pilon with all available Illumina short reads. The assembled genome polished with Illumina reads was used as a reference genome to genotype all 100 RIAILs built using two A. freiburgensis strains (APS14 and APS7). A genetic linkage map was constructed with the genotyped lines using R/qtl and ASMap R packages. Scaffolds were anchored into the genetic map, producing a chromosomal assembly, where scaffolds were ordered into their respective position within each linkage group
DOI: 10.6084/m9.figshare.24885027.v1
title: Afre-v5_Repeats.gffAuanema freiburgense Genome

description: Auanema freiburgense chromosomal-scal genome assembly. The PacBio data was assembled using Canu (version 1.6), using a minimum read length (minReadLength) of 3kb and setting the corrected error rate (correctedErrorRate) to 0.030 as this resulted in the most contiguous assembly. The estimated genome size (genomeSize) was set to 55Mb. Bacterial contamination was identified and removed through BLASTn (version 2.7.1), alignments to a contaminant database that included 3,000 bacterial genomes downloaded from the European Nucleotide Archive (ENA) on March 30, 2018. The genome was polished first using Quiver with PacBio raw reads (version 0.3.1). Then the genome was further polished using Pilon with all available Illumina short reads. The assembled genome polished with Illumina reads was used as a reference genome to genotype all 100 RIAILs built using two A. freiburgensis strains (APS14 and APS7). A genetic linkage map was constructed with the genotyped lines using R/qtl and ASMap R packages. Scaffolds were anchored into the genetic map, producing a chromosomal assembly, where scaffolds were ordered into their respective position within each linkage group
DOI: 10.6084/m9.figshare.24885030
title: Afre-v5_genome.fastaAuanema freiburgense Genome

description: Auanema freiburgense chromosomal-scal genome assembly. The PacBio data was assembled using Canu (version 1.6), using a minimum read length (minReadLength) of 3kb and setting the corrected error rate (correctedErrorRate) to 0.030 as this resulted in the most contiguous assembly. The estimated genome size (genomeSize) was set to 55Mb. Bacterial contamination was identified and removed through BLASTn (version 2.7.1), alignments to a contaminant database that included 3,000 bacterial genomes downloaded from the European Nucleotide Archive (ENA) on March 30, 2018. The genome was polished first using Quiver with PacBio raw reads (version 0.3.1). Then the genome was further polished using Pilon with all available Illumina short reads. The assembled genome polished with Illumina reads was used as a reference genome to genotype all 100 RIAILs built using two A. freiburgensis strains (APS14 and APS7). A genetic linkage map was constructed with the genotyped lines using R/qtl and ASMap R packages. Scaffolds were anchored into the genetic map, producing a chromosomal assembly, where scaffolds were ordered into their respective position within each linkage group
DOI: 10.6084/m9.figshare.24885039
title: Afr_proteins.fastaAuanema freiburgense Genome

description: Auanema freiburgense chromosomal-scal genome assembly. The PacBio data was assembled using Canu (version 1.6), using a minimum read length (minReadLength) of 3kb and setting the corrected error rate (correctedErrorRate) to 0.030 as this resulted in the most contiguous assembly. The estimated genome size (genomeSize) was set to 55Mb. Bacterial contamination was identified and removed through BLASTn (version 2.7.1), alignments to a contaminant database that included 3,000 bacterial genomes downloaded from the European Nucleotide Archive (ENA) on March 30, 2018. The genome was polished first using Quiver with PacBio raw reads (version 0.3.1). Then the genome was further polished using Pilon with all available Illumina short reads. The assembled genome polished with Illumina reads was used as a reference genome to genotype all 100 RIAILs built using two A. freiburgensis strains (APS14 and APS7). A genetic linkage map was constructed with the genotyped lines using R/qtl and ASMap R packages. Scaffolds were anchored into the genetic map, producing a chromosomal assembly, where scaffolds were ordered into their respective position within each linkage group
DOI: 10.25505/fiz.icsd.cc2fl0wy
title: CSD 2251650: Experimental Crystal Structure Determination

description: Related Article: Louis-Béni Mvélé, Shunsuke Sasaki, Camille Latouche, Philippe Deniard, Etienne Janod, Isabelle Braems, Stéphane Jobic, Laurent Cario|2023|Inorg.Chem.|62|7264|doi:10.1021/acs.inorgchem.3c00147
description: An entry from the Inorganic Crystal Structure Database, the world’s repository for inorganic crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the joint CCDC and FIZ Karlsruhe Access Structures service and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.25505/fiz.icsd.cc2fl0xz
title: CSD 2251651: Experimental Crystal Structure Determination

description: Related Article: Louis-Béni Mvélé, Shunsuke Sasaki, Camille Latouche, Philippe Deniard, Etienne Janod, Isabelle Braems, Stéphane Jobic, Laurent Cario|2023|Inorg.Chem.|62|7264|doi:10.1021/acs.inorgchem.3c00147
description: An entry from the Inorganic Crystal Structure Database, the world’s repository for inorganic crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the joint CCDC and FIZ Karlsruhe Access Structures service and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.