cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.kyk6ad
title: Occurrence Download

description: A dataset containing 103 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Voluta ebraea Linnaeus, 1758",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 {
 "not" : {
 "BasisOfRecord" : [
 "is Fossil"
 ]
 }
 },
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is MANAGED"
 ]
 }
 },
 {
 "not" : {
 "EstablishmentMeans" : [
 "is not null"
 ]
 }
 }
 ]
 },
 {
 "or" : [
 "OccurrenceStatus is Present",
 {
 "not" : {
 "OccurrenceStatus" : [
 "is not null"
 ]
 }
 }
 ]
 }
 ]
}

 The dataset includes 103 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0083196-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cd3css
title: Occurrence Download

description: A dataset containing 1415 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Corythornis madagascariensis (Linnaeus, 1766)"
 ]
}

 The dataset includes 1415 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0028405-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h6ebqz
title: Occurrence Download

description: A dataset containing 24279 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cecropia peltata L."
 ]
}

 The dataset includes 24279 records from 345 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038764-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.k2pv8x
title: Occurrence Download

description: A dataset containing 58 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Gorteria angustifolia (O.Hoffm.) Stångb. & Anderb."
 ]
}

 The dataset includes 58 records from 15 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0018116-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.lciefn
title: Occurrence Download

description: A dataset containing 12810 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Odocoileus virginianus (Zimmermann, 1780)"
 ]
}

 The dataset includes 12810 records from 122 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016992-151016162008034/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7fa9sm
title: Occurrence Download

description: A dataset containing 578446 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Gavia arctica (Linnaeus, 1758)"
 ]
}

 The dataset includes 578446 records from 462 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0083305-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pkz6y9
title: Occurrence Download

description: A dataset containing 22 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ratufa macroura (Pennant, 1769)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 22 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016993-151016162008034/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9ycaze
title: Occurrence Download

description: A dataset containing 279631 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Myiarchus tyrannulus (Statius Muller, 1776)"
 ]
}

 The dataset includes 279631 records from 263 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038894-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8d74h4
title: Occurrence Download

description: A dataset containing 178332 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pinus nigra J.F.Arnold)",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Geometry POLYGON ((-15 75, -15 25, 60 25, 60 75, -15 75))"
 ]
}

 The dataset includes 178332 records from 731 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0023051-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.57745/zw6ktp
title: XANES spectra of manganese references

description: This dataset contains the XANES spectra of Mn(IV), Mn(III), and Mn(II) references, which can be used for example to calculate the average oxidation state of manganese in mixed-valent compounds. It contains also the spectra of three mixed-valent manganates and their Combo-fit to showcase its possible use.
DOI: 10.57745/zto7rb
title: Fiches de résultats des modèles hydrologiques de surface du projet Explore2 : N Fleuves côtiers au sud de la Loire

description: Ensemble de fiche descriptives des résultats du projet Explore2 aux points de simulation pour la région hydrologique N Fleuves côtiers au sud de la Loire Notice de lecture des fiches de résultats des modèles hydrologiques de surface Le projet Explore2 a produit une quantité inédite de données hydrologiques. Ainsi, des ensembles de projections hydrologiques ont été élaborés sur près de 4000 points de simulation répartis en France hexagonale. Dans un esprit de faciliter la diffusion des résultats et suite à des recommandations faites post-Explore2070, des fiches de synthèse viennent décrire les évolutions de statistiques de débit (descripteurs du régime hydrologique). Ces fiches sont toutes construites sur un schéma identique et privilégient des représentations graphiques. Elles se focalisent sur les résultats concernant les débits obtenus avec le scénario d’émission le plus émetteur (RCP8.5) et aux points disposant de projections issus d’au moins quatre modèles hydrologiques de surface. L’objectif visé des fiches est de donner à voir l’évolution de quelques variables clefs descriptives du régime hydrologique. Les valeurs numériques ne doivent pas être lues sur ces fiches, mais dans les fichiers de données brutes ou d’indicateurs pré-calculés mis à disposition, comme les fiches de synthèse, sur le portail « DRIAS les futurs de l’eau ». Ce document a pour objectif d’expliciter le contenu de ces fiches de synthèse des résultats.
DOI: 10.57745/xlsjuc
title: A la poursuite du Soleil, de Jules Janssen à nos jours

description: Le Soleil est observé à la lunette depuis quatre siècles. Cependant, son étude a fait un bond prodigieux à la fin du XIXème siècle avec l’apparition de la photographie et de la spectroscopie, puis au début du siècle suivant avec l’invention du coronographe et des filtres monochromatiques, et enfin dans la seconde moitié du XXème avec l’avènement de l’exploration spatiale (satellites, sondes). Celle-ci permet en effet d’observer les rayonnements cachés par l’atmosphère terrestre (Ultra Violet, X, γ) et d’effectuer des mesures « in situ » dans l’environnement solaire. Cet ensemble multimedia retrace les grandes étapes de cette fantastique épopée où entrent en scène des savants renommés comme Janssen, Deslandres, d’Azambuja, Lyot ou Dollfus, conférant à l’observatoire de Paris-Meudon un rôle de pionnier dans l’histoire de la physique solaire jusqu’en 1960. Après cet âge d’or, l’exploration spatiale a nécessité de gros moyens mutualisés entre nations, ne pouvant plus être mis en oeuvre au sein d’équipes ou même d’instituts individuels. Le développement de la simulation numérique, nouvel outil de recherche, a également exigé la mise en commun de supercalculateurs.
DOI: 10.57745/y35dyn
title: Full acquisition of 100k 50k terahertz time domain spectroscopy reference time traces

description: These are HDF5 data including the raw data for the time traces reccorded from a terasmart systm from menlo system gmbh. It serves as input data set for the paper entitled Signal estimation and uncertainties extraction in terahertz time-domain spectroscopy that aims at proposing a standardized methodology to estimate the signal and the uncertainties in THZ time domain experiments
DOI: 10.57745/yae8pl
title: Cerisier (cherry tree, Prunus avium)

description: fichier d'impression 3D de bois de cerisier File for 3D printer : Cherry tree Wood
DOI: 10.57745/xorqhk
title: The first reliable catalog of bovine circular RNAs

description: A first analysis was performed with CircDetector, and included the analysis of the expression of exonic circRNAs. We proposed an additional list of exonic circRNAs, only validated by CE2 or/and by CIRI2 or/and by CE2+CIRI2 validated in 2021. Our study provided evidence of 189 false entries in the list of exonic circRNAs validated by CD and 23 false entries in the list of additional exonic circRNAs. 337 circRNAs from 273 introns were listed. We added the entire list of exonic circRNAs validated by CE2+CIRI2 in 2021
DOI: 10.57745/xxaxfa
title: DNBS colitis microbiota analysis C. minuta

description: 16s RNA sequencing data
DOI: 10.57745/y2oxpz
title: PhD thesis dataset - Deciphering tidal signature in a fluvial-dominated delta using Digital Outcrop Models (Roda Sandstone, Eocene, South Pyrenean Basin)

description: The dataset was created as part of a doctoral research project aimed at characterizing and 3D modeling the sedimentary heterogeneities of the Albian clayey-sandy reservoir in the Paris Basin, using an outcrop study of a deltaic reservoir analogue (the Roda Sandstone, southern Pyrenean Basin). This work was supported by the program UPGEO “UPscaling and heat simulations for improving the efficiency of deep GEOthermal energy” funded by the Agence Nationale de la Recherche (ANR-19-CE05-0032-01). This dataset includes the data used and described in the second chapter of the thesis manuscript entitled “Deciphering tidal signature in a fluvial-dominated delta using Digital Outcrop Models (Roda Sandstone, Eocene, South Pyrenean Basin)”. This chapter focuses on the sedimentological study of a portion of the Roda Sandstone Formation, referred to as “Y sandbody” in the literature, based on drilling and archive data, field sedimentological surveys, and the interpretation of a high-resolution, georeferenced photogrammetric model. The model covers an area of around 3.3 km² with a resolution of between 0.003 and 0.03 m. This dataset contains: 20 sedimentological sections from both outcrops and descriptions of 7 cored boreholes A Digital Outcrop Model consisting of 7 georeferenced photogrammetric models, available in different formats (Scene Layer Package (.slpk), point cloud (.las), 3D object with texture (.obj, .mtl, .jpg)) Observation and interpretation data from the Digital Outcrop Model: digitized and localized logs and boreholes, identification of major surfaces (Maximum Flooding Surfaces and Maximum Regressive Surfaces), dip measurements, 3D facies mapping A README file providing detailed information for each file of the dataset The Digital Outcrop Model can be viewed in various 3D visualization, specialized interpretation, or geomodeling software (ArcGIS, Surfer, VRGS, Petrel, Windows 3D Viewer, Apple 3D Model Viewer, etc.). The interpreted data can be imported into GIS or geomodeling software for visualization or processing. The high-resolution interpreted Digital Outcrop Model can also be used for further studies or educational purposes.
DOI: 10.57745/z80sim
title: Genomic DNA sequencing from a bulk segregant experiment to map the genetic determinants of natural bracts variation in Arabidopsis thaliana

description: Paired-end Illumina sequences of genomic DNA used to map the genetic variant responsible for bract development in the wild-type accession Tsu-0 of the model plant Arabidopsis thaliana. Bract presence was quantified by a bract score. Crosses in both directions were done between the wild accession Tsu-0 (obtained from Versailles Arabidopsis Stock center -VASC- , stock 91AV) showing a high bract score and the reference accession Col-0 (VASC stock 186AV) displaying a low bract score. Two bulks of F2 plants were selected, with a high (Tsu-0 like) and low (Col-0 like) bract score, respectively. Genomic DNA of each plants of the bulks was extracted and mixed in equal quantities. The four samples therefore correspond to genomic DNA of the two parents (Tsu-0 and Col-0) and of the two bulks (low and high bract score). DNA concentrations: Col-0 = 25,6ng/µl (a few plants) ; Tsu-0 (a few plants) = 15,5ng/µl, high bract score F2 bulk (17 plants): 13,2ng/µl ; low bract score F2 bulk (56 plants): 14,6ng/µl Genomic DNA was extracted using a CTAB protocol and sequenced with Illumina-like technology by BGI (BGISEQ) with 100 base pair paired end reads, yielding 5G data for each sample (~ 40X).
DOI: 10.57745/zr0p6q
title: Optical micrographs of cast iron with graphites labels according to ISO 945

description: This dataset comprise 19 micrographs acquired on different cast iron samples showing varying amounts of the different classes of graphite particles. They were all acquired at x100 magnification and all but one were digitalized with a resolution of 1280 x 1024 pixels, giving a pixel size of 0.8 µm. The last micrograph was acquired with a pixel size half that of the others. They have been automatically labelled by Image Analysis followed by manual corrections. The amount of corrections was around 37%. The labels are given by one color per graphite class (ISO 945): Orange for class I, Red for class III, Blue for class V and Green for class VI.
DOI: 10.57745/zcfbut
title: Data on the influence of LED light spectrum on plant growth, NUE, and seed yield in controlled conditions

description: Description: This dataset presents an in-depth analysis of the effects of six distinct LED light spectra, alongside a neon light control, on the growth performance, nitrogen use efficiency (NUE), and seed yield of four Arabidopsis thaliana genotypes. The experiment was conducted in controlled-environment growth chambers under long-day conditions, with three biological replicates per genotype and treatment. The study aims to elucidate how different light spectra influence key physiological and metabolic traits related to plant growth, biomass allocation, and nitrogen and carbon metabolism. Traits Analyzed: Biomass: Rosette dry weight, stem dry weight, seed yield, and total plant dry weight. Biomass allocation: Proportions allocated to rosette, stem, and seed. Nitrogen and carbon concentrations: Rosette and seed nitrogen and carbon concentrations. Isotope measurements: 15N and 13C concentrations and partitioning across plant tissues. Nitrogen dynamics: Nitrogen remobilization efficiency (NRE), nitrogen uptake efficiency (NUpE), and nitrogen use efficiency (NUE). Partitioning and remobilization: Nitrogen and carbon partitioning in rosette, stem, and seed, alongside nitrogen remobilization and uptake quantities.
DOI: 10.15468/dl.hc5svq
title: Occurrence Download

description: A dataset containing 1660892 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Country is one of (Canada, Mexico, United States of America)",
 "EventDate is greater than or equal to 2025-04-15",
 "EventDate is less than or equal to 2025-05-15",
 {
 "not" : {
 "Issue" : [
 "is one of (Basis of record invalid, Coordinate reprojection failed, Coordinate reprojection suspicious, Coordinate precision invalid, Coordinate uncertainty meters invalid, Country mismatch, Country invalid, Geodetic datum invalid, Presumed swapped coordinate, Presumed negated longitude, Presumed negated latitude, Country coordinate mismatch)"
 ]
 }
 }
 ]
}

 The dataset includes 1660892 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0035103-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.57745/zzgicl
title: Flow intermittence indicators from the projection simulations (1985-2100) in the Bükkösdi DRN (Hungary)

description: Statistical monthly and yearly flow intermittence indicators calculated from the simulated daily state of flow in the Bükkösdi DRN (Hungary). Indicators are provided for 3 SSP scenarios and 5 climate models on the projection periods (1985-2014 and 2015-2100).
DOI: 10.57745/zzwkgq
title: RMQS1 16S operational taxonomic units

description: RMQS: The French Soil Quality Monitoring Network (RMQS) is a national program for the assessment and long-term monitoring of the quality of French soils. This network is based on the monitoring of 2,240 sites representative of French soils and their land use. These sites are spread over the whole French territory (metropolitan and overseas) along a systematic square grid of 16 km x 16 km cells. The network covers a broad spectrum of climatic, soil and land-use conditions (croplands, permanent grasslands, woodlands, orchards and vineyards, natural or scarcely anthropogenic land and urban parkland). The first sampling campaign in metropolitan France took place from 2000 to 2009. Dataset: This dataset contains 16S (Archaea and Bacteria) operational taxonomic units (OTU) abundance table of 1,842 sites of the RMQS, as well as their core sequences. Soil 16S rDNA gene was sequenced using pyrosequecing (GS FLX Titanium - Roche 454) at Genosocope. Bioinformatics analysis was performed using BIOCOM-PIPE (previously named GNS-PIPE) metabarcoding pipeline. OTUs were clustered at 95% using a post-clustering strategy Terrat et.al. (2019) across the whole dataset, producing 188,030 robust OTUs. See associated articles for details (keep in mind that first results were obtained without post-clustering, richness is therefore higher after post-clustering for each sample). Raw sequencing data are available at EBI under project PRJEB21351. File structure: rmqs1_16S_otu_abundance.tsv: OTU abundance per site (each OTUs name “DB” + number, arranged by their global abundance). Each line sums to 10,000 (rarefaction chosen threshold). otu_reference_sequence.fasta.gz: OTU core sequence. rmqs1_16S_otu_taxonomy.tsv: Tabulated file giving the complete taxonomy for each OTU. SEQUENCE: Name of the considered OTU KINGDOM: Taxonomy at the kingdom level PHYLUM: Taxonomy at the phylum level CLASS: Taxonomy at the class level ORDER: Taxonomy at the order level FAMILY: Taxonomy at the family level GENUS: Taxonomy at the genus level Details: Some sites sample could not be collected, they do not appear in dataset. Some sites did not pass laboratory or bioinformatics step to attain 10,000 sequences before post-clustering, they dot not appear in the dataset. One can link this dataset with 10.15454/QSXKGA to get each sample physico-chemical property, landuse, coordinates, or filtering sites using its site_officiel column. Sites with ID longer than 4 number are supplementary sites that are not in the center of the cells (e.g. 10797 and 20797 that came from cell 797). The taxonomy was defined based on the SILVA R132 database using only the core sequence of each OTU. This can be different to the approach of BIOCOM-PIPE, affiliating all sequences, and not only OTU core sequences.
DOI: 10.57745/zcjiuh
title: BLUPF90 Scripts for Genetic Analysis of Goose Steatosis Traits

description: This repository contains example scripts for estimating genetic parameters using the BLUPF90 software suite. The scripts handle up to four traits simultaneously (from the 15 available in the dataset data.txt found at https://doi.org/10.57745/4MI9JN ). script1.sh runs renumf90 using the parameter file renum_ex1.par. This file processes the traits LW, AFW, CW, and BMW. The model includes the effects of animal, sex, and slaughter date. Optional instructions allow blupf90+ to compute variance ratios and their standard errors. script2.sh follows a similar structure but analyzes the traits LW, BW14r, and BW26. In this case, the fixed effects used in the model are different. script3.sh runs a bivariate analysis, using a categorical data (LCAT) to describe the liver. Hence, it calls gibbsf90+ instead of blupf90+. Pay attention to the missing value code, which must be 0. gibbs_samples.R is a R program to read the output from gibbsf90+. One must provide the number of estimated components (here NCOMP = 6) and the program computes the variance ratios and their posterior distributions.
DOI: 10.57745/zkk1cc
title: Dynamic Testing and Motion Visualization of fibres during capillary rise using X-ray microCT

description: This dataset contains time-resolved X-ray micro-CT volumes processed by threshold-based segmentation and ROI extraction, to enable object tracking within large 3D volumes under size constraints. The experiment consists in a yarn of 6 strings, made with hemp fibres. It is fixed in a tube of the tomography holder which allows to add fluid at the base. The tomography was repeated 20 times at the same height and every minutes on the sample after immersing its bottom in water. The goal of this public dataset is to provide code and data that explain how to track the trajectories of fibres. The first step demonstrates how to extract sub-volumes from reconstructed tomographic files, using thresholding and region-of-interest extraction, to obtain the fibre shape using Python code. Once binarized, Paraview scripts are used to gather fibres data at all time steps and identify some ‘recognizable’ fibre in the domain. Connectivity filter allows to build object from ‘adjacent’ cells. The largest objects are kept as ‘recognizable’ fibres, whose movements are represented in figures. The entire process is provided, from raw data extraction to figure generation, in a step-by-step procedure. These time-resolved micro-CT volumes and analysis scripts were designed to monitor the motion of fibres during capillary rise, enabling reproducible 3D tracking of internal structures.
DOI: 10.57745/znfo7t
title: Wood Basic Density for 156 tree forest species-V2

description: This data set provides the basic wood density values for 156 tree species obtained from 110605 increment cores (one core per tree) sampled during four consecutive years (2016-2019) by the French NFI within the XyloDensMap project (Leban et al., 2016, 2020). Two different types of increment cores were sampled. • The AGE cores (from the bark to the pith) were sampled for the measurement of the annual increments of the last five rings and of the age of the dominant trees of each NFI plot. • The EXTERNAL cores (average length of 6 cm) were sampled for the measurement of the annual increments of the last five rings. At INRAE, we measured a wood density profile all along each core, one measurement each 0.625 mm (Jacquin et al., 2019). We then calculated for each tree the arithmetic mean of the BASIC DENSITY (BD). For each species, all the cores (AGE INCREMENT) were grouped together for computing the arithmetic mean of basic density and the standard deviation. For each species, we provide in this file, BD, the wood basic density (kg/m3); SD-BD, the standard deviation (kg/m3), the number of cores per species as well as the volumetric shrinkage. This data set is used in the publications describing the wood properties of the 21 most important tree forest species in France (e.g., Leban et al., 2022 for sessile oak) and can be used for forest carbon accounting. English (2022-04-11)