cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.57745/ckvgin
title: Cell specialization and coordination in Arabidopsis leaves upon pathogenic attack revealed by scRNAseq

description: Plant defense responses involve several biological processes that allow plants to fight against pathogenic attacks. How these different processes are orchestrated within organs and depend on specific cell types is poorly known. Here, using scRNAseq technology, we identified 18 distinct cell populations in wild-type Arabidopsis leaves inoculated with the hemibiotrophic pathogen Pseudomonas syringae DC3000. Among those, we retrieved major cell types of the leaves (mesophyl, guard, epidermial, companion and vascular S cells) to which we could associate characteristic transcriptional reprogramming, thereby specifying different cell-type responses to the pathogen. Further analyses of transcriptional dynamics, based on inference of cell trajectories, indicated that the different cell types, in addition to their characteristic defense responses, can also share similar modules of gene reprogramming, allowing for instance vascular S cells, epidermal cells and mesophyl cells to converge towards an identical cell fate, mostly characterized by lignification and detoxification functions. Moreover, it appeared that defense responses of these three cell types can evolve along a second separate path. As this divergence does not correspond to the differentiation between immune and susceptible cells, we speculate that this might reflect the discrimination between cell-autonomous and non-cell-autonomous responses. Altogether our data provide an upgraded framework to describe, explore and explain the specialization and the coordination of plant cell responses upon pathogenic challenge. this dataset contains the output of the CellRanger count command for the three samples of the project. They are the input for the analytical script provided at https://github.com/Bastien-mva/pipeline_seurat_monocle
DOI: 10.57745/dadh7q
title: Données de réplication pour : In Situ TEM Crystallization of Amorphous SmNiO3 Nanoparticles into the Perovskite Phase

description: These are the data that lead to the interpretation presented in the paper: In Situ TEM Crystallization of Amorphous SmNiO3 Nanoparticles into the Perovskite Phase.
DOI: 10.57745/ddlhwu
title: Raw data from external antibody databases and scripts to homogenize and standardize them used to build AntiBody Sequence Database (for reproducibility)

description: Reproducibility data for the AntiBody Sequence Database (ABSD) article. This dataset contains the raw data (antibody sequences) extracted on June 20, 2024, from various databases, as well as the several scripts, to ensure the reproducibility of our results. External databases used: ABDB, AbPDB, CoV-AbDab, Genbank, IMGT, PDB, SACS, SAbDab, TheraSAbDab, UniProt, KABAT Scripts usage: each external database has a corresponding script to format all antibody sequences extracted from it. A last script enable merging all extracted antibody sequences while removing redundancy, standardizing and cleaning data.
DOI: 10.57745/db5wra
title: MassiveFold data for target T1259 - T298

description: MassiveFold data generated for CASP16, in collaboration with CAPRI . 8040 predictions were generated for the target = 1005 x 8 sets of parameters. - a description of the setup can be found in `MassiveFold_CASP16_Abstract.pdf` - `README.txt` describes the contents of the main `MassiveFold.tar.gz` file - the main `MassiveFold.tar.gz file contains all the predictions, divided into 8 folders named after the conditions. It contains predictions as well as pickle files, sequence alignments, rankings and plots. The README.txt file describes the contents of this tar.gz. - the `only_pdbs_MassiveFold.tar.gz` is the result of the `gather_runs.py` script, without the pickle files. It contains a list of all the pdb files and ranking files with scores. - `gather_runs.py` allows to gather the runs, to use preferentially to the one included in the main `MassiveFold.tar.gz` at the time of the prediction phase, because it has been updated - `combined_scores.csv` file contains the CASP assessment for the target (from https://predictioncenter.org/) - `CAPRI_assessment.csv` file contains the CAPRI assessment for the target (from https://www.capri-docking.org/assessment/) - `CAPRI_scoring.pdb.gz` is a multi-pdbs containing all the MassiveFold predictions for the target. It was used for the CAPRI scoring phase.
DOI: 10.57745/dmfuxw
title: Ensemble des fiches de résultats des modèles hydrologiques de surface du projet Explore2

description: Ensemble des jeux de donnée par région hydrologique des fiches descriptives des résultats du projet Explore2 aux points de simulation. 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/cyjiia
title: Fiches incertitudes des modèles hydrologiques de surface du projet Explore2 : L Loire

description: Ensemble de fiche descriptives des incertitudes du projet Explore2 aux points de simulation pour la région hydrologique L Loire Accompagnement de lecture des fiches Incertitudes 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. Les fiches incertitudes visent à décrire les incertitudes de ces ensembles pour chacun des 3991 points de simulations hydrologiques (surface) obtenus avec la méthode de correction ADAMONT, pour trois indicateurs: QA, QJXA, et QMNA. 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 incertitudes.
DOI: 10.57745/andsgp
title: Data from "Different culture media and purification methods unveil the core proteome of Propionibacterium freudenreichii-derived extracellular vesicles"

description: Proteomics data obtained via tandem mass spectrometry on a Qexactive mass spectrometer coupled to NanoLiquid Chromatography
DOI: 10.57745/aznjfe
title: METABARFOOD - Description of the sequences used in mock communities

description: This report gives informations about reference sequences used for the analysis of mock communities.
DOI: 10.57745/dpxhp7
title: Dynamics of a mixed beech (Fagus silvatica L.) and hornbeam (Carpinus betulus L.) natural regeneration in North-East France: evolution of stand density and species composition with an insight into tree mortality factors.

description: The datasets consist of growth and mortality observations recorded in a mixed beech-hornbeam naturally regenerated stand in Hesse forest (NE of France). The study was conducted in the 64 plots (squares of 5.25 m size) comprising the experimental site over a twelve years period since 2001 until 2012. We took advantage of an instrumented experiment belonging to the European flux-monitoring network (CarboEurope IP) and set up in 2001 in Hesse forest to install these experimental plots with annual tree monitoring. Moreover, we controlled environmental factors, such as climate and soil characteristics that may be involved in individual tree mortality and in the course of stand size-density trajectories. Measurements included tree species and status (dead or alive), girth at breast height for all trees and total height for a sample of living trees (beech, hornbeam and oak). The size-density trajectories of the 64 plots describing the course of the number of living trees in relation with the mean stand girth, in logarithmic scales, were modeled with a piecewise polynomial function fitted with a mixed-effects model. On the other hand, an individual tree mortality model was fitted with a logit function including several independent variables defined at tree, plot and stand levels. Four data tables with corresponding headings tables are provided: 1- one for stand data at plot level, 2- one at tree level for mortality data, 3- another one for height measurements made on a tree sample of beech, hornbeam and oak trees and 4- a last one making the correspondence between sample tree numbers and tree inventory numbers. There are some missing data due essentially to the installation of ecophysiological instrumentation in the experimental design (see the manuscript for more details). These datasets are the support for a preprint paper : N.Le Goff, J.-M. Ottorini, F.Ningre. (bioRxiv, 2025). Dynamics of a mixed beech (Fagus silvatica L.) and hornbeam (Carpinus betulus L.) natural regeneration in North-East France: evolution of stand density and species composition with an insight into tree mortality factors.
DOI: 10.57745/blkgi0
title: In vivo intra-abdominal pressure of healthy participants

description: This dataset presents in vivo intra-abdominal pressure (IAP) data obtained from 20 healthy participants performing three different exercises : breathing, coughing and the Valsalva maneuver. Please look at the README file for more informations.
DOI: 10.57745/dhyzhs
title: French hospital dataset 2013-2021

description: This Dataset provides agregated data on 1111 hospitals in France over the years 2013-2021. It uses the SNDS/PMSI-MCO, SAE and ENC as data sources. It can be used to replicate: "Does Virtual Integration Improve Care Coordination? Assessing the Impact of the 2016 Public Hospitals Reform in France"
DOI: 10.57745/dodrox
title: Fermented vegetables metavirome - viral metagenomic dataset

description: This dataset contains viral metagenomics data produced from twelve fermented vegetables: four cabbages (sauerkraut), four carrots and four turnips (sauerruben). Viral fractions were extracted from the samples, nucleic acids were extracted, DNA and RNA were amplified separately and shotgun sequenced using Illumina NovaSeq plateform. The bioinformatic workflow used for data processing encompasses quality filtering, reads assembly, clustering of contigs into species-level vOTUs, selection of viral contigs and their annotation, mapping to obtain an abundance table. These data were further characterized during the Agence Nationale de la Recherche (ANR) Metasimfood project (https://www.metasimfood.inrae.fr/) to describe the viral composition of fermented vegetables, and are subsequently made publicly available for academic research purpose on fermented foods.
DOI: 10.57745/azjs5n
title: Scanning electron microscopy data of plastic fragments sampled during the composting experiment

description: The surface properties, fragmentation and the microbial attachment to the surface were be observed in the scanning electron microscopy (SEM). SEM observations were performed using a Desktop SEM (Phenom ProX, Fondis Bioritech, France) with an acceleration voltage ranging between 5 and 10 kV secondary electrons. Samples were directly mounted on stub using carbon conductive tape and then coated with Gold/Palladium during 45 s at 20 mA (4 nm thick) by ion sputtering (Mini Sputter Coater SC7620, Quorum Technologies Ltd, UK).
DOI: 10.57745/b3wueg
title: Dataset study Ma et al. Olfactometer CSGA

description: Raw data of the study by Ma et al. on Olfactometer at CSGA. 2 files : - raw data - sample coding
DOI: 10.57745/brfjo1
title: ECL5-CATANA-DATASET-1-2025

description: The dataset contains experimental data from the first experiments with the UHBR fan open test case ECL5, that was investigated in the European Project CATANA. Within this project, the open-test-case fan stage ECL5 was designed with the objective of high efficiency and operability to achieve a geometry representative for near future civil aircraft propulsion designs. The dataset comprises aerodynamic and aeroelastic measurements to validate numerical simulations. Furthermore, structural modeshapes derived from FEM simulations are provided.
DOI: 10.57745/bv1aja
title: J2000 Hydrological model of the Fekete-Bukkosdi river basin (Hungary)

description: J2K_Fekete: J2000 hydrological model for the Fekete river basin (which includes the Bukkosdi sub-basin).
DOI: 10.57745/ddp1zr
title: High-resolution land use and land cover maps for the greater Mariño watershed in 2019

description: This repository contains the land use land cover maps, as well as the field database, generated in Vallet et al. " Generating high-resolution land use and land cover maps for the greater Mariño watershed in 2019 with machine learning" (https://doi.org/xxxxx). The land use land cover maps are provided in raster and vectorial format, for the 3 levels of the land use land cover nomenclature. At the finest level of classification, we distinguish between 21 different land use and land cover classes. All datasets can be visualized at https://idg-tetis.teledetection.fr/geonetwork/srv/fre/catalog.search#/metadata/1aca752e-ad4b-4b50-9281-f79df08232b13
DOI: 10.57745/e3dw9w
title: Analysis of Adaptive Assembly for the pairing of Spur Gear and Crown Wheel

description: In this dataset, 1000 Spur gears and 1000 Crown wheels with specific geometric deviations, resulting from manufacturing process inaccuracies, have been generated. The data in the dataset contains both the inputs and outputs of a proposed adaptive assembly system for gears pairing. The inputs include labeled gears and the KTE values of different combinations of the two types. The outputs include the results of selective assembly binning analysis and individual assembly analysis for the specific pairing of the two gears.
DOI: 10.57745/e9yxw6
title: Middle Eocene Radiolarian image dataset from ODP Leg 207 (Demerara Rise)

description: Labeled images of middle Eocene, ca 40 million years ago (Ma), radiolarians, including other microfossils, other particles, broken fragments etc... The radiolarians in this dataset are classified into species, genus, family, superfamily or higher order levels. This dataset was used for a PhD project and in a paper titled: Convolutional neural network application on a new middle Eocene radiolarian dataset, to train a Resnet50 convolutional neural network, with an accuracy of about 86.6 %.
DOI: 10.57745/ejg7kj
title: Hydrological reconstruction (1960-2021) of the Lepsämänjoki DRN (Finland)

description: Hydrological model outputs at daily time step for the reconstruction period (1960-2021) in the Lepsämänjoki DRN (Finland). Simulated discharge, baseflow an state of flow (flowing/dry) is spatially distributed at the reach scale. Other hydroclimatic variables (temperature, precipitation, rainfall, snowfall, potential evapotranspiration, actual evapotranspiration, vegetation interception, snow water equivalent, saturation of the soil layer, saturation of the grounwater layer) are spatially aggregated at the catchment scale.
DOI: 10.57745/btvxfv
title: Dual comb spectroscopy for 10 MHz acoustic wave sensing using a Fabry-Perot cavity

description: We provide interferogram data from a dual comb spectroscopy (DCS) experiment. In this experiment, the two frequency combs probed the reflectivity of a Fabry-Perot cavity, that was modulated using a 10 MHz acoustic signal. Using a time-frequency analysis, the 10 MHz acoustic waves were reconstructed from three different teeth of the DCS interferogram and compared with a reference signal obtained by interrogating the cavity with a single continuous source laser.
DOI: 10.57745/dec505
title: Reaching V2(PO4)3 by sodium extraction from single-phase NaxV2(PO4)3 (1 x 3) positive electrode materials

description: Dataset production context : In the present work, we report on single-phase NaxV2(PO4)3 compositions (1.5 ≤ x ≤ 2.5) of the Na super ionic conductor type, obtained from a straightforward synthesis route. Typically, chemically prepared c-Na2V2(PO4)3, obtained by annealing an equimolar mixture of Na3V2(PO4)3 and NaV2(PO4)3, exhibits a specific sodium-ion distribution (occupancy of the Na(1) site of only 0.66(4)), whereas that of the electrochemically obtained e-Na2V2(PO4)3 (from Na3V2(PO4)3) is close to 1. Unlike conventional Na3V2(PO4)3, when used as positive electrode materials in Na-ion batteries, the NaxV2(PO4)3 compositions lead to unusual single-phase Na+ extraction/insertion mechanisms with continuous voltage changes upon Na+ extraction/insertion. We demonstrate that the average equilibrium operating voltage observed upon Na+ deintercalation from single-phase Na2V2(PO4)3 is increased up to an average value of ~3.70 V versus Na+/Na (thanks to the activation of the V4+/V5+ redox couple) compared to 3.37 V versus Na+/Na in conventional Na3V2(PO4)3, thus leading to an increase in the theoretical energy density from 396.3 Wh kg–1 to 458.1 Wh kg–1. Electrochemical and chemical Na+ deintercalation from c-Na2V2(PO4)3 enables complete Na-ion extraction, increasing energy density. All these data are taken from the work of M. Sunkyu Park, Kriti Choudhary and were used to produce the article (cited below) in its initial version.
DOI: 10.57745/dkmq06
title: Time-Course RNA-Seq analysis of Arabidopsis thaliana shoot meristems during floral transition (accession Col-0)

description: Time-course RNA sequencing during floral transition of micro-dissected meristems from the main shoot of the model plant Arabidopsis thaliana. Plants are wild-type of the reference accession Col-0, (named C in the datasets), derived from stock 186AV of the Versailles Arabidopsis Stock Center. The time-course is made of four sampling time points corresponding to four developmental stages assessed from temporal and phenotypical cues observed under a binocular on the plant meristems: Vegetative (V), Late vegetative (L), Transitioning (T) and Floral (F). Five to ten micro-dissected meristems were pooled per time point and the entire time course was replicated three times independantly (see Dieudonné S. et al. for details). cDNA was sequenced using NextSeq500 from Illumina. After classical read quality filtering, each sample yielded on average 43 million sequences.
DOI: 10.57745/dr2gss
title: MRI images of potato tubers during storage

description: This dataset contains MRI images in DICOM format (consisting of a header with acquisition parameters and image data sets packed into a single file) that support the findings of the manuscript “Characterisation of potato tuber tissues using spatialized MRI T2 relaxometry” submitted to Biomolecules for publication. Images were recorded on a 1.5 T MRI scanner (Magnetom Avanto, Siemens, Erlangen, Germany) equipped with a circular polarized head array coil as described in the article. Images of the potato tubers acquired using a multi-spin echo (MSE) sequence are found in nine different folders corresponding to each sampling dates (14, 18, 21, 23, 25, 27, 29, 31 and 33 weeks after harvest (WAH)). In each condition, nine tuber were analyzed ny MRI. Only four of them,the four at the top left of the images, were considered for the study presented in the article.
DOI: 10.57745/dxnwgo
title: Modelling corners, kinks and jumps in crop acreage choices: impacts of the UE support to protein crops

description: This document is the postprint version of a paper published in the American Journal of Agricultural Economic: Koutchadé, O. P., Carpentier, A., Femenia, F. (2021). Modeling Corners, Kinks, and Jumps in Crop Acreage Choices: Impacts of the EU Support to Protein Crops. American Journal of Agricultural Economics, 103(4), 1502-1524.
DOI: 10.57745/d63vyy
title: How to assess the layers’ thicknesses in polymer-coated cardboards?

description: This dataset contains all the raw data used for the determination of the thickness of the three characteristic layers in polymer-coated cardboard : 1. MATLAB code (file called Thicknesses_calculations) 2. Template for the calculations using the analytical model (file called TEMPLATE_Thicknesses_calculations) 3. Excel file gathering the data used for the determination of thickness (file called Thicknesses_Results) 4. 12 SEM images 5. 2 microtomography images
DOI: 10.57745/c455r6
title: Replication Data and Code for: "Impact of input forcing variability on the global sensitivity analysis of a hydrological model"

description: Data and code used for producing all Figures in the paper "Impact of input forcing variability on the global sensitivity analysis of a hydrological model"
DOI: 10.57745/dwygmb
title: Segments textuels - Textual Segments - Hérelles Project

description: L’un des objectifs du projet Hérelles est de trouver de nouveaux mécanismes afin de faciliter l’étiquetage (ou sémantisation) des clusters issus des séries temporelles d’images satellite. Pour y parvenir, une solution proposée est d’associer des éléments textuels d’intérêt (adéquation avec la thématique d’étude, et le périmètre spatio-temporel des séries temporelles) aux données satellite. Ce jeu de données présente un corpus thématique préalablement récolté et annoté manuellement ainsi que les résultats d’une méthode d’extraction automatique des éléments textuels d'intérêt. Il comprend les éléments suivants : Le fichier Corpus_Expert_Links.tab présente le corpus thématique utilisé avec les liens vers les documents qui le composent. Ils ont été choisis pour leur richesse en règles et contraintes concernant l’occupation des sols. Le fichier Lisez_Moi définit le protocole d’annotation avec la définition des différents termes employés (segments, règles, …). Le fichier Read_Me est la version anglaise du fichier Lisez_Moi. Le dossier compressé Corpus_Manually_Annotated.zip contient les documents d’intérêt en version txt et annotés manuellement. Le dossier compressé Corpus_Extracted_Segments.zip contient les résultats du processus de segmentation automatique sur les documents d’intérêt avec les labels selon les 4 classes (Verifiable, Non-verifiable, Informative and Not pertinent).
DOI: 10.57745/dktv1g
title: Fiches de synthèse des inondations issues de la base de données BDHI

description: La Base de données historiques sur les inondations (BDHI) a été constituée et alimentée entre 2015 et 2023 dans le but de documenter, lorsque c'était possible, les principales inondations ayant causé des dommages significatifs sur le territoire hexagonal et ultra-marin, depuis le Moyen Âge jusqu’à la période contemporaine. Les événements recensés, sélectionnés en fonction de la gravité de leurs impacts, couvrent différents types d'inondation : débordements de cours d'eau, ruissellements, remontées de nappe, submersions marines, etc. Pour chaque événement, la base rassemble des documents contenant des données sur les phénomènes physiques, ainsi que des informations sur les impacts humains, socio-économiques, environnementaux et culturels. Elle peut inclure également des descriptions de la gestion de la crise et des suites de l’événement. La BDHI n’est plus maintenue et elle n'est accessible qu'aux agents de l'Etat .Ce jeu de données est constitué de 222 fiches de synthèse extraites de la BDHI, qui fournit un descriptif de 222 événements d'inondation de 1770 à 2018. La base BDHI contient les informations sur les documents qui ont été utilisés pour produire les fiches de synthèse.