cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15454/19td8m
title: Early transcriptional response to gravistimulation in poplar without phototropic confounding factors

description: After 30 minutes tilting at 35{degree sign} under anisotropic light, we collected the upper and lower xylems from the inclined stems. Controls were collected from vertical stems. We used a microarray approach to identify differentially expressed transcripts. High throughput real-time PCR allowed a kinetic experiment at 0, 30, 120 and 180 minutes after tilting at 35{degree sign}, with candidate genes.
DOI: 10.15454/1eqalw
title: Combining climatic and genomic data improves range-wide tree height growth prediction in a forest tree

description: We collected phenotypic (i.e. height measurements) and genomic (5,165 high-quality polymorphic SNPs) data from the clonal common garden network CLONAPIN consisting of 5 test sites and 34 populations of maritime pine (523 genotypes). Please refer to the README file associated with this DRYAD repository for a description of the variables and values in each dataset and the scripts used to analyze the present data.
DOI: 10.15454/1kvsrk
title: RPG complété 2019 département 86

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 86. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/1mjdkz
title: Loterre and TermSciences portal FAIRness Assessment SHARC survey

description: Le dataset contient 2 instantiations de la grille V1.2 de FAIRness Assessment proposée par le WG SHARC de la Research Data Alliance. La grille est appliquée aux portails de terminologies Loterre et TermSciences administrés par l'Inist Cnrs. Cette évaluation a été réalisée dans le cadre du projet FooSIN
DOI: 10.15454/0etbyc
title: ICSOLAP for Papyrus

description: ICSOLAP is a UML profile for (Spatial) Data Warehouse. This version is implemented using the CASE tool Papyrus
DOI: 10.15454/1.44543859671938e12
title: Blumeria graminis hordei genome: Transposable elements annotation file

description: Transposable element (TE) annotation of Blumeria graminis hordei using the Blgr_refTEs consensus library
DOI: 10.15454/1.5009976984187844e12
title: Resequencing of seven genotypes of Muscadinia rotundifolia (Illumina GAII PE 2x100bp, about 10x)

description: Abstract:Muscadinia rotundifolia, an American species related to the European grapevine Vitis vinifera, has a high level of resistance to grapevine diseases. Backcross-based introgression has been used in French breeding programmes to transfer resistance factors from M. rotundifolia into cultivated backgrounds while eliminating the unwanted cultural traits and off-flavours. However, crosses between the two species have a low success rate, most of the hybrids are sterile, and phenotypic abnormalities are common in the offspring. In this context, it is essential to identify the genomic features that impede crosses between the two species. To this end, three mapping populations were generated by pseudo-backcrosses using M. rotundifolia as the donor parent and several V. vinifera cultivars as the recurrent parents. Genotyping-by-sequencing was used to establish high-density genetic linkage maps and to determine the origin of each segment of the chromosomes. Several segregation distortion regions were identified. In these regions, M. rotundifolia alleles were either conserved either eliminated. In addition, a high level of macrosynteny was observed between the parents of the pseudo-backcross 1 population. In this population, recombination rate variations were similar along the genome of both parents except on chromosome 7 of V. vinifera which correspond to chromosomes 7 and 20 of M. rotundifolia. In following pseudo-backcrosses, recombination rate abnormalities were observed on chromosomes with homeologous regions, i.e. regions with one allele from M. rotundifolia and one allele from V. vinifera. On these chromosomes, recombinations concentrate in homologous regions, and few or no recombinations are observed in the homeologous regions. These results will help breeders to select a suitable breeding strategy. The dataset is provided in support of the data paper: “Understanding recombination distribution in Muscadinia rotundifolia x Vitis vinifera backcrosses to improve grapevine breeding strategies” by Delame M., Prado E., Blanc S., Robert G., Mestre P., Rustenholz C., Merdinoglu D. (in preparation).
DOI: 10.15454/1.505380010373349e12
title: Time series (1901-2014) of 1-km resolution climate grids for Europe and Mediterranean Basin - the EuMedClim dataset

description: The EuMedClim dataset provides times series (1901-2014) of climate grids at 30 arc second resolution (~ 1 km2) for Europe and the Mediterranean Basin. An ‘anomaly-approach’ was used to combine the spatial information of Worldclim data (Hijmans et al. 2005) and the temporal information of the CRU TS 3.23 dataset (Harris et al. 2014). The EuMedClim dataset comprises 21 parameters: seasonal and annual mean temperature, mean diurnal temperature range, maximum temperature of the warmest month, minimum temperature of the coldest month, seasonal and annual precipitation, precipitation of the wettest and driest months, and yearly mean, minimum and maximum values of monthly potential evapotranspiration (PET) and precipitation minus PET (drought index). The entire data set is available at http://gentree.data.inra.fr/climate together with R scripts for downloading time series at sampling points and producing climate maps.
DOI: 10.15454/1.5153984223110251e12
title: Ranking semantics for the choice of environment-friendly food packagings - Consumers’ answers to poll for Plastic not closed

description: value unavailable
DOI: 10.15454/18es4w
title: RPG complété 2018 département 06

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 06. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/1i9pet
title: IsoCor-based correction of natural isotope abundance for TMS derivatives from GC-MS analyses

description: A P2M2 (IGEPP's Metabolic Profiling and Metabolomic Platform) workflow was built based on GC-MS raw data from TMS-derivative of metabolites to correct for natural abundance and to calculate carbon isotopologue distributions and mean 13C enrichment using IsoCor2.0 software. The corrective method is publicly available and can be run directly from GC-MS source files using the following workflow : Conversion GCMS PostRun Analysis to IsoCor Isotopic studies &gt; Isotope Correction for mass spectrometry labeling experiments The sources are available on the GitHub repository of the P2M2 platform. The workflow is composed of two items: "Conversion GCMS postrun analysis to IsoCor" and "Isotope Correction for mass spectrometry labeling experiments". The first item (gcms2isocor) allows to convert GCMS raw data into a table suitable for IsoCor. For this purpose,the input files must contain a column "Name" filled with each carbon isotopologue of each fragment considered and a column "Area" filled with the area of the integrated peak. The name of each mass fragment analysed in the method file must be written exactly as depicted in the GCMS_example_file . This will ensure that the combination between the chemical formula of the metabolite backbone and the chemical formula of the TMS backbone is correct and clearly identified by IsoCor. The identification of chemical structures for each fragment reported in the dataset has been manually curated with respect to known fragmentation patterns and 13C positional studies (see the reference publication). As an example, the name "ProlineC2C5_TMS_m0" is for the GC-MS fragment m/z 142 (integrated peak) containing the C2-C3-C4-C5 carbon skeleton of proline and 1 TMS derivative, and m0 refers to the carbon isotopologue monitored (m0 for m/z = 142, m1 for m/z = 143, m2 for m/z = 144, m3 for m/z = 145, m4 for m/z = 146). If this first step of the workflow is bypassed, the users are solely responsible for the scientific credibility of the results generated. The second item (IsoCor from W4M platform) allows to correct for the abundance of naturally occurring isotopes using IsoCor software. Please run IsoCor with the three files “Isotopes.dat”, “Metabolites.dat” and “Derivatives.dat” from the dataset. After this second step, the results can be visualized using custom R scripts or other W4M tools such as "Isoplot: Generate plots from isocor output".
DOI: 10.15454/1ojhvs
title: Phenology Data - INRAE Versailles - UE 1246 GCVG - BDD PHETEC

description: Ce modèle est défini pour la base de données PHETEC – Grandes cultures. Données d'observation de la phénologie de plusieurs cultures (Maïs, Orge, Blé et Colza) observées par l'Unité Expérimentale 1246 Grandes Cultures du Centre de Versailles-Grignon entre les années 1999 et 2021. Les données sont issues des parcelles qui n'ont pas été utilisés pour des expérimentations pour le maïs et l'orge. Pour le blé et le colza, les données sont issues de parcelles qui font parties d'un essai système (La Cage). Elles sont issues de la base de données Phetec et sont accessibles via le Portal de données TEMPO (https://tempo.pheno.fr/) Le fichier est composé de plusieurs feuilles. Les données de phénologie ont plusieurs métadonnées associées pour aider à leur compréhension.
DOI: 10.15454/1rizao
title: Frimouss Apple

description: Fruit features : Fruit growth has been measured from anthesis to harvest on plants with regular crop load. The anthesis date have been observed in order to describe the data collected according to days and degree-days from anthesis. Fruit growth has been monitored using non-destructive measurements that measure fruit dimensions (diameters, length) and using destructive sampling to estimate the fruit fresh and dry mass accumulation. Metabolites : Biomass compounds and accumulated metabolites that constitute the major carbon sinks have been quantified and their contents expressed on fresh- and dry weight bases. Total proteins, nucleic acids and starch have been quantified via spectrophotometric or fluorimetric measurements after specific extraction, preparation and calibration. Culture location : INRA UE0695 UERI (Unite Experimentale Recherches Intégrees - Gotheron)
DOI: 10.15454/1tpzgg
title: Les bonnes pratiques de la gestion des données

description: Guide des bonnes pratiques de gestion des données : de la description des données à la réutilisation des données
DOI: 10.15454/2noepr
title: RPG complété 2018 département 55

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 55. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/2twg8b
title: Historical Phenology Data from Observatory St-Maur-des-Fossés, INRAE Versailles Center, TEMPO network

description: Données d'observation sur la phénologie de plusieurs plantes (Arbres, arbustes, fruitiers, plantes vivaces...) de l'Observatoire du Parc St-Maur entre les années 1875 et 1947. Le fichier de données est associé à 2 fichiers de métadonnées (une version française et une version anglaise) pour aider à sa compréhension.
DOI: 10.15454/2y5xtl
title: An appraisal of the role of compositional and ripening parameters on CO2 diffusivity in semi-hard cheese - CO2 diffusivity in semi-hard cheese in relation to age (Spring 2015)

description: value unavailable
DOI: 10.15454/3lpgkp
title: Milk production in lactating mares

description: These data correspond to milk collection data in nursing mares published in Animals "Estimation of milk production in suckling mares and factors influencing their milk yield" by J. Auclair-Ronzaud, F. Jaffrézic, L. Wimel, C. Dubois, D. Laloë, P. Chavatte-Palmer
DOI: 10.15454/1kqbtm
title: Frimouss project

description: Fruit features : Fruit growth has been measured from anthesis to harvest on plants with regular crop load. The anthesis date have been observed in order to describe the data collected according to days and degree-days from anthesis. Fruit growth has been monitored using non-destructive measurements that measure fruit dimensions (diameters, length) and using destructive sampling to estimate the fruit fresh and dry mass accumulation. Metabolites : Biomass compounds and accumulated metabolites that constitute the major carbon sinks have been quantified and their contents expressed on fresh- and dry weight bases. Total proteins, nucleic acids and starch have been quantified via spectrophotometric or fluorimetric measurements after specific extraction, preparation and calibration. Culture location : INRA UE0695 UERI (Unite Experimentale Recherches Intégrees - Gotheron)
DOI: 10.15454/1mz1zc
title: Seed mucilage traits for Arabidopsis thaliana natural accessions with atypical outer mucilage - dataset 1

description: The seeds of Arabidopsis thaliana become encapsulated by a layer of mucilage when imbibed. This polysaccharide-rich hydrogel is constituted of two layers, an outer layer that can be easily extracted with water and an inner layer that must be examined in situ in order to study its properties and structure or disintegrated through hydrolysis or physical means in order to analyze its constituents. Mucilage is an adaptive trait and a detailed analysis of both layers of mucilage has been carried out for 19 natural accessions showing atypical outer mucilage traits. The natural accessions were obtained from the Versailles Arabidopsis Stock Center (http://publiclines.inra.fr/naturalAccession/index) and are listed according to their Versailles identification number. Biochemical assays of mucilage extracts or in situ analyses using stains and antibodies or TD-NMR were used to generate a dataset of over 182 000 values covering 33 traits measured in four biological replicates.
DOI: 10.15454/1otgwl
title: Bioindication diatomées : comparaison microscopie / barcoding ADN. Pipeline MOTHUR selectionné

description: Le pipeline sélectionné pour produire les listes floristiques utilisées pour calculer les IBD des 447 échantillons est donné ci dessous
DOI: 10.15454/1u9454
title: Physical events occurring during the cryopreservation of immortalized human T cells

description: This dataset contains the data from a study on Jurkat cells, an immortalized line of human T lymphocyte cells, used as an investigative system of relevance to cryopreservation and regenerative medicine. The physical events occurring in Jurkat cells samples during conventional cryopreservation were measured. A simple binary system comprising a cryoprotectant solution and protein at different concentrations was also used to model elements of an intracellular compartment during cryopreservation, to better understand the basic physics of the physical events observed in cell samples. This data was put in perspective to viable cell counts and cellular, metabolic activity, to link physical events and biological outcomes for optimising equilibrium-freezing protocols
DOI: 10.15454/23pr75
title: RPG complété 2018 département 80

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 80. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/29lfiw
title: Strategy for Successful Integration of eDNA-based Methods in Aquatic Monitoring

description: Recent developments in the use of environmental DNA are opening up new horizons for the assessment of the quality of aquatic environments. These rapid and cost-effective methods make it possible to identify all the taxa present in an environmental sample (water or biota). The produced inventories can then be used for biodiversity assessment as well as for bio-indication. However, the inclusion of these new DNA-based methods in monitoring practices is not straightforward and requires harmonised actions in the coming years at national and international levels. In order to foresee and stimulate such a harmonised implementation, the European network DNAqua-Net (COST Action CA15219) brought together members of DNAqua-Net, members of ECOSTAT and other environmental biomonitoring stakeholders from different European countries. Through workshops, bringing together 51 participants in 7 sub-groups in April 2020, an implementation road map was designed. The coordinated actions to be taken in the different countries, and the possible collaboration and steps to be taken at the EU level were identified. The resulting document gives an overview of all discussions, reflecting the diversity of situations in Europe, as well as common views, and it highlights important actions required for a successful implementation of DNA-based biomonitoring of aquatic ecosystems at the horizon 2030.
DOI: 10.15454/2avgi9
title: Leaf wettability

description: This dataset contains wettability data in the form of contact angles measured on plant leaves. - First data provided are dynamic (advancing and receding) and receding (deposit and dropped) contact angles of water droplets on apple leaves (8 cultivars) and Parafilm 'M' (control substrate), destined to be used in the article "Apple leaf wettability variability in function of genotype and apple scab susceptibility". The data file Angles.tab is in ASCII raw text and columns separated by a tab. It contains 3 columns : * CV : substrate * Value : contact angle value in degrees (°) * Type : type of angle (advancing, receding, deposited, dropped)
DOI: 10.15454/2kfmgc
title: Data from "Little impact of NaCl reduction in Swiss-type cheese" submitted to Frontiers in Nutrition, section Food Chemistry

description: Raw mass spectrometry data supporting the manuscript "Little impact of NaCl reduction in Swiss-type cheese" submitted to Frontiers in Nutrition, section Food Chemistry. Authors: Valérie Gagnaire, Xavier Lecomte, Romain Richoux, Magali Genay, Julien Jardin, Valérie Briard-Bion, Jean-René Kerjean, Anne Thierry Data were transformed in open format .mzML.
DOI: 10.15454/2o77ef
title: Enriched GO terms in predicted dorsal gland effectors

description: By cross referencing the list of M. incognita proteins having a predicted signal peptide for secretion and no predicted transmembrane region with the list of proteins encoded by genes with Mel-DOG motifs in their upstream regions, we could predict 457 candidate dorsal gland (DG) effectors in the genome. We used the functional annotation produced by InterProScan to search for enriched GO terms in these predicted DG effectors using GOfuncR.
DOI: 10.15454/2xjcjq
title: Expression clusters of differentially-expressed M. incognita genes

description: Distribution of the 12,461 differentially expressed M. incognita genes on 8 expression clusters (named A to H). Files named ClusterA-H.txt list the genes present in each expression clusters. The file named Clusters.xlsx summarizes the distribution of all these genes across the 8 clusters as well as gene models corresponding to known DG and SvG effectors. Gene expression clusters have been obtained by divisive hierarchical clustering.
DOI: 10.15454/3cvd1i
title: airGRiwrm: Modeling of Integrated Water Resources Management based on airGR. R Package version 0.6.1

description: airGRiwrm is an extension of the airGR R package for managing semi-distributive hydrological model on an anthropized catchment. The R-package airGRiwrm has been developed for multiple purposes linked to IWRM. First, it proposes a simplified network description for building semi-distributed models containing several sub-basins with diverse connections, which greatly simplifies the calibration and modeling steps. Then, it allows to easily integrate predefined flows (feedforward control) into the model, namely local flow injections or withdrawals. Finally, it integrates controllers that apply user-defined decision algorithms given model outputs during simulation (feedback control). The controllers allows for example to apply withdrawal restriction in case of drought, or to simulate a reservoir behaviour with complex management rules.
DOI: 10.15454/3k4f4n
title: RPG complété 2019 département 36

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 36. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/2zm3xe
title: Questionnaire structure of stakeholder survey about biomaterials and biogas facilities

description: The questionnaire for solutions to obtain NoAW biomaterials based on agricultural residues included the introduction of 5 solutions: PHBV biocomposites, biobased epoxy resins, polyphenols for polymer/coating applications, potato waste for PHA composites, succinic acid based on fruit and vegetable wastes The questionnaire for NoAW solutions centered around biogas facilities included the introduction of 4 solutions: biohytane, biomethane, biofertilizers (biochar), VFA/PHA Production in biogas facilities. The collection of factors was based on previous studies carried out in the project (T1.3, T5.3) and on literature review. The list of factors is validated by the NoAW partners who are experts on the specific fields. The participants evaluated for each NoAW product/solution: the level of innovation by choosing the most appropriate category based on EU Innovation Radar (ref.: https://www.innoradar.eu/); the legislative promotional factors using 7-point Likert scale; the business aspect that can enhance the uptake of the NoAW solution using 7-point Likert scale.
DOI: 10.15454/2ztbjy
title: Enquête "Capital Données" réalisée en 2019 par QualiNous du département ACT d'INRAE

description: Cette enquête avait pour objectif de recenser un certain nombre de jeux de données pour commencer à caractériser les données produites et utiliser dans les unités du département. L’enquête a été réalisée de 2019 à 2020 auprès des unités du département ACT,au moyen de l’outil Limesurvey. Les répondants ont rempli le questionnaire autant de fois que nécessaire :une réponse à un questionnaire pour chaque jeu de données renseigné
DOI: 10.15454/356vax
title: RPG complété 2019 département 50

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 50. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/38qfjd
title: tdbesc (R Shiny): Interactive dashboard for managing forest-ungulate interactions

description: A dashboard for managing forest-ungulate interactions. The dashboard is composed of a Shiny application with an interactive interface to (i) visualise time series and maps, (ii) analyse data and (iii) create reports by downloading the results. The application has been implemented with data for Centre-Val de Loire, France.
DOI: 10.15454/4fwanj
title: Favorable conditions for genomic evaluation to outperform classical pedigree evaluation highlighted by a proof-of-concept study in poplar

description: Dataset of genomic evaluation in black poplar breeding program
DOI: 10.15454/4rqrig
title: Physical properties of fructo-oligosaccharides' aqueous solutions and reference compounds

description: This dataset contain the composition and physical properties of aqueous solutions of fructo-oligosaccharides produced as part of the PREMIUM project, compared to reference solutions currently used to protect bacteria. The physical properties measured are: the glass transition temperatures, the viscosity at 4°C and 20°C, the osmolality and the ice nucleation temperature.