cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.57745/blmblh
title: RPG complété 2022 Région Hauts-de-France

description: RPG complété 2022. Complète le RPG campagne 2022 pour les départements de la région Hauts-de-France (02, 59, 60, 62, 80). (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2024.
DOI: 10.57745/clnzyq
title: Tracing Experiment Rampillon RWT 2016

description: Tracing Experiment Rampillon RWT 2016
DOI: 10.57745/cpiksq
title: Downscaled climate projections (1970-2100) for the 6 European catchments studied in the DRYvER project

description: Downscaled projections of temperature, precipitation, and reference evapotranspiration for the 6 studied European catchments. 3 SSP scenarios and 5 climate models.
DOI: 10.57745/g5tbja
title: Datas associated to the publication : Emergence and spread of Mycobacterium ulcerans at different geographic scales

description: This dataset compiles datas associated to the publication : Martial Briand, Alexandra Boccarossa, Adrien Rieux, Marie-Agnès Jacques, Line Ganlanon, Christian Johnson, Matthieu Eveillard, Estelle Marion, Laurent Marsollier. Emergence and spread of Mycobacterium ulcerans at different geographic scales. Dataset files are described in file datasDescription.docx
DOI: 10.57745/ede2ka
title: Publication COMMSENV

description: Data of the paper Hu et al. COMMSENV
DOI: 10.57745/dh9mkm
title: Replication Data for: "Coordination of parental performance is breeding phase-dependent in the Dovekie (Alle alle), a pelagic Arctic seabird"

description: Data from manuscript "Coordination of parental performance is breeding phase-dependent in the Dovekie (Alle alle), a pelagic Arctic seabird", published in PlosOne, doi: 10.1371/journal.pone.0306796 Currently, parental care is becoming increasingly perceived as male and female cooperation, instead of being primarily shaped by sexual conflict. Most studies examining cooperating performance consider coordination of parental activities, and doing so focuses on a short time-window including only one stage of breeding (i.e., incubation or chick rearing period). Here, we considered the cooperation of breeding partners, investigating the coordination of parental care in a long-lived seabird species with long and extensive biparental care, the Dovekie (or Little Auk), Alle alle, and looked at the issue throughout the breeding season. To do so, we collected in a Dovekie colony in Svalbard (77◦00′ N, 15◦33′ E), some video recordings of Dovekie pairs during both stages of the breeding period, that were transformed into behavioral data after video analysis. The present dataset contains the data resulting from the video analysis, as well as the R script used to perform statistical analyses on these data, and a summary of the results of the statistical analyses. For instance, we tested whether coordination was subject to small-scale changes within each stage and whether there was a relationship between coordination levels across the two stages. We found that the level of parental coordination is overall high and increases during the incubation period but decreases through the chick rearing phases. These results suggest that coordination is not a fixed behavior but breeding-phase dependent and provide insights into how parental care and parents’ cooperation is shaped by brood
DOI: 10.57745/c61vfc
title: Dataset of the articles included in the meta-analysis on the prevalence and proportion of asymptomatic Chlamydia trachomatis, Neisseria gonorrhoeae, and Trichomonas vaginalis among women in low- and middle-income countries

description: These data were used to produce the results of the meta-analysis of the following article: "Asymptomatic infections with Chlamydia trachomatis (CT), Neisseria gonorrhoeae (NG), and Trichomonas vaginalis (TV) among women in low- and middle-income countries: A systematic review and meta-analysis". The database contains all the published articles included in the systematic review and meta-analysis. We selected studies published between 1 January 2000 and 31 December 2022, in English and French. We included studies that tested for STIs using genital or urine specimens. We kept studies that used NAATs for the diagnosis of CT, NG, and TV. For TV, we also included articles that used InPouch® or performed wet mount microscopy immediately after collection, as these techniques showed fair sensitivity and specificity and remain common detection methods in LMICs. We selected studies where the investigator actively asked about at least one symptom, or where participants self-reported symptoms. We excluded articles in which authors assumed the absence of symptoms in the entire study population without collecting such information. Finally, we excluded articles when “asymptomatic” was defined as the absence of clinical signs as reported by the healthcare provider rather than by the women as we intended a participant-centred approach. Some articles appear multiple times: this is either because they explored multiple pathogens (e.g., Chlamydia trachomatis and Trichomonas vaginalis) or they have recruited participants at different sites (e.g., antenatal care and family planning). Each line describes the study population or subpopulation's characteristics.
DOI: 10.57745/ec2igo
title: Constitution d'une osthéothèque (collection de vertèbres de truites, Salmo trutta)

description: A collection of trout (Salmo trutta) vertebrae from complete modern skeletons was assembled as part of a palaeontological study. The aim was to obtain references for the species that would enable us to better characterise past populations from which mainly vertebrae have survived. In fact, in the archaeozoological and palaeontological assemblages where the species is present, almost all the trout remains are dislocated and isolated vertebrae, and the other more fragile or smaller skeletal elements are generally absent, or difficult to use because they are fragmented. This collection includes juvenile, sedentary and anadromous specimens from various rivers on the Atlantic coast, ranging in size (fork length) from 8 to 76 cm. We used here this modern collection to: (1) Establish, test and validate a protocol for counting the annuli visible on the vertebra to predict the total age of the fish at the date of its death. (2) Model the fork length of a trout based on one of the dimensions of its vertebrae. Une collection de vertèbres de truites (Salmo trutta) provenant de squelettes complets modernes a été rassemblée dans le cadre d'une étude paléontologique. Le but était de disposer de références pour l'espèce qui permettent de mieux caractériser les populations passées dont seules les vertèbres sont parvenues jusqu'à nous. En effet, dans les assemblages archéozoologiques et paléontologiques où l'espèce est présente, la quasi totalité des vestiges de truite sont des vertèbres disloquées et isolées, et les autres éléments du squelette, plus fragiles ou plus petits, sont généralement absents, ou difficilement exploitables car fragmentés. Cette collection comporte des représentants juvéniles, sédentaires et anadromes, provenant de diverses rivières de la façade Atlantique et dont la taille (longueur fourche) est comprise entre 8 et 76 cm. Cette collection moderne nous a servi ici pour : (1) Etablir, tester et valider un protocole de comptage des annuli visibles sur la vertèbre pour prédire l’âge total du poisson à la date de sa mort. (2) Modéliser la longueur fourche d'une truite à partir d'une des dimensions de ses vertèbres.
DOI: 10.57745/g06tte
title: Table with phenotypes

description: This dataset contains the phenotypes of the base population and the first three generations of selection of a selection experiment on gut microbiota in pigs
DOI: 10.57745/infoti
title: XAS data associated with article "Electronic structure of light-induced nitrosyl linkage isomers revealed by X-ray absorption spectroscopy at Ru L3,2-edges"

description: The X-ray absorption spectroscopyc data collected before and after light irradiation allow for examining changes of the electronic and molecular structure of the photoinduced nitrosyl linkage isomers in a ruthenium nitrosyl compound.
DOI: 10.57745/etsmim
title: Replication Data for "Extensive multivariate dataset characterizing bacterial community diversity and Campylobacter contamination level in a large number of conventional broilers carcasses after air chilling and refrigerated storage"

description: The dataset provides information on the bacterial diversity of 480 conventional broiler carcasses collected in a French slaughterhouse between 2022 and 2023. It includes 16S rRNA metabarcoding data from broiler carcass rinses before and after 7 days of storage at 4°C. Rinses were pooled in groups of three, resulting in 320 sequenced samples, with 318 remaining after removing two due to poor library quality. Amplicons from the region V3-V4 of 16S rRNA were sequenced with Illumina MiSeq technology. The dataset also includes Campylobacter et Total Mesophilic Aerobic flora quantification on agar plates before and after refrigerated storage. The data were collected to identify bacterial species that correlate positively or negatively with Campylobacter on chicken meat.
DOI: 10.57745/f74brp
title: Base de revues scientifiques françaises en open access Diamant

description: Cette base a été constituée à l'occasion d'un mémoire de conservatrice des bibliothèques (ENSSIB DCB 32). Elle agrège des données concernant les revues scientifiques françaises en open access Diamant issues de plusieurs autres bases : - le DOAJ, - OpenEdition Journals, - deux listes issues des rapports OADJS et DIAMAS, - les revues du réseau de pépinières Repères, - les pépinières hors Repères - la liste des revues produites à Nanterre. Ces données sont destinées à évoluer et à être enrichies par un travail collaboratif. MÉTHODOLOGIE - Récupération des métadonnées des différentes bases et listes - Fusion de ces listes en essayant de garder le maximum d'information possible - Harmonisation des colonnes - Dédoublonnage par ISSN, ISSN-e puis titre - Enrichissement manuel: ISSN manquants (via Mir@bel ou ISSN portal) + subjects "STM/SHS"
DOI: 10.57745/huqoxw
title: Data, R scripts and ASReml scripts

description: ################################################################################################ # OBJECTIVE: Procedure to perform the data handling and the analyses + details about the files # # AUTHOR: Nicolas Bedere (nicolas.bedere@inrae.fr) # # LICENCE: CC0 1.0 Universal (CC0 1.0), Public Domain Dedication # # LAST UPDATE: 2023-01-06 # # PLATFORM: x86_64-pc-linux-gnu (64-bit) # ################################################################################################ #### INTRODUCTION #### This text files aims to explain the procedure to perform both the data handling and the analyses in the paper: #### Description of the files: #1. Datasets PhenoAsreml.txt contains the observed values for the phenotypes described in the paper PhenoAsreml_scaled.txt contains the scaled (mean of zero and standard deviation of one) of the same phenotypes. THIS DATASET IS USED FOR BIVARIATE ANALYSES WITH 2x2 STRATA PhenoAsreml_scaledLong.txt contains the same information, organized differently because the dataset is reshaped from wide to long format. PhenoAsreml_scaledLong_3x3strata.txt contains the information for BackFat and BodyWeight, THIS DATASET IS USED FOR BIVARIATE ANALYSES WITH 3x3 STRATA PhenoAsreml_scaledLong_3x2strata.txt contains the information for BackFat and Adiponectin, THIS DATASET IS USED FOR BIVARIATE ANALYSES WITH 3x2 STRATA. It is only an example of dataset that needs to be generated in order to obtain all the results presented in the paper BEDERE_2023_Data_PedigreeHens.txt is the pedigree file (individual/sire/dam) traced back over 5 generations #2. Codes and parameter files BEDERE_2023_RScript_handlingdata_Long.R is an R code to reshape PhenoAsreml_scaled into PhenoAsreml_scaledLong and to subset it to generate PhenoAsreml_scaledLong_3x3strata for instance BEDERE_2023_ASREMLScript_bivariate_2x2strata.as (as well as ...3x2strata.as and ...3x3strata.as) are ASReml parameter files used to state the data, model specification and post-hoc calculation to ASReml Please, note that some variance components have been fixed in some analyses when the algorithm was struggling to converge. BEDERE_2023_RScript_BartlettTest.R is an R code to perform the Bartlett test. #2. Results examples Some output files of ASReml are provided to give an example of results for each type of bivariate analysis. The .asr file is the log of the program, explaining how the program ran The .res file is describing the residuals The .pvc file describes the variance components and provides the genetic parameters with their associated standard errors.
DOI: 10.15468/dl.mc6u2e
title: Occurrence Download

description: A dataset containing 351 records in GBIF matching the query:
SELECT
 kingdom,
 kingdomkey,
 phylum,
 phylumkey,
 class,
 classkey,
 "order",
 orderkey,
 family,
 familykey,
 genus,
 genuskey,
 species,
 specieskey,
 "year",
 IF(ISNULL(kingdomkey), NULL, SUM(COUNT(*)) OVER (
 PARTITION BY kingdomkey, "year")) kingdomcount,
 IF(ISNULL(phylumkey), NULL, SUM(COUNT(*)) OVER (
 PARTITION BY phylumkey, "year")) phylumcount,
 IF(ISNULL(classkey), NULL, SUM(COUNT(*)) OVER (
 PARTITION BY classkey, "year")) classcount,
 IF(ISNULL(orderkey), NULL, SUM(COUNT(*)) OVER (
 PARTITION BY orderkey, "year")) ordercount,
 IF(ISNULL(familykey), NULL, SUM(COUNT(*)) OVER (
 PARTITION BY familykey, "year")) familycount,
 IF(ISNULL(genuskey), NULL, SUM(COUNT(*)) OVER (
 PARTITION BY genuskey, "year")) genuscount,
 COUNT(*) occurrences,
 MIN(GBIF_TEMPORALUNCERTAINTY(eventdate, eventtime)) mintemporaluncertainty,
 MIN(COALESCE(coordinateuncertaintyinmeters, 1000)) mincoordinateuncertaintyinmeters
FROM
 occurrence
WHERE
 occurrence.hascoordinate = TRUE
 AND occurrence.hasgeospatialissues = FALSE
 AND occurrence.occurrencestatus = 'PRESENT'
 AND (occurrence.taxonkey = 2360802 OR occurrence.acceptedtaxonkey = 2360802 OR occurrence.kingdomkey = 2360802 OR occurrence.phylumkey = 2360802 OR occurrence.classkey = 2360802 OR occurrence.orderkey = 2360802 OR occurrence.familykey = 2360802 OR occurrence.genuskey = 2360802 OR occurrence.specieskey = 2360802)
 AND NOT GBIF_STRINGARRAYCONTAINS(occurrence.issue, 'TAXON_MATCH_FUZZY', TRUE)
 AND (occurrence.distancefromcentroidinmeters &gt;= 2000.0 OR occurrence.distancefromcentroidinmeters IS NULL)
 AND NOT occurrence.basisofrecord IN ('FOSSIL_SPECIMEN', 'LIVING_SPECIMEN')
 AND (occurrence.specieskey IS NOT NULL AND occurrence."year" IS NOT NULL)
GROUP BY
 occurrence.kingdom,
 occurrence.kingdomkey,
 occurrence.phylum,
 occurrence.phylumkey,
 occurrence.class,
 occurrence.classkey,
 occurrence."order",
 occurrence.orderkey,
 occurrence.family,
 occurrence.familykey,
 occurrence.genus,
 occurrence.genuskey,
 occurrence.species,
 occurrence.specieskey,
 occurrence."year"

 The dataset's 351 records were derived from 300 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032068-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.57745/gm2yvl
title: Data for "A new chapter of the Japanese beetle invasion saga: predicting suitability from long-invaded areas to inform surveillance strategies in Europe"

description: Predictors, Popillia japonica presence and pseudo-absence raster data used in a species distribution model, and environmental suitability for Popillia japonica predicted in the publication Borner L, Martinetti D, Poggi S (2023) A new chapter of the Japanese beetle invasion saga: predicting suitability from long-invaded areas to inform surveillance strategies in Europe. Entomologia Generalis. (https://doi.org/10.1127/entomologia/2023/2073). This dataset includes: - a raster file of Popillia japonica presences distribution, gathered using citizen science platforms and standardized surveys, - a raster file of Coleoptera species distribution, gathered through citizen science and used as pseudo-absences in models, - a raster stack of predictors used in modelling (climate, human-related variables, land use, soil properties etc.), - all the information (script and data) needed to produce maps describing environmental suitability for the Japanese beetle. The raster files' extent is global, spatial resolution of raster files is 4km x 4km. Detailed metada are provided in each folder detailing each file. This research was supported by the IPM-Popillia project, funded by the European Union Horizon 2020 research and innovation programme under grant agreement No 861852
DOI: 10.15468/dl.n34ugh
title: Occurrence Download

description: A dataset containing 314 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cyclopes didactylus (Linnaeus, 1758)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 314 records from 43 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0032077-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.57745/dolmp3
title: Deliverable D3.2 Assessment Indicators - Demonstrated VC - CS-Fra

description: This file is part of the deliverable D3.2 of the European H2020 FAIRCHAIN. It structures all the data relevant for the description of the demonstrated value chain of the case study in France (CS-Fra). The description of the baseline covers the dimensions of co-creation business models and sustainability including environmental, economic and social perspectives.
DOI: 10.57745/fptb5g
title: RPG complété 2022 Région Île-de-France

description: RPG complété 2022. Complète le RPG campagne 2022 pour les départements de la région Île-de-France (77, 78, 91, 93, 94, 95). (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2024
DOI: 10.57745/dl3o6c
title: RPG complété 2022 Région Bretagne

description: RPG complété 2022. Complète le RPG campagne 2022 pour les départements de la région Bretagne (22, 29, 35, 56). (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2024.
DOI: 10.57745/gpwdxp
title: Alisier Torminal / Sorbus torminalis /

description: Fichier d'impression 3D d'anatomie du bois d'Alisier Torminal file for 3D printer : Anatomy of Torminalis wood
DOI: 10.57745/h2gjqa
title: Absolute abundance data for the BCMicrobiome project.

description: The aim of the projet was to identify microbial antagonists of Plasmopara viticola, the causal agent of downy mildew in European cultivated grapevine (Vitis vinifera L.), by reconstucting microbial interaction networks from metabarcoding data and absolute abundance data of bacterial and fungal communities in symptomatic and asymptomatic leaf samples. The total fungal and bacterial abundances in grapevine leaf samples were estimated using digital droplet PCR (ddPCR). They are available in the present file, along with the molecular biology protocol. The number of copies of the target DNA sequences (16S for bacteria and ITS for fungi) per uL of DNA extract is indicated in the 'Conc. init' column. The 'Library_Name' column allows the absolute abundance data to be linked with the metabarcoding data that are available in the NCBI (PRJNA797948, PRJNA797225). Absolute quantification by ddPCR was performed for all leaf samples collected in the BCMicrobiome project and for the negative extraction controls (coded TN in the ‘Sample_ID2’ column). Negative PCR controls and positive PCR controls for ddPCR analysis are coded NTC and Tpos in ‘Sample_ID1’ column, respectively. Metabarcoding analysis also included controls (negative extraction controls, negative PCR controls and positive PCR controls) that were not deposited in the NCBI but are available from the present file.
DOI: 10.57745/iuxpa3
title: MFront implementation of a BCC crystal plasticity law coupled to phase-field damage

description: A crystal plasticity and phase-field fracture material law is implemented in the MFront code generator (https://tfel.sourceforge.net/). This constitutive behavior is specifically designed for BCC materials. The material behavior and parameters are described in the companion paper: Scherer, Jean-Michel, Ramesh, Mythreyi, Bourdin, Blaise, Bhattacharya, Kaushik. Grain-size dependence of plastic-brittle transgranular fracture. (2025) Journal of the Mechanics and Physics of Solids (https://doi.org/10.1016/j.jmps.2025.106116). The resolution scheme, materials parameters and state variables are described in the README file. The .mfront file should be compiled using the following command: mfront --obuild --interface=generic BCC_CrystalPlasticity_PhaseFieldFracture.mfront
DOI: 10.57745/kqpya4
title: Données de réplication pour : Analyse de tendances climatiques localisées sur le département de la Lozère

description: R codes for localized analysis of past and future climate trends in the Lozère department, the result of a project by AgroParisTech engineers in the 3A GEAC 2022-2023 class. These R codes can be used to switch from the DRIAS climate data format to a time series of climate indicators (1 script per indicator) on an annual scale and per Météo-France SAFRAN grid point for a given region.
DOI: 10.57745/i3xsxj
title: Rouille

description: données rouille
DOI: 10.57745/id6lyu
title: MassiveFold data for target H1208 - T244

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.