cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15454/uvztav
title: Dataset for QTL detection in a Tomato MAGIC population analysed in a multi-environment experiment

description: Description of the data The data described here were produced from the ANR projects ADAPTOM (ANR-13-ADAP-0013) and TomEpiSet (ANR-16-CE20-0014). An 8-way tomato MAGIC population was phenotyped over 12 environments including three geographical location (France, Israel and Morocco) and four conditions (control, and water-deficit, high-temperature and salinity stress). A set of 397 MAGIC lines were genotyped for 1345 markers, used together with the phenotypic traits for linkage mapping analysis. Genotype-by-environment interaction (GxE) was evaluated and phenotypic plasticity computed through different statistical models. Each file in the dataset has its own description below. • Phenotype files The Phenotypes files contain the 10 phenotypic traits that were evaluated. Phenotypic data averaged per genotype and environment are in the file “Phenotype_per_Environment”. The input phenotypes for the linkage mapping analysis are in the file “Pheno_Input_QTL_detection”. They represent for each trait the estimated average performance, slope and variance from the Finlay Wilkinson regression model and sensitivity to environmental covariates from the factorial regression model, respectively. • MAGIC Genotyping information This file presents the genetic map with 1345 SNP markers used in linkage mapping analyses. The genotypic information of the eight founders and 397 MAGIC lines are also presented • Daily recorded climactic parameters This file presents the daily climatic parameters recorded within the greenhouses. The different parameters were computed over 24 hours. • Custom R script for the two-stage analysis of GxE The file “Two-stage-analysis_magicMET.txt” contains the custom R script used for analysis of factorial regression and Finlay-Wilkinson regression models. Average performance and plasticity parameters were derived from these analyses. Example have been given for fruit weight phenotype averaged per genotype and environment. The input file “Var_environment_P2P3” presents the average climatic parameters used particularly for the factorial regression model. • Custom R script for QEI modelling The files “QEI_Glbal_marker_effect_model5.txt” and “QEI_main_plus_interactive_effect_model6.txt” describe the custom R script used for the detection of interactive QTLs (QEI). Example of fruit weight phenotype have been developed. The input files for the script are “FW_pheno_GxE.csv”, the average phenotypic data per genotype and environment for fruit weight example and the parental haplotype probabilities “Proba_parents.txt” that were computed from R/qtl2 package with the function calc_genoprob. The “Geno_ID.csv” file gives the correspondence between genotype name and ID.
DOI: 10.57745/3r8f9p
title: Land use map of Burgundy and Savoy vineyards

description: The land cover map provided was constructed from several data sources. This mapping used data from the Casier Viticole Informatisé (CVI) of 2014 for Bourgogne region and of 2020 for Savoie region as primary data for the grapevine occupation layer. The IGN databases were used for the urban layer (BDTopo) and for the forest layer (BDForêtV2). Data from the Registre Parcellaire Graphique (RPG) were used for mainly non-vine crops and finally data from the CESBIO OSO layer (2018) for water and road classes. The final layer was produced following a series of processing under the softwares R and QGIS. Two "raster" files in GeoTiff format (resolution of 10 meters) respectively cover the vineyard of Burgundy (departments of Côte d'Or and Saône-et-Loire) and of Savoy (all or part of the departments of Haute-Savoie, of Ain and Savoie).
DOI: 10.15454/z3bopv
title: Aphids in Arts, a reflexive account of an insignificant object of nature and science in artists and public minds

description: This dataset is a complementary set of heterogeneous set of data (references, quotes, images) associated to the research paper indicated in the title field (to be submitted in Oct 2021).
DOI: 10.15454/zukn90
title: Données de réplication pour : To what extend soil moisture and contamination stresses can affect greenhouse gas emissions? An attempt to calibrate a nitrification/denitrification model

description: R code for the DNDC-Cu version, initial N species in soils and measured NO3 concentration at the end of the bio-assay
DOI: 10.57745/0xrfjc
title: Raw data of Alternaria leaf blight disease evaluation on different genotypes of Carrot after treatment with water for control modality or biopesticides treaments

description: This repository contains the raw data supporting the paper ‘Identification of plant resistance inducers and evaluation of genotype receptivity for carrot protection against Alternaria leaf blight’ written by Le Clerc et al. 2025, doi: 10.3389/fpls.2025.1513301, are organised into three Excel files. The files called ‘trial 3’ and ‘trial 4’ are raw data supporting the figure 5 and Supplementary 1. The file called ‘trial 5’ includes raw data supporting figure 7 and Supplementary 2. Data are scores for Alternaria leaf blight disease evaluation on different genotypes of Carrot after treatment with water for control modality or with different treaments (fungicide or biopesticides). All details about challenged carrot genotypes, applied treatments (fungicide and biopesticides) and processes are given in the paper. Disease symptoms are scored following a 0 (no symptom) to 9 (completely blighted plant) scale as described by Pawelec et al. 2006, doi: 10.1111/j.1365-3059.2006.01290.x. Colors in the files are similar to those used on the paper figures.
DOI: 10.15454/zzwqmn
title: Classification statistique des vignobles de Côte d'Or

description: Replicability material for https://doi.org/10.1111/ajae.12100. Les données sont décrites dans un data paper publié dans CyberGeo https://doi.org/10.4000/cybergeo.36443, le fichier readme.txt est le matériel additionnel associé. See also the code on github (https://github.com/jsay/geoInd) and the app (ttps://cesaer-datas.inra.fr/geoind/).
DOI: 10.57745/0nuyzr
title: Single-cell RNA-seq of rabbit (Oryctolagus cuniculus) caecum epithelium

description: Single-cell RNA-seq experiment obtained from the caecum epithelium of a 27-days old male rabbit (Oryctolagus cuniculus). Published data are data processed by cell ranger. Additional information (UMAP embedding and h5seurat file) as obtained by the Seurat pipeline, is also provided.
DOI: 10.57745/0u7d1v
title: Oilseedrape_Multi_Cla_Field_LeafFragments

description: RGB images of oilseed rape fragments collected in the field and bearing symptoms of plant diseases, annoted by classification at the whole image level (attribution to one causal species)
DOI: 10.57745/1oxjv0
title: Etude 4pour1000 : Economic data for publication of the article "A Marginal Abatement Cost Curve for Climate Change Mitigation by additional carbon storage in French agricultural land"

description: Spreadsheets used to calculate the implementation costs of the carbon storing practices studied in "Etude 4pour1000 France". Version corresponding to the publication of the research article, with modifications for the Agroforestry and Hedges practices (area base, storage potential in biomass). The spreadsheets include, in addition to the implementation cost, the aggregation of the maximum area base, the additional soil carbon storage potential and the full GHG balance for each practice at the regional scale.
DOI: 10.57745/6cqc0z
title: Optimising contact tracing for avian influenza in poultry flocks - scripts and data

description: The scripts and data held in this repository were used to run the analyses and to produce the results of the manuscript: Lambert S., Fourtune L., Hobbelen P.H.F., Baca J., Gonzales J.L., Elbers A.R.W., and Vergne T. Optimising contact tracing for avian influenza in poultry flocks.
DOI: 10.15454/zsygum
title: Dataset of Ixodes ricinus ticks in mainland France (CLIMATICK and CC-EID projects)

description: The database represents the number of nymphs of Ixodes ricinus collected monthly by the dragging method on routes identified in wooded areas for 8 observatories corresponding to different climates in France from 2014 to June 2021. La base de données représente le nombre de nymphes d’Ixodes ricinus collectées mensuellement par la méthode du drap sur des parcours identifiés en milieux boisés pour 8 observatoires correspondant à différents climats en France de 2014 à juin 2021.
DOI: 10.57745/0cxflp
title: Maillage de simulation du modèle MONA

description: Support SIG (.shp) des points de grille de simulation du modèle MONA
DOI: 10.15454/xkqggh
title: Effect of fermentation conditions on the viability and acidification activity of Carnobacterium maltaromaticum CNCM I-3298

description: This dataset concerns the study of the effect of three fermentation parameters (temperature, pH and harvest time) on the viability (cell counts) and acidification activity (CINAC system), of freeze-thawed C. maltaromaticum concentrates.
DOI: 10.15454/ziil2h
title: Gene ontology and functional enrichment analysis of plasma differentially abundant proteins during the transition to lactation and between different fatty acid treatments in Holstein cows

description: The plasma's proteomics data obtained from Holstein cows treated with abomasal infusions of coconut oil (CTRL) or a mixture of essential fatty acids and conjugated linoleic acids (EFA+CLA) at days -21, +1, +28, and +63 relative to calving. The files contain identified protein descriptions, gene names, proteins classes, differentially abundant proteins during the transition period and between treatment groups (CTRL and EFA+CLA), and their associated Gene Ontology (GO) and functional enrichment analysis.
DOI: 10.57745/0xzaqn
title: Data and analysis workflow for acidification and metabarcoding of serially fermented raw milks

description: The aim of the study was to investigate the dynamics of bacterial communities at the beginning of a backslopping process. We analysed the relationship between community structure and dynamics, and their acidification properties. We set up an experiment based on serial fermentations of cow raw milks sampled from 26 different farms of the same PDO geographical area in the north east of France. Each milk was serially fermented 6 times in mesophilic conditions. Acidification kinetics were recorded by pH monitoring during each fermentation and bacterial communities were analysed by metabarcoding (V3-V4 region of 16S rRNA) in the raw milk samples and after each fermentation step.
DOI: 10.15468/dl.s6tdbu
title: Occurrence Download

description: A dataset containing 127 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "TaxonKey is Renealmia ligulata Maas"
 ]
}

 The dataset includes 127 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005841-240216155721649/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.aybet4
title: Occurrence Download

description: A dataset containing 526 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Draba aizoides L.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1950"
 ]
}

 The dataset includes 526 records from 44 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005392-160509122628363/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48786/inoc.2024.01
title: Foreword
DOI: 10.48786/inoc.2024.03
title: Survivable Traffic Grooming with Practical Constraints in Large-Scale Optical Network
DOI: 10.15468/dl.a5tsv1
title: Occurrence Download

description: A dataset containing 749824 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Anas acuta Linnaeus, 1758"
 ]
}

 The dataset includes 749824 records from 289 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045774-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48786/inoc.2024.04
title: Multi-Objective Multi-Commodity Flow Optimization for Wartime Planning with Cyber-Effects
DOI: 10.48786/inoc.2024.05
title: Digraphs and k-Domination Models for Facility Location Problems in Road Networks: Greedy Heuristics
DOI: 10.15468/dl.qdcqa8
title: Occurrence Download

description: A dataset containing 1092 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Caracterización y estructura de la ictiofauna de arrecifes rocosos y coralinos en Punta Carrizal, Colima, México para fines de inventario y conservación de la diversidad animal"
 ]
}

 The dataset includes 1092 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0017783-240216155721649/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48786/inoc.2024.06
title: On the nested p-center problem
DOI: 10.15468/dl.xgoa6e
title: Occurrence Download

description: A dataset containing 1 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Bonatea bracteata G.McDonald & McMurtry",
 "HasGeospatialIssue is false",
 "HasCoordinate is true"
 ]
}

 The dataset includes 1 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005393-160803222355964/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48786/inoc.2024.07
title: In-Band Network Telemetry for Efficient Congestion Mitigation
DOI: 10.15468/dl.bxtp0o
title: Occurrence Download

description: A dataset containing 14 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Aplatophis chauliodus Böhlke, 1956",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 14 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045783-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48786/inoc.2024.09
title: Compact and non-compact formulations for the Dominated Coloring Problem
DOI: 10.48786/inoc.2024.10
title: Exploring quantum optimization for solving the PCI planning problem in 5G networks
DOI: 10.15468/dl.mjw2vx
title: Occurrence Download

description: A dataset containing 751 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Crabbea acaulis N.E.Br., Crabbea cirsioides (Nees) Nees, Crabbea nana (Nees) Nees, Crabbea velutina S.Moore)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true"
 ]
}

 The dataset includes 751 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0048730-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.2rfbuv
title: Occurrence Download

description: A dataset containing 61687 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Amazilia tzacatl (de la Llave, 1833)"
 ]
}

 The dataset includes 61687 records from 146 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005393-171025204727650/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48786/inoc.2024.12
title: Multi-depot split delivery of batches
DOI: 10.48786/inoc.2024.13
title: A Guided Insertion Mechanism for Solving the Dynamic Large-Scale Dial-a-Ride Problem
DOI: 10.48786/inoc.2024.14
title: An Improved Single-Commodity Flow Formulation for the Vehicle Routing Problem with a Heterogeneous Fleet
DOI: 10.15468/dl.ou4sar
title: Occurrence Download

description: A dataset containing 307 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Apogon binotatus (Poey, 1867)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 307 records from 25 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045785-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48786/inoc.2024.02
title: Ensemble pruning via an integer programming approach with diversity constraints
DOI: 10.15468/dl.j9qczm
title: Occurrence Download

description: A dataset containing 344670 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Agrostis stolonifera L.",
 "HasCoordinate is true",
 "Continent is Europe",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2000",
 "CoordinateUncertaintyInMeters is less than 10000"
 ]
}

 The dataset includes 344670 records from 930 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005823-240216155721649/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jekdk0
title: Occurrence Download

description: A dataset containing 7116 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Pterostichus melanarius (Illiger, 1798)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 7116 records from 114 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005396-160526112335914/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.25386827.v1
title: Covariance Matrix Estimation for High-Throughput Biomedical Data with Interconnected Communities

description: Estimating a covariance matrix is central to high-dimensional data analysis. Empirical analyses of high-dimensional biomedical data, including genomics, proteomics, microbiome, and neuroimaging, among others, consistently reveal strong modularity in the dependence patterns. In these analyses, intercorrelated high-dimensional biomedical features often form communities or modules that can be interconnected with others. While the interconnected community structure has been extensively studied in biomedical research (e.g., gene co-expression networks), its potential to assist in the estimation of covariance matrices remains largely unexplored. To address this gap, we propose a procedure that leverages the commonly observed interconnected community structure in high-dimensional biomedical data to estimate large covariance and precision matrices. We derive the uniformly minimum variance unbiased estimators for covariance and precision matrices in closed forms and provide theoretical results on their asymptotic properties. Our proposed method enhances the accuracy of covariance- and precision-matrix estimation and demonstrates superior performance compared to the competing methods in both simulations and real data analyses.
DOI: 10.15468/dl.gjwslq
title: Occurrence Download

description: A dataset containing 844 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Apogon maculatus (Poey, 1860)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 844 records from 36 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0045789-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.30102640
title: Raw RT-PCR data for Molecular characterization of neuromedin U receptors, <i>nmur</i><i>1</i><i> </i>and <i>nmur</i><i>2</i> and their differential responses to the anorexic effect of NMU in central and peripheral tissues of Siberian sturgeon (<i>Acipenser baerii</i> Brandt).

description: This study used Siberian sturgeon as the experimental animal. We Cloned the CDS sequences of nmur1 and nmur2 and detected their organizational distribution patterns. Then, we clarified their response patterns to different nutritional states of the body, and their roles in the appetite suppression process of NMU-25. In pre-prandial experiment, Siberian sturgeons (n=84) were randomly dispersed in 7 groups. Five of the treatments were fasted at a specific time point (14:00), while the other two treatments fed at the feeding time point (14:00). Randomly collect 9 fish from each treatment, including five fasted treatments at -3 h (11:00), -1 h (13:00), 0 h (14:00), +1 h (15:00) and +3 h (17:00) and the control of above treatments that is two fed treatments at +1 h (15:00) and +3 h (17:00). hypothalamus, valve intestine, and duodenum were collected.In fasting and refeeding experiment, Siberian sturgeons (n=180) were randomly dispersed in 15 group. 6 unfed groups were sampled on different fasting days 1, 3, 6, 10, 15, and 17day, respectively. Simultaneously, 6 fed groups were sampled on 1, 3, 6, 10, 15, and 17day, which served as control for respective days. The remaining 3 groups were refed daily between days 10to 17 of fasting and sampled on 10, 15, and 17 day (re-fed for 1, 5, and 7 days). hypothalamus and liver were sampled.In long-term i.p. and i.c.v. injection experiment, Siberian sturgeons (n=48) were randomly divided into 4 groups. The first group received long-term i.p. injection with NMU-25 (100 ng/g BW), and the second group was injected with saline for 7 days as control. Similarly, the third group received once i.c.v. injection with NMU-25 (10 pmol/g BW ), and the last group was injected with saline as control. Hypothalamus and valve intestine were sampled.The genes tested in this study are nmur1 and nmur2. The qPCR instrument brand used is Bio rad.