cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.18167/dvn1/c5pu01
title: Lexiques en français sur la sécurité alimentaire et les crises

description: Les données sont constituées de 3 lexiques en français sur la sécurité alimentaire et les crises adaptés au contexte du Burkina Faso sur la période 2009-2018 créés par plusieurs experts de la sécurité alimentaire: un lexique généraliste sur la sécurité alimentaire constitué de 21 expressions (LEXG); un lexique détaillé sur la sécurité alimentaire constitué de 86 expressions (LEXA); un lexique détaillé sur les crises constitué de 85 expressions (LEXC)
DOI: 10.5281/zenodo.10013686
title: Digital Elevation Models (DEMs) after the Shovi (Caucasus) debris flow, 13 August 2023

description: ===========================
Introduction
On 4 August 2023, a large debris flow struck the mountain resort town of Shovi in Georgia. More on this event here : https://eos.org/thelandslideblog/the-4-august-2023-debris-flow-at-shovi-in-georgia
Two Pléiades stereo images were acquired after the event on 13 August 2023, thanks to the activation of the CIEST² (https://www.poleterresolide.fr/ciest-2-nouvelle-generation-2/) scheme.
We share here the Pléiades DEMs derived from these images. The collection includes four files:
Shovi_2023-08-13a_DEM_2m.tif
Shovi_2023-08-13a_DEM_20m.tif
Shovi_2023-08-13b_DEM_2m.tif
Shovi_2023-08-13b_DEM_20m.tif
===========================
Methods
The Pléiades stereo-images were processed using the Ames Stereo Pipeline (ASP, Beyer et al., 2018), yielding a DEM in 2x2m and 20x20 m GSD and an orthoimage in 0.5x0.5m GSD. The processing was done using as only input the stereo-images and their orientation information, as Rational Polynomial Coefficients (RPCs). The parallel_stereo routine performs all the steps needed in the correlation of the stereo-images, yielding a pointcloud which is then interpolated using the routine point2dem. We used the semi global matching algorithm and the set of processing parameters from Deschamps-Berger et al. (2020)
Beyer, R. A., Alexandrov, O., and McMichael, S.: The Ames Stereo Pipeline: NASA's Open Source Software for Deriving and Processing Terrain Data, Earth and Space Science, 5, 537–548, https://doi.org/10.1029/2018EA000409, 2018.
Deschamps-Berger, C., Gascoin, S., Berthier, E., Deems, J., Gutmann, E., Dehecq, A., Shean, D., and Dumont, M.: Snow depth mapping from stereo satellite imagery in mountainous terrain: evaluation using airborne laser-scanning data, The Cryosphere, 14, 2925–2940, https://doi.org/10.5194/tc-14-2925-2020, 2020.===========================
Data Specifications:
Cartographic projection: UTM zone 38N (EPSG:32638)
Origin of Elevation: meters above WGS84 ellipsoid
Raster data format: GeoTIFF
NoData value : -9999
Pléiades dataset includes only DEMs because a licence needs to be signed with CNES to access Pléiades imagery. Please contact the authors for further information on this.
===========================
Acknowledgements: 
Pléiades images were provided under the CIEST² initiative (CIEST2 is part of ForM@Ter (https://en.poleterresolide.fr/) (Pléiades © CNES 2023, distribution AIRBUS DS)
===========================
Dataset Attribution:
This dataset is licensed under a Creative Commons CC BY-NC 4.0 International License (Attribution-NonCommercial).
===========================
Citation:
Please cite this repository as described below:
Etienne Berthier. (2023). Digital Elevation Models (DEMs) after the Shovi flood (Caucasus), 13 August 2023
DOI: 10.5281/zenodo.10013685
title: Digital Elevation Models (DEMs) after the Shovi (Caucasus) debris flow, 13 August 2023

description: ===========================
Introduction
On 4 August 2023, a large debris flow struck the mountain resort town of Shovi in Georgia. More on this event here : https://eos.org/thelandslideblog/the-4-august-2023-debris-flow-at-shovi-in-georgia
Two Pléiades stereo images were acquired after the event on 13 August 2023, thanks to the activation of the CIEST² (https://www.poleterresolide.fr/ciest-2-nouvelle-generation-2/) scheme.
We share here the Pléiades DEMs derived from these images. The collection includes four files:
Shovi_2023-08-13a_DEM_2m.tif
Shovi_2023-08-13a_DEM_20m.tif
Shovi_2023-08-13b_DEM_2m.tif
Shovi_2023-08-13b_DEM_20m.tif
===========================
Methods
The Pléiades stereo-images were processed using the Ames Stereo Pipeline (ASP, Beyer et al., 2018), yielding a DEM in 2x2m and 20x20 m GSD and an orthoimage in 0.5x0.5m GSD. The processing was done using as only input the stereo-images and their orientation information, as Rational Polynomial Coefficients (RPCs). The parallel_stereo routine performs all the steps needed in the correlation of the stereo-images, yielding a pointcloud which is then interpolated using the routine point2dem. We used the semi global matching algorithm and the set of processing parameters from Deschamps-Berger et al. (2020)
Beyer, R. A., Alexandrov, O., and McMichael, S.: The Ames Stereo Pipeline: NASA's Open Source Software for Deriving and Processing Terrain Data, Earth and Space Science, 5, 537–548, https://doi.org/10.1029/2018EA000409, 2018.
Deschamps-Berger, C., Gascoin, S., Berthier, E., Deems, J., Gutmann, E., Dehecq, A., Shean, D., and Dumont, M.: Snow depth mapping from stereo satellite imagery in mountainous terrain: evaluation using airborne laser-scanning data, The Cryosphere, 14, 2925–2940, https://doi.org/10.5194/tc-14-2925-2020, 2020.===========================
Data Specifications:
Cartographic projection: UTM zone 38N (EPSG:32638)
Origin of Elevation: meters above WGS84 ellipsoid
Raster data format: GeoTIFF
NoData value : -9999
Pléiades dataset includes only DEMs because a licence needs to be signed with CNES to access Pléiades imagery. Please contact the authors for further information on this.
===========================
Acknowledgements: 
Pléiades images were provided under the CIEST² initiative (CIEST2 is part of ForM@Ter (https://en.poleterresolide.fr/) (Pléiades © CNES 2023, distribution AIRBUS DS)
===========================
Dataset Attribution:
This dataset is licensed under a Creative Commons CC BY-NC 4.0 International License (Attribution-NonCommercial).
===========================
Citation:
Please cite this repository as described below:
Etienne Berthier. (2023). Digital Elevation Models (DEMs) after the Shovi flood (Caucasus), 13 August 2023
DOI: 10.5281/zenodo.10040037
title: Supplemental_deposit_High_turnover_of_de_novo_transcripts_in_Drosophila_melanogaster

description: Supplemental deposit, linked to github :
https://github.com/AnnaGrBio/Transcripts-gain-and-loss
DOI: 10.5281/zenodo.7681078
title: Supplemental_deposit_High_turnover_of_de_novo_transcripts_in_Drosophila_melanogaster

description: Supplemental deposit, linked to github :
https://github.com/AnnaGrBio/Transcripts-gain-and-loss
DOI: 10.5281/zenodo.7681079
title: Supplemental_deposit_High_turnover_of_de_novo_transcripts_in_Drosophila_melanogaster

description: Supplemental deposit
DOI: 10.5281/zenodo.8398301
title: Supplemental_deposit_High_turnover_of_de_novo_transcripts_in_Drosophila_melanogaster

description: Supplemental deposit
DOI: 10.6096/aeroclo.1804
title: AEROCLO-sA PEGASUS SO2 mixing ratio

description: Aerosol sulphur dioxide mixing ratio measured at the surface level by the PEGASUS mobile platform located at the SANUMARC research center in Henties Bay, Namibia.
DOI: 10.5281/zenodo.10026166
title: JG2.1.0 Basic Resource Files
DOI: 10.5281/zenodo.10026165
title: JG2.1.0 Basic Resource Files
DOI: 10.5281/zenodo.10035718
title: JG2.1.0-Based GATK Resource Bundle
DOI: 10.5281/zenodo.10035717
title: JG2.1.0-Based GATK Resource Bundle
DOI: 10.5281/zenodo.10032399
title: JG2.1.0-Based cytoBand file
DOI: 10.5281/zenodo.10032398
title: JG2.1.0-Based cytoBand file
DOI: 10.5281/zenodo.10032401
title: JG2.1.0-Based SnpEff database
DOI: 10.5281/zenodo.10032400
title: JG2.1.0-Based SnpEff database
DOI: 10.5519/qd.c9zzimyv
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.5281/zenodo.10032403
title: JG2.1.0-Based ANNOVAR database
DOI: 10.5281/zenodo.10032402
title: JG2.1.0-Based ANNOVAR database
DOI: 10.5281/zenodo.10032408
title: JG2.1.0-Based dbNSFP database
DOI: 10.5281/zenodo.10032407
title: JG2.1.0-Based dbNSFP database
DOI: 10.5281/zenodo.10026338
title: JG2.1.0-Based ClinVar database
DOI: 10.5281/zenodo.10026337
title: JG2.1.0-Based ClinVar database
DOI: 10.5281/zenodo.10040055
title: Dataset related to article "Stereotactic Body Radiation Therapy for Lung Metastases From Sarcoma in Oligometastatic Patients: A Phase 2 Study"

description: This record contains raw data related to article "Stereotactic Body Radiation Therapy for Lung Metastases From Sarcoma in Oligometastatic Patients: A Phase 2 Study"
Abstract
Purpose: The lung is the most frequent site of metastasis in patients with sarcoma. Pulmonary metastasectomy is the most common treatment performed. Stereotactic body radiation therapy (SBRT) has proven to be a potential alternative to resection. This prospective phase 2 study aimed to assess the role of SBRT for patients with lung metastases.
Methods and materials: Adult patients with up to 4 lung metastases (LMs) ≤5 cm in diameter and unsuitable for surgery were included. Dose prescription was based on site and size: 30 Gy/1 fraction for peripheral lesions ≤10 mm, 60 Gy/3 fractions for peripheral lesions 11 to 20 mm, 48 Gy/4 fractions for peripheral lesions >20 mm, and 60 Gy/8 fractions for central lesions. The primary endpoint was the proportion of treated lesions free from progression at 12 months. Secondary endpoints were disease-free survival (DFS), overall survival (OS), and toxicity.
Results: Between March 2015 and December 2020, 44 patients with a total of 71 LMs were enrolled. Twelve-month local control was 98.5% ± 1.4%, reaching the primary aim; the median DFS time was 12 months (95% CI, 8-16 months), and the 1-, 2-, 3-, 4-, and 5-year PFS rates were 50% ± 7.5%, 19.5% ± 6.6%, 11.7% ± 5.8%, 11.7% ± 5.8%, and 11.7% ± 5.8%, respectively. The median OS time was 49 months (95% CI, 24-49 months), and the 1-, 2-, 3-, 4-, and 5-year OS rates were 88.6% ± 4.7%, 66.7 ± 7.6%, 56.8% ± 8.4%, 53.0% ± 8.6%, and 48.2% ± 9.1%, respectively. Prognostic factors recorded as significantly affecting survival were age, grade of primary sarcoma, interval time from diagnosis to occurrence of LMs, and number of LMs. No severe pulmonary toxicity (grade 3-4) occurred.
Conclusions: The study found a local control of LMs in almost all patients treated, with negligible toxicity. Survival was also highly satisfactory. Well-designed randomized trials comparing surgery with SBRT for patients with metastatic lung sarcoma are needed to confirm these preliminary data
DOI: 10.5281/zenodo.10040054
title: Dataset related to article "Stereotactic Body Radiation Therapy for Lung Metastases From Sarcoma in Oligometastatic Patients: A Phase 2 Study"

description: This record contains raw data related to article "Stereotactic Body Radiation Therapy for Lung Metastases From Sarcoma in Oligometastatic Patients: A Phase 2 Study"
Abstract
Purpose: The lung is the most frequent site of metastasis in patients with sarcoma. Pulmonary metastasectomy is the most common treatment performed. Stereotactic body radiation therapy (SBRT) has proven to be a potential alternative to resection. This prospective phase 2 study aimed to assess the role of SBRT for patients with lung metastases.
Methods and materials: Adult patients with up to 4 lung metastases (LMs) ≤5 cm in diameter and unsuitable for surgery were included. Dose prescription was based on site and size: 30 Gy/1 fraction for peripheral lesions ≤10 mm, 60 Gy/3 fractions for peripheral lesions 11 to 20 mm, 48 Gy/4 fractions for peripheral lesions >20 mm, and 60 Gy/8 fractions for central lesions. The primary endpoint was the proportion of treated lesions free from progression at 12 months. Secondary endpoints were disease-free survival (DFS), overall survival (OS), and toxicity.
Results: Between March 2015 and December 2020, 44 patients with a total of 71 LMs were enrolled. Twelve-month local control was 98.5% ± 1.4%, reaching the primary aim; the median DFS time was 12 months (95% CI, 8-16 months), and the 1-, 2-, 3-, 4-, and 5-year PFS rates were 50% ± 7.5%, 19.5% ± 6.6%, 11.7% ± 5.8%, 11.7% ± 5.8%, and 11.7% ± 5.8%, respectively. The median OS time was 49 months (95% CI, 24-49 months), and the 1-, 2-, 3-, 4-, and 5-year OS rates were 88.6% ± 4.7%, 66.7 ± 7.6%, 56.8% ± 8.4%, 53.0% ± 8.6%, and 48.2% ± 9.1%, respectively. Prognostic factors recorded as significantly affecting survival were age, grade of primary sarcoma, interval time from diagnosis to occurrence of LMs, and number of LMs. No severe pulmonary toxicity (grade 3-4) occurred.
Conclusions: The study found a local control of LMs in almost all patients treated, with negligible toxicity. Survival was also highly satisfactory. Well-designed randomized trials comparing surgery with SBRT for patients with metastatic lung sarcoma are needed to confirm these preliminary data
DOI: 10.5281/zenodo.10032300
title: JG2.1.0 Genmap index
DOI: 10.5281/zenodo.10032299
title: JG2.1.0 Genmap index
DOI: 10.5281/zenodo.10032173
title: JG2.1.0 Gene mappability
DOI: 10.5281/zenodo.10032172
title: JG2.1.0 Gene mappability
DOI: 10.5281/zenodo.10032471
title: JG2.1.0 STAR index
DOI: 10.5281/zenodo.10032470
title: JG2.1.0 STAR index
DOI: 10.18167/dvn1/yrmq52
title: Compositional analysis of organic resources with animal, agro-industrial, and urban origins collected from different regions of Madagascar

description: This dataset is a compilation of chemical analysis of organic wastes, so called organic resources (OR) collected during different studies in Madagascar (2009-2012). These materials include animal manures (piglet, pig, barrow, sow, broiler, chick, hen, cow, heifer, zebu bull, rabbit, pigeon, and sheep); urban wastes (raw municipal waste, composted municipal waste, vermicompost); agro-industrial by-products (bone, horn, blood, shell, cotton cake, peanut cake, groundnut cake, and tobacco ash) and mixed wastes (mixtures of animal, urban and/or agro-industrial origins). Chemical properties were analysed following laboratory standards.
DOI: 10.18167/dvn1/lsyfjr
title: Dexi model for: "Improved forecasting of coffee leaf rust by qualitative modeling: design and expert validation of the ExpeRoya model"

description: Dexi version of ExpeRoya model. The model structure is a tree that aggregates variables in a hierarchical way according to available knowledge on coffee leaf rust (CLR) and coffea arabica (the host) dynamics. ExpeRoya integrates 229 multiple interactions that exist within the CLR-coffee pathosystem based on 12 input variables: one incidence monitoring variable; two meteorological variables (temperature and rainfall), four crop management variables (management of shade cover, fungicide application, nutrition and pruning of coffee trees) and five coffee tree characteristics (dates of flowering, beginning and end of harvest, fruit load and cultivar genetic resistance).
DOI: 10.25345/c5k35mq7z
title: MassIVE MSV000093186 - 2022_Corsican_Bryophyta_collection
title: Investigation of chemical composition of Corsican bryophytes collection (60 species) without fatty acid
DOI: 10.6084/m9.figshare.24433843
title: Supplementary Material for: CureGN Pathology Classification and Core Scoring Criteria, Reproducibility, and Clinicopathologic Correlations

description: Introduction: CureGN is an observational cohort study of patients with minimal change disease (MCD), focal segmental glomerulosclerosis (FSGS), membranous nephropathy (MN), or IgA nephropathy (IgAN). We developed a conventional, consensus-based scoring system to document pathologic features for application across multiple pathologists and herein describe the protocol, reproducibility and correlation with clinical parameters at biopsy. Methods: Definitions were established for glomerular, tubular, interstitial and vascular lesions evaluated semi-quantitatively using digitized light microscopy slides and electron micrographs, and reported immunofluorescence. Cases with curated pathology materials as of April 2019 were scored by a randomly assigned pathologist, with at least 10% of cases scored by a second pathologist. Scoring reproducibility was assessed using Gwet’s AC1 statistic and correlations with clinical variables were performed. Results: Of 800 scored biopsies (143 MCD, 185 FSGS, 206 MN, 266 IgA), 94 were scored twice (11.8%). Of 60 pathology features, 46 (76.7%) demonstrated excellent (AC1&gt;0.8), and 12 (20.0%) had good (AC1 0.6-0.8) reproducibility. Mesangial hypercellularity scored as absent, focal or diffuse had moderate reproducibility (AC1=0.58), but good reproducibility (ACI=0.71) when scored as absent or focal vs diffuse. The percent glomeruli scored as no lesions had fair reproducibility (AC1=0.34). Strongest correlations between pathologic features and clinical characteristics at biopsy included interstitial inflammation, interstitial fibrosis and tubular atrophy with eGFR, foot process effacement with UPCR, and active crescents with hematuria. Conclusions: Most scored pathology features showed excellent reproducibility, demonstrating consistency for these features across multiple pathologists. Correlations between certain pathologic features and expected clinical characteristics show the value of this approach for future studies on clinicopathologic correlations and biomarker discovery.
DOI: 10.6084/m9.figshare.24433843.v1
title: Supplementary Material for: CureGN Pathology Classification and Core Scoring Criteria, Reproducibility, and Clinicopathologic Correlations

description: Introduction: CureGN is an observational cohort study of patients with minimal change disease (MCD), focal segmental glomerulosclerosis (FSGS), membranous nephropathy (MN), or IgA nephropathy (IgAN). We developed a conventional, consensus-based scoring system to document pathologic features for application across multiple pathologists and herein describe the protocol, reproducibility and correlation with clinical parameters at biopsy. Methods: Definitions were established for glomerular, tubular, interstitial and vascular lesions evaluated semi-quantitatively using digitized light microscopy slides and electron micrographs, and reported immunofluorescence. Cases with curated pathology materials as of April 2019 were scored by a randomly assigned pathologist, with at least 10% of cases scored by a second pathologist. Scoring reproducibility was assessed using Gwet’s AC1 statistic and correlations with clinical variables were performed. Results: Of 800 scored biopsies (143 MCD, 185 FSGS, 206 MN, 266 IgA), 94 were scored twice (11.8%). Of 60 pathology features, 46 (76.7%) demonstrated excellent (AC1&gt;0.8), and 12 (20.0%) had good (AC1 0.6-0.8) reproducibility. Mesangial hypercellularity scored as absent, focal or diffuse had moderate reproducibility (AC1=0.58), but good reproducibility (ACI=0.71) when scored as absent or focal vs diffuse. The percent glomeruli scored as no lesions had fair reproducibility (AC1=0.34). Strongest correlations between pathologic features and clinical characteristics at biopsy included interstitial inflammation, interstitial fibrosis and tubular atrophy with eGFR, foot process effacement with UPCR, and active crescents with hematuria. Conclusions: Most scored pathology features showed excellent reproducibility, demonstrating consistency for these features across multiple pathologists. Correlations between certain pathologic features and expected clinical characteristics show the value of this approach for future studies on clinicopathologic correlations and biomarker discovery.
DOI: 10.5281/zenodo.7818326
title: Cryogenic hyperabrupt strontium titanate varactors for sensitive reflectometry of quantum dots

description: Supplementary Data for:


"Cryogenic hyperabrupt strontium titanate varactors for sensitive reflectometry of quantum dots"


Rafael S. Eggli, Simon Svab,Taras Patlatiuk, Dominique Trüssel, Miguel J. Carballido, Pierre Chevalier Kwon, Simon Geyer, Ang Li,
Erik P. A. M. Bakkers, Andreas V. Kuhlmann, and Dominik M. Zumbühl
DOI: 10.5281/zenodo.7818325
title: Cryogenic hyperabrupt strontium titanate varactors for sensitive reflectometry of quantum dots

description: Supplementary Data for:


"Cryogenic hyperabrupt strontium titanate varactors for sensitive reflectometry of quantum dots"


Rafael S. Eggli, Simon Svab,Taras Patlatiuk, Dominique Trüssel, Miguel J. Carballido, Pierre Chevalier Kwon, Simon Geyer, Ang Li,
Erik P. A. M. Bakkers, Andreas V. Kuhlmann, and Dominik M. Zumbühl
DOI: 10.5517/ccdc.csd.cc2dnkd1
title: CCDC 2224293: Experimental Crystal Structure Determination

description: Related Article: Fengya He|2022|CSD Communication|||
description: Related Article: Fengya He, Ziyi Sun, Chenyue Li, Zibin Jiang, Hui Miao, Qinglin Li, Chenggui Wu|2023|Org.Biomol.Chem.|21|8273|doi:10.1039/D3OB01354E
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2dyrx1
title: CCDC 2233144: Experimental Crystal Structure Determination

description: Related Article: Fengya He, Ziyi Sun, Chenyue Li, Zibin Jiang, Hui Miao, Qinglin Li, Chenggui Wu|2023|Org.Biomol.Chem.|21|8273|doi:10.1039/D3OB01354E
description: Related Article: Fengya He|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.18167/dvn1/cmyeva
title: A dataset on occurence of ants and abundance of Dermaptera and banana weevils in bare soil and cover croppped banana plantations in Martinique

description: The dataset corresponds to a 3-years survey of an ant community, Dermaptera, and C. sordidus in bare soil and cover cropped banana fields in Martinique.
DOI: 10.6084/m9.figshare.24316957
title: Supplementary Material for: Poroid hidradenoma: case report and comprehensive review of the literature

description: Poroid hidradenoma (PH) is a rare benign adnexal tumor of eccrine differentiation. It is the rarest of the four described variants of poroid neoplasms. PHs characteristically share a hybrid of the architectural features of the hidradenoma, namely tumor cells are entirely intradermal with both solid and cystic components, and the cytologic characteristics of the poroid neoplasms, containing predominantly poroid and cuticular cells. Many published reports of PH since its original discovery in 1990 state that “very few” cases of PH can be found in the literature. Here we have identified a total of 75 published accounts of PH, including the case presented here, as well as the associated patient demographics, lesion characteristics, treatment, and outcomes. We suggest that while uncommon, PH is likely not exceptionally rare and could be an underreported diagnosis.