cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5517/ccdc.csd.cc27w3fp
title: CCDC 2081632: Experimental Crystal Structure Determination

description: Related Article: Er-Meng Han, Wei-Dong Yu, Bo Wang, Jun Yan, Xiao-Yi Yi, Chao Liu|2022|Inorg.Chem.|61|2903|doi:10.1021/acs.inorgchem.1c03626
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: 10.5281/zenodo.7708374
title: Input files to run free subduction model by Keum and So (2023), submitted to Tectonophysics.

description: This release contains a series of Lagrangian free subduction models, and MATLAB script used to create the initial temperature condition.
DOI: 10.5281/zenodo.7708373
title: Input files to run free subduction model by Keum and So (2023), submitted to Tectonophysics.

description: This release contains a series of Lagrangian free subduction models, and MATLAB script used to create the initial temperature condition.
DOI: 10.5519/qd.4no8nvaa
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (131 records)
DOI: 10.6084/m9.figshare.22232056
title: Bulk and single-cell RNA-seq data

description: The bulk and single-cell RNA-seq data of DC lineage cells sorted from blood, spleen and bone marrow from mice.
DOI: 10.5281/zenodo.7428239
title: EUPPBench postprocessing benchmark dataset - station data

description: <strong>!!!------------------------------------------------------------------------------------------------------------------------------------!!!</strong> <strong><em>Important communication</em> Some station data of this version are corrupted. Do not use this version of the dataset but the new one:</strong> https://doi.org/10.5281/zenodo.7708362 <strong>!!!------------------------------------------------------------------------------------------------------------------------------------!!!</strong> The EUMETNET EUPPBench postprocessing benchmark station data is an analysis-ready dataset to perform benchmarks of different postprocessing methods on a common dataset. This dataset is using the Zarr format. Please look at the Zarr documentation to see how to load and access the data. The documentation of the dataset is available on https://eupp-benchmark.github.io/EUPPBench-doc/ . The official way to download the dataset is through the climetlab EUMETNET postprocessing benchmark plugin. This Zenodo storage aims to preserve the dataset for the long time. Please read the LICENSE file for more information on the data licenses. <strong>Installation procedure</strong> Download the the dataset in a given folder, and on a Linux (or mac OS) terminal, and still in this folder, enter the following command <pre><code class="language-bash">unzip EUPPBench-stations.zip rm EUPPBench-stations.zip</code></pre> This will unpack the dataset. You need at least 35Gb of free space on your disk to perform this operation. <strong>Citation</strong> If you use this dataset for a publication, please cite the dataset article: Demaeyer, J., Bhend, J., Lerch, S., Primo, C., Van Schaeybroeck, B., Atencia, A., Ben Bouallègue, Z., Chen, J., Dabernig, M., Evans, G., Faganeli Pucer, J., Hooper, B., Horat, N., Jobst, D., Merše, J., Mlakar, P., Möller, A., Mestre, O., Taillardat, M., and Vannitsem, S.: The EUPPBench postprocessing benchmark dataset v1.0, Earth Syst. Sci. Data Discuss. [preprint], https://doi.org/10.5194/essd-2022-465, in review, 2023. <strong>Remark</strong> You might also be interested by the gridded data part of this dataset also available on Zenodo here: https://doi.org/10.5281/zenodo.7429236 .
DOI: 10.5519/qd.wepnk5oj
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (29 records)
DOI: 10.5519/qd.65dkrzpy
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.5281/zenodo.7708432
title: Dataset and scripts for reproducing figures and analyses used in "An advanced towed CTD chain for physical-biological high resolution in situ ocean surface measurements"

description: This archive includes the data, python scripts, and directory structure necessary to reproduce the figures and analyses used in the manuscript with the title "An advanced towed CTD chain for physical-biological high resolution in situ ocean surface measurements"
description: To explore the dataset and reproduce the figures used in the manuscript download the archive, unpack it and follow the advice in the README file.
DOI: 10.5281/zenodo.7708431
title: Dataset and scripts for reproducing figures and analyses used in "An advanced towed CTD chain for physical-biological high resolution in situ ocean surface measurements"

description: This archive includes the data, python scripts, and directory structure necessary to reproduce the figures and analyses used in the manuscript with the title "An advanced towed CTD chain for physical-biological high resolution in situ ocean surface measurements"
description: To explore the dataset and reproduce the figures used in the manuscript download the archive, unpack it and follow the advice in the README file.
DOI: 10.5281/zenodo.7701483
title: PV+ mouse dataset

description: Data-set supporting our publication. The raw data was converted using the proposed pipeline and this data-set can be used to test the stitching, segmentation and analysis proposed in the paper.
DOI: 10.5281/zenodo.7701482
title: PV+ mouse dataset

description: Data-set supporting our publication. The raw data was converted using the proposed pipeline and this data-set can be used to test the stitching, segmentation and analysis proposed in the paper.
DOI: 10.5281/zenodo.7576546
title: Jeu de données Unimarc entités - liste de résultats

description: Suite à des expérimentations réalisées à partir du jeu de données Unimarc entités du groupe Systèmes et Données de la Transition bibliographique, expérimentations documentées sur le blog https://bibliotheques.wordpress.com et récupérables sur Github (https://github.com/Lully/metadata_notebooks/tree/main/UnimarcLRM et https://github.com/Lully/metadata_notebooks/tree/recherche/UnimarcLRM), voici un lot de pages HTML qui imitent une liste de résultats (fichier short_results.html) avec navigation vers les notices détaillées. C'est un état intermédiaire du travail, présenté en journée plénière des groupes de la Transition bibliographique le 24 janvier 2023.
DOI: 10.5281/zenodo.7633741
title: Jeu de données Unimarc entités - liste de résultats

description: Suite à des expérimentations réalisées à partir du jeu de données Unimarc entités du groupe Systèmes et Données de la Transition bibliographique, expérimentations documentées sur le blog https://bibliotheques.wordpress.com et récupérables sur Github (https://github.com/Lully/metadata_notebooks/tree/main/UnimarcLRM et https://github.com/Lully/metadata_notebooks/tree/recherche/UnimarcLRM), voici un lot de pages HTML qui imitent une liste de résultats (fichier short_results_o.html) avec navigation vers les notices détaillées. C'est un état intermédiaire du travail, présenté en journée plénière des groupes de la Transition bibliographique le 24 janvier 2023. Le fichier contient un ensemble de fichiers HTML qui sont les notices détaillées, liées entre elles ; ainsi que des fichiers JSON, qui sont ces mêmes notices en JSON, donnant à voir la manière dont elles sont utilisées par le programme. Il est possible de commencer la navigation en ouvrant le fichier form.html, qui contient des formulaires de recherche. Ces formulaires ne fonctionnent pas mais "miment" le fonctionnement d'une recherche en affichant une liste de résultats. 2 affichages de listes de résultats sont possibles : par oeuvres et par expressions.
DOI: 10.5281/zenodo.7576545
title: Jeu de données Unimarc entités - liste de résultats

description: Suite à des expérimentations réalisées à partir du jeu de données Unimarc entités du groupe Systèmes et Données de la Transition bibliographique, expérimentations documentées sur le blog https://bibliotheques.wordpress.com et récupérables sur Github (https://github.com/Lully/metadata_notebooks/tree/main/UnimarcLRM et https://github.com/Lully/metadata_notebooks/tree/recherche/UnimarcLRM), voici un lot de pages HTML qui imitent une liste de résultats (fichier short_results_o.html) avec navigation vers les notices détaillées. C'est un état intermédiaire du travail, présenté en journée plénière des groupes de la Transition bibliographique le 24 janvier 2023. Le fichier contient un ensemble de fichiers HTML qui sont les notices détaillées, liées entre elles ; ainsi que des fichiers JSON, qui sont ces mêmes notices en JSON, donnant à voir la manière dont elles sont utilisées par le programme. Il est possible de commencer la navigation en ouvrant le fichier form.html, qui contient des formulaires de recherche. Ces formulaires ne fonctionnent pas mais "miment" le fonctionnement d'une recherche en affichant une liste de résultats. 2 affichages de listes de résultats sont possibles : par oeuvres et par expressions. Autant que possible, si on choisit l'affichage par expressions, on doit rester dans des expressions (fond vert) ; idem pour l'affichage par oeuvres (fond rouge), mais ce n'est pas complètement cohérent encore. Un billet de blog sur https://bibliotheques.wordpress.com rend compte de ce projet
DOI: 10.5281/zenodo.7642548
title: Jeu de données Unimarc entités - liste de résultats

description: Suite à des expérimentations réalisées à partir du jeu de données Unimarc entités du groupe Systèmes et Données de la Transition bibliographique, expérimentations documentées sur le blog https://bibliotheques.wordpress.com et récupérables sur Github (https://github.com/Lully/metadata_notebooks/tree/main/UnimarcLRM et https://github.com/Lully/metadata_notebooks/tree/recherche/UnimarcLRM), voici un lot de pages HTML qui imitent une liste de résultats (fichier short_results_o.html) avec navigation vers les notices détaillées. C'est un état intermédiaire du travail, présenté en journée plénière des groupes de la Transition bibliographique le 24 janvier 2023. Le fichier contient un ensemble de fichiers HTML qui sont les notices détaillées, liées entre elles ; ainsi que des fichiers JSON, qui sont ces mêmes notices en JSON, donnant à voir la manière dont elles sont utilisées par le programme. Il est possible de commencer la navigation en ouvrant le fichier form.html, qui contient des formulaires de recherche. Ces formulaires ne fonctionnent pas mais "miment" le fonctionnement d'une recherche en affichant une liste de résultats. 2 affichages de listes de résultats sont possibles : par oeuvres et par expressions. Autant que possible, si on choisit l'affichage par expressions, on doit rester dans des expressions (fond vert) ; idem pour l'affichage par oeuvres (fond rouge), mais ce n'est pas complètement cohérent encore. Un billet de blog sur https://bibliotheques.wordpress.com rend compte de ce projet
DOI: 10.6084/m9.figshare.21909576
title: Equity Reporting in Systematic Reviews of Opioid Treatment of Chronic Non-Cancer Pain with Patient-Reported Outcomes

description: Chronic non-cancer pain can affect a patient’s social life, ability to work, and overall quality of life (QoL). Opioid therapy is often prescribed as therapeutic treatment in chronic pain. Systematic reviews (SRs)—the pinnacle of research quality—are often used in guideline development; however, pain may differ across cultures and communities. Thus, examination of equity reporting in such SR is necessary. This study examines reporting using the PROGRESS (Place of resident, Race, Occupation, Gender, Religion, Education, Socioeconomic status, Social capital)-Plus framework to examine equity within SRs with patient reported outcomes of chronic, non-cancer pain. A systematic search for SRs was conducted, which were evaluated for PROGRESS-Plus items and study characteristics were extracted. Among the 46 included SRs, seven did not include any PROGRESS-Plus items. The most commonly reported items were <i>age</i>, included within 34 SRs, followed by <i>gender</i> (30/46), and <i>duration of pain</i> (14/46). All other items were reported in five or less studies. Our investigation revealed a deficiency in SR’s reporting of equity measures for opioid treatment of chronic non-cancer pain. Given the need to address healthcare disparities among minorities, implementing the PROGRESS-Plus framework may influence QoL and patient-centered care.
DOI: 10.6084/m9.figshare.21909576.v1
title: Equity Reporting in Systematic Reviews of Opioid Treatment of Chronic Non-Cancer Pain with Patient-Reported Outcomes

description: Chronic non-cancer pain can affect a patient’s social life, ability to work, and overall quality of life (QoL). Opioid therapy is often prescribed as therapeutic treatment in chronic pain. Systematic reviews (SRs)—the pinnacle of research quality—are often used in guideline development; however, pain may differ across cultures and communities. Thus, examination of equity reporting in such SR is necessary. This study examines reporting using the PROGRESS (Place of resident, Race, Occupation, Gender, Religion, Education, Socioeconomic status, Social capital)-Plus framework to examine equity within SRs with patient reported outcomes of chronic, non-cancer pain. A systematic search for SRs was conducted, which were evaluated for PROGRESS-Plus items and study characteristics were extracted. Among the 46 included SRs, seven did not include any PROGRESS-Plus items. The most commonly reported items were <i>age</i>, included within 34 SRs, followed by <i>gender</i> (30/46), and <i>duration of pain</i> (14/46). All other items were reported in five or less studies. Our investigation revealed a deficiency in SR’s reporting of equity measures for opioid treatment of chronic non-cancer pain. Given the need to address healthcare disparities among minorities, implementing the PROGRESS-Plus framework may influence QoL and patient-centered care.
DOI: 10.6084/m9.figshare.21989030
title: Supplementary Material for: Association between hypokalemia and albuminuria in a Japanese general population

description: Introduction: Hypokalemia is associated with an increased risk of chronic kidney disease (CKD) and is a risk factor for mortality. Albuminuria is an early manifestation of CKD. We investigated the association between hypokalemia and the prevalence of albuminuria in a Japanese general population. Methods: We analyzed the data of 18,289 subjects who underwent annual health checkups in 2018. We categorized them into four groups according to their concentration of serum potassium (sK), and performed a multivariate logistic regression analysis to determine the association between hypokalemia and the prevalence of albuminuria in this population. Hypokalemia was defined as sK = 3.1–3.5 mEq/L. After dividing the subjects into those with/without renal dysfunction, those with/without hypertension, and those with/without hyperglycemia, we examined the association between hypokalemia and albuminuria in each group. Results: Compared to the subjects with sK = 4.1–4.5 mEq/L, the subjects with hypokalemia had a significantly high prevalence of albuminuria: multivariable-adjusted odds ratio (OR) = 2.70 (95% confidence interval (CI) 1.84–3.96). The subgroup analyses showed the following multivariable-adjusted ORs (95% CIs) of the subjects: without renal dysfunction, 3.08 (2.00–4.73); with renal dysfunction, 2.05 (0.89–4.69); without hypertension, 2.89 (1.36–6.16); with hypertension, 2.60 (1.67–4.04); without hyperglycemia, 2.49 (1.62–3.84); and with hyperglycemia, 3.55 (1.43–8.79). Conclusions: Hypokalemia was significantly associated with the high prevalence of albuminuria in general population. Regardless of the presence/absence of renal dysfunction, hypertension, or hyperglycemia, hypokalemia was positively associated with the prevalence of albuminuria, and the associations were significant except for the subjects with renal dysfunction.
DOI: 10.6084/m9.figshare.21989030.v1
title: Supplementary Material for: Association between hypokalemia and albuminuria in a Japanese general population

description: Introduction: Hypokalemia is associated with an increased risk of chronic kidney disease (CKD) and is a risk factor for mortality. Albuminuria is an early manifestation of CKD. We investigated the association between hypokalemia and the prevalence of albuminuria in a Japanese general population. Methods: We analyzed the data of 18,289 subjects who underwent annual health checkups in 2018. We categorized them into four groups according to their concentration of serum potassium (sK), and performed a multivariate logistic regression analysis to determine the association between hypokalemia and the prevalence of albuminuria in this population. Hypokalemia was defined as sK = 3.1–3.5 mEq/L. After dividing the subjects into those with/without renal dysfunction, those with/without hypertension, and those with/without hyperglycemia, we examined the association between hypokalemia and albuminuria in each group. Results: Compared to the subjects with sK = 4.1–4.5 mEq/L, the subjects with hypokalemia had a significantly high prevalence of albuminuria: multivariable-adjusted odds ratio (OR) = 2.70 (95% confidence interval (CI) 1.84–3.96). The subgroup analyses showed the following multivariable-adjusted ORs (95% CIs) of the subjects: without renal dysfunction, 3.08 (2.00–4.73); with renal dysfunction, 2.05 (0.89–4.69); without hypertension, 2.89 (1.36–6.16); with hypertension, 2.60 (1.67–4.04); without hyperglycemia, 2.49 (1.62–3.84); and with hyperglycemia, 3.55 (1.43–8.79). Conclusions: Hypokalemia was significantly associated with the high prevalence of albuminuria in general population. Regardless of the presence/absence of renal dysfunction, hypertension, or hyperglycemia, hypokalemia was positively associated with the prevalence of albuminuria, and the associations were significant except for the subjects with renal dysfunction.
DOI: 10.57745/dtl14i
title: list_essential_genes_plasmid_14028.txt

description: :unav
DOI: 10.57745/hx4xz4
title: list_essential_genes_chromosome_14028.txt

description: :unav
DOI: 10.57745/gissfz
title: list_essential_insertions_plasmid_14028.txt

description: :unav
DOI: 10.57745/gnxzyq
title: list_essential_insertions_chromosome_14028.txt

description: :unav
DOI: 10.5281/zenodo.7225427
title: Two metabolomics data sets (mouse kidney, mouse plasma), generated for the publication Bignon et al., 2023: "Multiomics reveals multilevel control of renal and systemic metabolism by the renal tubular circadian clock".

description: <strong>Publication: </strong>Bignon Y, Wigger L, Ansermet C, Weger BD, Lagarrigue S, Centeno G, Durussel F, Götz L, Ibberson M, Pradervand S, Quadroni M, Weger M, Amati F, Gachon F, Firsov D. Multiomics reveals multilevel control of renal and systemic metabolism by the renal tubular circadian clock. J Clin Invest. 2023 Mar 2:e167133. doi: 10.1172/JCI167133. Epub ahead of print. PMID: 36862511. <strong>Abstract: </strong> Circadian rhythmicity in renal function suggests rhythmic adaptations in renal metabolism. To decipher the role of the circadian clock in renal metabolism, we studied diurnal changes in renal metabolic pathways using integrated transcriptomic, proteomic, and metabolomic analysis performed on control mice and mice with inducible deletion of the circadian clock regulator Bmal1 in the renal tubule (cKOt). With this unique resource, we demonstrated that ~30% RNAs, ~20% proteins and ~20% metabolites are rhythmic in kidneys of control mice. Several key metabolic pathways including NAD+ biosynthesis, fatty acid transport, carnitine shuttle,and b-oxidation displayed impairments in kidneys of cKOt, resulting in a perturbed mitochondrial activity. Carnitine reabsorption from the primary urine was one of the most impacted processes with a ~50% reduction in plasma carnitine levels and a parallel systemic decrease in tissues carnitine content. This suggests that the circadian clock in the renal tubule controls both kidney and systemic physiology. <strong>This record contains two separate mass-spectrometry metabolomics data sets associated with this study:</strong> Metabolic profile of renal tubules, MS/MS data, Metabolon, Morrisville, NC (N=60) Metabolic profile of blood plasma, MS/MS data, Biocrates, Innsbruck, Austria (N=60) For each data set, original data as received from the platforms and processed data as used in the data analysis are provided. Preprocessing of kidney data included removal of metabolites with more than 80% missing data values, median normalization, imputation and glog2 transformation. Preprocessing of plasma data included filtering of metabolites with any missing data and log2 transformation. Details of data processing are available in the STAR*methods of the publication. <strong>Data sets in other repositories associated with the same study:</strong> Additional data sets (transcriptomics, proteomics) pertaining to the same study have been deposited in public repositories: Gene Expression Omnibus (NCBI GEO), GSE216252 PRIDE Archive (EMBL-EBI), PXD036803
description: This work was supported by the Swiss National Science Foundation research grant 310030-188499 (to D.F.).