cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.27610545
title: Supplementary Material for: Stored Energy and Recovery: A Key Factor in Post-stroke Sarcopenia Management

description: Introduction: This study aimed to determine the effects of Stored Energy on changes in body weight (BW) and skeletal muscle mass (SMM) in patients with post-acute stroke and sarcopenia.　
Methods: This retrospective cohort study included patients with stroke and sarcopenia consecutively admitted to a Japanese rehabilitation hospital between 2015 and 2022. Sarcopenia was diagnosed based on the Asian Working Group for Sarcopenia in 2019 criteria. Total Stored Energy (kcal) was defined as total energy intake minus total energy requirements during hospitalization, and energy requirements were estimated as actual BW (kg) × 30 (kcal/day). Multiple regression analysis was used to adjust for the effects of confounders and to analyze the association between Total Stored Energy divided by length of hospital stay (= Stored Energy) and changes in BW and SMM during hospitalization.
Results: Of the total 556 patients, 193 patients (mean age, 80 years; 43% male) were analyzed. The median (IQR) Total Stored Energy was -1544 (-18524, 16566) kcal and Stored Energy was -23 (-169, 165) kcal/day; 90 patients had Stored Energy &gt; 0. Multiple linear regression analysis showed that Stored Energy was independently and positively associated with BW gain (β=0.412, P&lt;0.001) and SMM gain (β=0.263, P&lt;0.001).
Conclusion: Stored Energy has a positive impact on BW and SMM in patients with post-acute stroke and sarcopenia.
DOI: 10.6084/m9.figshare.27612267
title: Supplementary Material for: Impact of Peritoneal Neutrophil Extracellular Traps on Peritoneal Characteristics and Technical Failure in Patients Undergoing Peritoneal Dialysis

description: Introduction: Peritoneal dialysis (PD) is an effective home therapy for end-stage kidney disease. However, continuous exposure to PD fluids with high glucose concentration and recurrent peritonitis may lead to the activation of cellular and molecular processes of peritoneal damage, including inflammation and fibrosis. In particular, recent studies have highlighted the role of neutrophils in chronic inflammation. This study explores how neutrophil extracellular traps (NETs) affect peritoneal membrane function and contribute to technical failures in PD patients.
Methods: We conducted a prospective observational study involving 250 non-infectious and 30 acute peritonitis patients. NETs were measured using nucleosome and myeloperoxidase DNA levels in PD fluids. Monocyte chemoattractant protein-1 (MCP-1) and matrix metalloproteinase-8 (MMP-8) were also measured to assess peritoneal inflammation and damage. 
Results: A significant increase in peritoneal NETs, as determined by nucleosome and myeloperoxidase DNA levels, was observed in patients with acute peritonitis compared to patients without peritonitis. Even in non-infectious samples, NET levels were widely distributed and closely correlated with levels of MCP-1 and MMP-8. Higher levels of peritoneal NETs were closely associated with increased 4-hour dialysate/peritoneal (D/P) creatinine ratio and 1-hour D/P sodium levels, indicating a higher prevalence of fast transport and limited free water transport. These factors were associated with a higher risk of technical failure. During a mean follow-up of 34 months, 39.2% (98 patients) switched from PD to hemodialysis, with higher NET levels significantly increasing the risk by 1.9 times (95% confidence interval 1.27-2.83, p=0.020).
Conclusions: This study suggests the importance of peritoneal NETs not only as markers of acute inflammation but also as significant immunological predictors of chronic peritoneal membrane inflammation and dysfunction, and as potential risk factors for technical failure.
DOI: 10.6084/m9.figshare.27619842
title: Supplementary Material for: Association of urinary EGF, FABP3, and VCAM1 levels with the progression of early diabetic kidney disease

description: Introduction
Diabetic kidney disease (DKD) is a common cause of chronic kidney disease with around 25-40% of patients with diabetes being affected. The course of DKD is variable and estimated glomerular filtration rate (eGFR) and albuminuria, the currently used clinical markers, are not able to accurately predict the individual disease trajectory, in particular in early stages of the disease. The aim of this study was to assess the association of urine levels of selected protein biomarkers with the progression of DKD at an early stage of disease.
Methods
We measured 22 protein biomarkers using the Mesoscale Discovery platform in 461 urine samples of the PROVALID cohort, an observational study of patients with type 2 diabetes mellitus followed at the primary health care level for a minimum of four years. Odds ratios (OR) were estimated for the effect of marker values above median on fast progression using unadjusted and adjusted logistic regression models. RNA expression at the single cell level in kidney biopsy samples obtained from a cohort of young persons with type 2 diabetes mellitus was in addition determined for markers showing significant associations with disease progression.
Results
Increased urinary levels of epidermal growth factor (EGF) were linked to lower odds of fast progression (defined as annual eGFR decline greater than 2.58 ml/min per 1.73 m2) with an odds ratio (OR) of 0.60 (95% CI 0.46, 0.78). The association with outcome was even stronger when adjusting for a set of 14 baseline clinical parameters including age, biological sex, eGFR, body mass index, albuminuria, and HbA1c. Elevated urinary levels of fatty acid binding protein 3 (FABP3) and vascular cell adhesion molecule 1 (VCAM1) were each significantly associated with fast progression with an OR of 1.44 (95% CI 1.11, 1.87) and an OR of 1.41 (95% CI 1.08, 1.83), respectively. Enriched expression of EGF and FABP3 was observed in distal convoluted tubular cells and VCAM1 in parietal epithelial cells at single cell level from biopsies of patients with early DKD.
Conclusion
In summary we show that lower urinary levels of EGF and higher urinary levels of FABP3 and VCAM1 are significantly associated with DKD progression in early-stage disease.
DOI: 10.6084/m9.figshare.27619944
title: Supplementary Material for: Albumin and platelet loss during the application of CytoSorb® in critically ill patients: a post-hoc analysis of the Cyto-SOLVE trial

description: Introduction: Adsorption devices like CytoSorb® (CS) are increasingly used in critically ill patients. However, potential adverse effects have not been sufficiently investigated. The aim of this post-hoc analysis of the monocentric prospective Cyto-SOLVE study was to examine albumin concentration and platelet count during the application of CS in intensive care unit (ICU) patients with different indications for CS therapy.
Methods: 29 Adult ICU patients receiving continuous kidney replacement therapy and CS application for 12 hours were included. Albumin concentration and platelet count were measured before, during, and after application. Changes in albumin concentration and platelet count were investigated. Since 10/29 patients were substituted with platelets during CS therapy and 20/29 received albumin, subgroup analysis was performed in patients receiving no platelet concentrate and &lt;20g albumin substitution during CS application. The dependent sample t-test was used to detect significant (p&lt;0.05) changes over time and multivariate models were investigated. 
Results: We observed a significant reduction in platelets (p=0.005, mean 14 G/l, 95% confidence interval (CI) 4 - 23G/l) during CS therapy with an even more pronounced drop in those 19 patients without platelet substitution (p=0.001, mean 22G/l, 95% CI 10 – 34). No significant change was detected in the albumin concentration of all patients. However, a significant albumin decrease was observed in those 17 patients with less than 20g albumin substitution during CS therapy (p=0.007, mean 0.17g/dL, 95% CI 0.05 – 0.29). No other potential covariates for the decrease could be identified in a multivariate model.
Conclusion: Since a drop in albumin and platelets occurred during the use of CS, an increased substitution might be necessary. Knowledge of potential side effects is of great importance to prevent harm during the use of extracorporeal procedures. This knowledge should be considered for a reliable risk-benefit assessment in the future.
DOI: 10.13026/tw25-ec93
title: MIMIC-IV-ECG - Diagnostic Electrocardiogram Matched Subset

description: The MIMIC-IV-ECG module contains approximately 800,000 diagnostic
electrocardiograms across nearly 160,000 unique patients. These diagnostic
ECGs use 12 leads and are 10 seconds in length. They are sampled at 500 Hz.
This subset contains all of the ECGs for patients who appear in the MIMIC-IV
Clinical Database. When a cardiologist report is available for a given ECG, it
is also provided. The patients in MIMIC-IV-ECG have been matched against the
MIMIC-IV Clinical Database, making it possible to link to information across
the MIMIC-IV modules.
DOI: 10.15468/dl.5fpg26
title: Occurrence Download

description: A dataset containing 3698 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rhyacophila fasciata Hagen, 1859"
 ]
}

 The dataset includes 3698 records from 66 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004448-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/774k4wrnyt.2
title: Mapping of the stakeholders involved in school catering in the Ile-de-France region (France)

description: This dataset includes a classification (table 1) and a mapping of the stakeholders involved in school catering in the Ile-de-France region (France) (Figure 1, Table 2). 
Based on Clarkson (1995) and da Cunha (2010), the stakeholders are divided into four categories (Table 1).
The internal primary stakeholders are in charge of the school catering service.
The external primary stakeholders are essential for the efficiency and the continuity of the catering service.
The secondary stakeholders can influence or be influenced by the catering service.
The authorities are the decision and policy-making centers.
DOI: 10.18419/darus-2019/6
title: 08_DSC08788.tif
DOI: 10.4121/a7215d4c-767f-49f1-a8bb-da40d0d2b01d
title: Supplemental materials of the publication: Approximating ice sheet – bedrock interaction in Antarctic ice sheet projections

description: This data includes supplemental materials with Table 1 and the 2D relaxation time maps.<br>We simulated the 500-year projections of the Antarctic ice sheet evolution and its contribution to sea level rise using an ice sheet model coupled to different Earth models. This data includes laterally varying mantle relaxation time maps that approximates bedrock uplift and ice sheet evolution from a complex ice sheet - Earth model. This data also includes a table containing a mantle relaxation time computed for each mantle viscosity.
DOI: 10.4121/b5548aaa-4c05-45f7-b0ce-775b83f13e5d
title: Data underlying the publication: Approximating ice sheet – bedrock interaction in Antarctic ice sheet projections

description: We simulated the 500-year projections of the Antarctic ice sheet evolution and its contribution to sea level rise using an ice sheet model coupled to different Earth models. This data contains the ice sheet evolution and sea level projections of multiple model configurations, and the necessary scripts to create the figures in the paper.<br><br>
DOI: 10.4226/92/590abbe6ea3f1
title: Victorian Land Use Information System 2016

description: The Victorian Land Use Information System (VLUIS) 2016 dataset has been created by the Spatial Sciences Group of the Agriculture Victoria Research Division in the Department of Economic Development, Jobs, Transport, and Resources. It covers the entire landmass of Victoria and separately describes the land tenure, land use and land cover across the state at the cadastral parcel level. The methodology for creating the VLUIS is described in Morse-McNabb et al. (2015) with the following notable changes: 1. Land use data provided by the Office of the Valuer-General of Victoria for the 2014 year has been used as a base input. Readily available sources of land use information from government and industry have been used to provide updates to the land tenure and land use components of the 2016 dataset. This update process has not been exhaustive and will continue as new data sources become available. Parcels that have been updated and the source of their updates have been recorded in the attribute table of the dataset. The land cover mapping method remains unchanged to previous versions of the VLUIS. 2. Land parcels within urban areas, mapped in previous versions, have been masked out vastly reducing the size of the 2016 dataset. The data is in the form of an ESRI feature class. To use the VLUIS data correctly it is important to understand the difference between the three components of VLUIS. The Guidelines for land use mapping in Australia: principles, procedures and definitions, Edition 3 published in 2006 by the Commonwealth of Australia, defines them as follows: Land tenure is the form of an interest in land. Some forms of tenure (such as pastoral leases or nature conservation reserves) relate directly to land use and land management practice. Land use means the purpose to which the land cover is committed. Some land uses, such as agriculture, have a characteristic land cover pattern. These usually appear in land cover classifications. Other land uses, such as nature conservation, are not readily discriminated by a characteristic land cover pattern. For example, where the land cover is woodland, land use may be timber production or nature conservation. Land cover refers to the physical surface of the earth, including various combinations of vegetation types, soils, exposed rocks and water bodies as well as anthropogenic elements, such as agriculture and built environments. Land cover classes can usually be discriminated by characteristic patterns using remote sensing. A metadata statement, for the VLUIS product, and ESRI symbology files for the data can be freely downloaded from the VLUIS project page on the Victorian Resources Online website: http://vro.agriculture.vic.gov.au/dpi/vro/vrosite.nsf/pages/vluis
DOI: 10.48577/jpl.98pc5b
title: Publication Dataset for “Bacterial Spore Morphology Remains Highly Recognizable After Exposure to Simulated Enceladus and Europa Surface Conditions"

description: This dataset contains the all the raw data accompanying the publication titled "Bacterial Spore Morphology Remains Highly Recognizable After Exposure to Simulated Enceladus and Europa Surface Conditions". It includes all electron micrographs and raw infrared spectra generated as part of the study.
DOI: 10.5281/zenodo.10036710
title: An LES perturbed parameter ensemble of free-tropospheric cloud-controlling factors on stratocumulus

description: This dataset contains a perturbed parameter ensemble of large-eddy simulations to assess the effect of two free-tropospheric cloud-controlling factors on stratocumulus clouds properties. The simulations were run on the UK Met Office/NERC cloud model (MONC) for the DYCOMS-II RF01 nocturnal stratocumulus case (Stevens et. al., 2005). Each simulation had the same initial conditions except for the two perturbed parameters, which were the jumps in moisture and temperature at the temperature inversion at cloud top. The corresponding analysis code can be found at this dycoms_analysis Github page. 
 
Stevens, B., Moeng, C. H., Ackerman, A. S., Bretherton, C. S., Chlond, A., de Roode, S., . . . Zhu, P. (2005). Evaluation of large-eddy simulations via observations of nocturnal marine stratocumulus. Monthly Weather Review , 133 (6), 1443–1462. doi: 10.1175/MWR2930.1
DOI: 10.5281/zenodo.10794545
title: Data supplement for Oliver et al. (2024) Using shortened spin-ups to speed up ocean biogeochemical model optimisation.

description: Data supplement for Oliver et al. (2024) Using shortened spin-ups to speed up ocean biogeochemical model optimisation.
DOI: 10.5281/zenodo.12682093
title: Dataset for paper on  implementation of Zanna-Bolton-2020 subgrid model to MOM6 GFDL ocean model
DOI: 10.5281/zenodo.13254811
title: Total water storage anomalies (TWSA) and streamflow in the Mississippi River Basin for 01/2003 to 12/2016

description: This dataset includes observations and simulations of total water storage anomalies (TWSA) as well as streamflow that were used in the paper Schulze et al. (2024). The data covers the time period from 01/2003 to 12/2016. The TWSA [in millimeters] are basin averages, while the streamflow data [in cubic meters per second] refer to 68 gauge stations distributed over the Mississippi River Basin. 

The TWSA observations are derived from the Gravity Recovery and Climate Experiment (GRACE) satellite mission. The streamflow observations are provided by the Global Runoff Database (GRDC).

The simulations are uncalibrated model runs of the WaterGAP Global Hydrology Model (WGHM; based on WaterGAP version 2.2d) as well as an Open Loop Simulation and simulations by assimilating GRACE-derived TWSA and/or streamflow observations. The TWSA observations are assimilated on a 4°x4° grid. The streamflow observations are assimilated at (1) all gauge stations with mean observed streamflow above 500 cubic meters per second, (2) all gauge stations with mean observed streamflow between 10 and 100 cubic meters per second, and (3) at randomly selected gauge stations.

All files are packaged into a single ZIP archive for easy access and distribution.

More details about the dataset and the assimilation are provided in:Schulze, K., Kusche, J., Gerdener, H., Döll, P., Müller Schmied, H. (2024): Benefits and Pitfalls of GRACE and Streamflow Assimilation for Improving the Streamflow Simulations of the WaterGAP Global Hydrology Model. Submitted to Journal of Advances in Modeling Earth Systems (JAMES).
DOI: 10.5281/zenodo.13321428
title: Effects of Horizontal Resolution on Long-Range Equatorward Radiation of Near-inertial Internal Waves in Ocean General Circulation Models

description: Effects of Horizontal Resolution on Long-Range Equatorward Radiation of Near-inertial Internal Waves in Ocean General Circulation Models
DOI: 10.5281/zenodo.13754454
title: High-resolution water budget estimates over the Po basin: progress towards digital replicas (OL*, DAg(*), DAs(*), DAgs(*))

description: NASA LIS output with water budget variables at 0.7 km^2 resolution over the Po river basin (Italy) for 2015-2023. Netcdf files for 8 + 2 experiments, described in De Lannoy et al. (2024, JAMES). Because of storage limitations, this upload contains 7 of the 8 experiments with ERA5. The baseline OL experiment without irrigation is on a separate zenodo link (see below).

8 experiments forced with ERA5 meteorology

po_ol_hymap_noirr: (OL) open loop simulation, no irrigation modeling --> 10.5281/zenodo.13768739po_ol_hymap_irr: (OL*) open loop simulation, with irrigation modeling

po_da_hymap_gamma_noirr: (DAg) data assimilation of Sentinel-1 backscatter (VV) for soil moisture updating, no irrigation modelingpo_da_hymap_gamma_irr: (DAg*) data assimilation of Sentinel-1 backscatter (VV) for soil moisture updating, with irrigation modeling

po_da_hymap_snd_noirr: (DAs) data assimilation of Sentinel-1 snow depth retrievals, no irrigation modelingpo_da_hymap_snd_irr: (DAs*) data assimilation of Sentinel-1 snow depth retrievals, with irrigation modeling

po_da_hymap_gamma_snd_noirr: (DAgs) data assimilation of Sentinel-1 backscatter (VV) for soil moisture updating and assimilation of snow depth retrievals, no irrigation modelingpo_da_hymap_gamma_snd_irr: (DAgs*) data assimilation of Sentinel-1 backscatter (VV) for soil moisture updating and assimilation of snow depth retrievals, with irrigation modeling

2 experiments forced with MERRA2 meteorology 

--> These are not provided on Zenodo, because we hit the maximum storage limit. Feel free to reach out to the authors and ask for these data.

po_ol_hymap_noirr_M2: open loop simulation, no irrigation modelingpo_ol_hymap_irr_M2: open loop simulation, with irrigation modeling
DOI: 10.5281/zenodo.13768739
title: High-resolution water budget estimates over the Po basin: progress towards digital replicas (OL): open loop without irrigation

description: NASA LIS output with water budget variables at 0.7 km^2 resolution over the Po river basin (Italy) for 2015-2023. Netcdf files for 8 + 2 experiments, described in De Lannoy et al. (2024, JAMES). Because of storage limitations, this upload only contains the baseline open loop without irrigation (OL), i.e. 1 of the 8 experiments with ERA5. The other 7 experiments are on a separate zenodo link (see below).

8 experiments forced with ERA5 meteorology

po_ol_hymap_noirr: (OL) open loop simulation, no irrigation modeling po_ol_hymap_irr: (OL*) open loop simulation, with irrigation modeling --> 10.5281/zenodo.13754454

po_da_hymap_gamma_noirr: (DAg) data assimilation of Sentinel-1 backscatter (VV) for soil moisture updating, no irrigation modeling --> 10.5281/zenodo.13754454po_da_hymap_gamma_irr: (DAg*) data assimilation of Sentinel-1 backscatter (VV) for soil moisture updating, with irrigation modeling --> 10.5281/zenodo.13754454

po_da_hymap_snd_noirr: (DAs) data assimilation of Sentinel-1 snow depth retrievals, no irrigation modeling --> 10.5281/zenodo.13754454po_da_hymap_snd_irr: (DAs*) data assimilation of Sentinel-1 snow depth retrievals, with irrigation modeling --> 10.5281/zenodo.13754454

po_da_hymap_gamma_snd_noirr: (DAgs) data assimilation of Sentinel-1 backscatter (VV) for soil moisture updating and assimilation of snow depth retrievals, no irrigation modeling --> 10.5281/zenodo.13754454po_da_hymap_gamma_snd_irr: (DAgs*) data assimilation of Sentinel-1 backscatter (VV) for soil moisture updating and assimilation of snow depth retrievals, with irrigation modeling --> 10.5281/zenodo.13754454

2 experiments forced with MERRA2 meteorology 

--> These are not provided on Zenodo, because we hit the maximum storage limit. Feel free to reach out to the authors and ask for these data.

po_ol_hymap_noirr_M2: open loop simulation, no irrigation modelingpo_ol_hymap_irr_M2: open loop simulation, with irrigation modeling
DOI: 10.5281/zenodo.13820419
title: Data for "Impact of the Out-of-Plane Flow Shear on Magnetic Reconnection at the Flanks of Earth's Magnetopause"

description: Data for Figures 3-8 in the paper (data for Figures 5 has been updated on 2024-09-20). The data is compatible with all data-analysis software. Here are the guidelines for reading and visualizing the data:

(1) The filenames "noshear", "MA0p7", and "MA2p3" correspond to the simulation runs with no flow shear, Mach number M_A=0.7 flow shear, and M_A=2.3 flow shear.

(2) The "upper" and "lower" mean upper and lower current sheet, corresponding to dusk-side and dawn-side reconnection respectively. For the "noshear" case, only the "upper" is considered.

(3) Each data file (*.dat) is written in ASCII format and has multiple columns. The first row is the header.



The first column is always the x-coordinates of the figure. 

For the line plots, all columns starting from the second column are the y-coordinates for different variables. The variables names can be found at the header. 

For the 2D image plots, the second column is the y-coordinates, and the third column is the value of the variable at a given (x,y) location. 


(4) The files "fig4_*_field_*.dat" are the magnetic potential in the x-y domain. The contour of this potential gives the in-plane field line configurations.
DOI: 10.5281/zenodo.13841357
title: Experimental data supporting the paper "Fluorescence from a single-molecule probe directly attached to a plasmonic STM tip"

description: Experimental STM, STS and STML data studying the fluorescent behaviour of a PTCDA molecule attached to the metallic apex of a scanning tunneling microscope.

 

Treated source data of all Figures included in the publication.