cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/jc469bc5mv.3
title: Data for: Molecular biomarker responses in the freshwater mussel Anodonta anatina exposed to an industrial wastewater effluent

description: Data for the paper 'Molecular biomarker responses in the freshwater mussel Anodonta anatina exposed to an industrial wastewater effluent'. The data include our experimental data as well as literature datasets used for toxic unit (TU) calculations.

ABSTRACT: Using a selection of molecular biomarkers, we evaluated responses in freshwater mussels (Anodonta anatina) exposed to effluent from an industrial wastewater treatment facility. The aims of this work were to (1) assess biomarkers of general toxicity under sublethal exposure to an anthropogenic mixture of chemicals, represented by an arbitrary effluent, and (2) evaluate the potential of A. anatina as a bioindicator of pollution. Adult mussels (n = in total 32; 24 males and 8 females) were exposed (96 h) in the laboratory to a fixed dilution of effluent or to a control treatment of standardized freshwater. Metal concentrations were in general higher in the effluent, by an order of magnitude or more, compared to the control. Toxic unit estimates were used as proxies of chemical stress, and Cu, Ni, and Zn were identified as potential major contributors (Cu> Ni > Zn). Six transcriptional (cat, gst, hsp70, hsp90, mt, sod) and two biochemical (AChE, GST) biomarkers were analyzed in two tissues, gills, and digestive glands. Out of the 16 responses (eight biomarkers × two tissues), 14 effect sizes were small (within ± 28 % of control) and differences non-significant (p > 0.05). Results did however show that (1) AChE activity increased by 40% in gills of exposed mussels compared to control, (2) hsp90 expression was 100% higher in exposed female gills compared to control, and (3) three marker signals (AChE in both tissues, and hsp70 in gills) differed between sexes, independent of treatment. Results highlight a need for further investigation of molecular biomarker variability and robustness in A. anatina.

Full reference:
Ekelund Ugge, G.M.O, Jonsson, A. & Berglund, O. Molecular biomarker responses in the freshwater mussel Anodonta anatina exposed to an industrial wastewater effluent. Environ Sci Pollut Res 29, 2158–2170 (2022).
DOI: 10.17632/mkd8fw935c.1
title: Data for: Evaluation of transcriptional biomarkers using a high-resolution regression approach: Concentration-dependence of selected transcripts in copper-exposed freshwater mussels (Anodonta anatina)

description: Data for 'Evaluation of transcriptional biomarkers using a high-resolution regression approach: Concentration-dependence of selected transcripts in copper-exposed freshwater mussels (Anodonta anatina)'. Accepted for publication in Environmental Toxicology and Pharmacology.
DOI: 10.17632/mkd8fw935c.2
title: Data for: Evaluation of transcriptional biomarkers using a high-resolution regression approach: Concentration-dependence of selected transcripts in copper-exposed freshwater mussels (Anodonta anatina)

description: Data for the paper 'Evaluation of transcriptional biomarkers using a high-resolution regression approach: Concentration-dependence of selected transcripts in copper-exposed freshwater mussels (Anodonta anatina)'.

Full reference:
Ekelund Ugge, G.M.O., Jonsson, A., Walstad, A., Berglund, O. (2022). Evaluation of transcriptional biomarkers using a high-resolution regression approach: Concentration-dependence of selected transcripts in copper-exposed freshwater mussels (Anodonta anatina). Environ Toxicol Pharmacol, 90, 103795.
https://doi.org/10.1016/j.etap.2021.103795
DOI: 10.17632/mkd8fw935c.3
title: Data for: Evaluation of transcriptional biomarkers using a high-resolution regression approach: Concentration-dependence of selected transcripts in copper-exposed freshwater mussels (Anodonta anatina)

description: Data for the paper 'Evaluation of transcriptional biomarkers using a high-resolution regression approach: Concentration-dependence of selected transcripts in copper-exposed freshwater mussels (Anodonta anatina)'.

ABSTRACT: We tested concentration-dependence of selected gene transcripts (cat, gst, hsp70, hsp90, mt and sod) for evaluation as biomarkers of chemical stress. Contrary to the common approach of factorial designs and few exposure concentrations, we used regression across a high-resolution concentration series. Specifically, freshwater mussels (Anodonta anatina) were acutely (96 h) exposed to Cu (13 nominal concentrations, measuring 0.13–1 600 µg/L), and transcripts were measured by RT-qPCR. In digestive glands, cat, hsp90 and mt decreased with water Cu (p < 0.05), but response magnitudes saturated at < 2-fold decreases. In gills, gst, hsp70, hsp90 and mt increased with water Cu (p < 0.05). While hsp70, hsp90 and mt exceeded 2-fold increases within the exposure range, high Cu concentrations were required (38–160 µg/L). Although gill responses were generally more robust compared to digestive glands, overall small response magnitudes and moderate sensitivity may set limit for potential application as general biomarkers of chemical stress.

Full reference:
Ekelund Ugge, G.M.O., Jonsson, A., Walstad, A., Berglund, O. (2022). Evaluation of transcriptional biomarkers using a high-resolution regression approach: Concentration-dependence of selected transcripts in copper-exposed freshwater mussels (Anodonta anatina). Environ Toxicol Pharmacol, 90, 103795.
https://doi.org/10.1016/j.etap.2021.103795
DOI: 10.17632/jx88tpg7w8.1
title: Mendeley Data

description: Supplemental methods, figures and RNA-sequencing data for the article: GIP infusion does not affect the white adipose tissue transcriptome but increases hepatic fat content and brown adipose tissue thermogenesis in patients with type 1 diabetes
DOI: 10.17632/5vhym6h3cy.1
title: A comparative characterization of SARS-CoV-2-specific T cells induced by mRNA or Inactive virus COVID-19 Vaccines.  Lim et. al.

description: Supplementary Table 1. Amino acid sequence of SARS-CoV-2 Spike-, Membrane-, Nucleoprotein- and Omicron VOC- peptides used.  Related to Figure 1-7.
DOI: 10.17632/hzv8ph3gfn.1
title: Koo&Park_TSS&AUC evaluation results of SDM modeling

description: This is the data of TSS and AUC values of each model calculated for the ensemble SDM of five plant species, Pittosporum tobira, Raphiolepis indica var. umbellata, Neolitsea sericea, Ilex integra, and Eurya emarginata
DOI: 10.17632/z46cyfd8tz.2
title: Parkin_mediated_mitophagy_is_induced_by_the_probiotics_Saccharomyces_boulardii_and_Lactococcus_lactis

description: Dysfunctional mitochondria are a hallmark feature of neurodegenerative disorders, such as Parkinson’s
disease, and upregulation of Parkin-mediated mitophagy pathways serve to remove unhealthy
mitochondria from cells. Probiotics have been used to alleviate symptoms of Parkinson’s disease and
there is evidence to suggest that they modulate mitochondrial pathways. In this study, we conducted a
screen of 49 probiotics and tested various stages of mitophagy to determine whether any of the
probiotics can upregulate mitophagy in cells sustaining mitochondrial damage. We found that two
probiotics, Saccharomyces boulardii and Lactococcus lactis upregulate mitochondrial Parkin recruitment,
phospho-ubiquitination, and mitofusin degradation. Further, these strains increase lysosomal
degradation of dysfunctional mitochondria in the brain of Drosophila that were subjected to the
mitochondrial toxin paraquat, and also improve longevity and motor function in this Drosophila model of
Parkinson’s disease. These effects occur due to exogenous soluble factors that are released by probiotics
under laboratory conditions. We identified methyl-isoquinoline-6-carboxylate as one such molecule,
which upregulates mitochondrial parkin recruitment, phospho-ubiquitination, mitofusin degradation, and
lysosomal degradation, while restoring motor function in paraquat-treated flies. These data suggest a
novel mechanism that probiotics use to stimulate mitophagy through a Parkin-dependent pathway that
could potentially be utilized to treat neurological diseases at an early stage.
DOI: 10.17632/wkhfgzcdx2.1
title: Comorbidities in patients with generalized pustular psoriasis–  a nationwide population-based register study

description: Supplemental Material for "Comorbidities in patients with generalized pustular psoriasis– 
a nationwide population-based register study"
DOI: 10.17632/t6gd7rbcth.1
title: Plasma Lipid Signaling Mediators of IgAN patients and controls

description: This file contains the plasma levels of lipid signaling mediators of patients with IgA nephropathy and controls
DOI: 10.17632/392spt7yzm.1
title: Koo&Park_ The future distribution areas of five evergreens under climate change only

description: These data show the multi-model projections for ensemble forecasts of five plants, R. indica var. umbellate, N. sericea, I. integra, E. emarginata, and P. tobira under the climate-change-only scenario.
DOI: 10.17632/6cf687vhgx.1
title: Koo&Park_ The image files of future projections for five evergreens

description: These are image files of the future projections for five plants, R. indica var. umbellate, N. sericea, I. integra, E. emarginata, and P. tobira predicted under combinations of climate changes (RCP 4.5 and RCP 8.5), land-use changes (SSP1 and SSP3) and dispersal capacity (no dispersal (ND), short-distance dispersal (SDD), long-distance dispersal (LDD), and full dispersal (FD)).
DOI: 10.17632/2ddgwynm42.1
title: Western blot

description: unprocessed images from western blot data.
DOI: 10.6084/m9.figshare.20502057
title: Supplementary Material for: Feasibility, Efficiency and Safety of Zero-Fluoroscopy Catheter Interventions for Right-sided Cardiac Arrhythmias using only Electroanatomic Mapping

description: Introduction: Fluoroscopy is traditionally used for catheter interventions in electrophysiology but carries a long-term health risk. Besides additional invasive procedures to achieve zero-fluoroscopy interventions, electroanatomic mapping may be an alternative to fluoroscopy without the need of additional procedures. We aimed to investigate the feasibility, safety and efficiency of a zero-fluoroscopy approach using only electroanatomic mapping (ZF) compared to a conventional fluoroscopic approach (CF) for patients with right sided cardiac arrhythmias. Methods: We performed a single center retrospective cohort study of consecutive patients undergoing catheter interventions for electrophysiologic procedures from January 2019 to December 2020. Patients with left-sided arrhythmias, focal cryoablation, implanted endocardial devices or additional interventions requiring fluoroscopy were excluded. Results: 202 patients underwent a ZF and 126 patients underwent a CF approach for right-sided cardiac arrhythmias. Apart from atrial fibrillation (ZF 16% vs CF 9%, p=0.044), baseline demographics were similar in both groups. Acute success rate was 100% in the ZF group and 97.9 % in the CF group. Mean procedure time was lower in the ZF group (70 ± 36 vs 87 ± 44 min, p=0.0001), while ablation time (356 ± 324 vs 320 ± 294 seconds, p=0.157) was similar. Total complication rate was low in general (1.0 % major, 2% minor complications) and without a difference between both groups. Conclusion: A zero-fluoroscopy approach using only electroanatomic mapping without additional invasive procedures to diagnose and treat right-sided cardiac arrhythmias is feasible, efficient, and safe.
DOI: 10.6084/m9.figshare.20502057.v1
title: Supplementary Material for: Feasibility, Efficiency and Safety of Zero-Fluoroscopy Catheter Interventions for Right-sided Cardiac Arrhythmias using only Electroanatomic Mapping

description: Introduction: Fluoroscopy is traditionally used for catheter interventions in electrophysiology but carries a long-term health risk. Besides additional invasive procedures to achieve zero-fluoroscopy interventions, electroanatomic mapping may be an alternative to fluoroscopy without the need of additional procedures. We aimed to investigate the feasibility, safety and efficiency of a zero-fluoroscopy approach using only electroanatomic mapping (ZF) compared to a conventional fluoroscopic approach (CF) for patients with right sided cardiac arrhythmias. Methods: We performed a single center retrospective cohort study of consecutive patients undergoing catheter interventions for electrophysiologic procedures from January 2019 to December 2020. Patients with left-sided arrhythmias, focal cryoablation, implanted endocardial devices or additional interventions requiring fluoroscopy were excluded. Results: 202 patients underwent a ZF and 126 patients underwent a CF approach for right-sided cardiac arrhythmias. Apart from atrial fibrillation (ZF 16% vs CF 9%, p=0.044), baseline demographics were similar in both groups. Acute success rate was 100% in the ZF group and 97.9 % in the CF group. Mean procedure time was lower in the ZF group (70 ± 36 vs 87 ± 44 min, p=0.0001), while ablation time (356 ± 324 vs 320 ± 294 seconds, p=0.157) was similar. Total complication rate was low in general (1.0 % major, 2% minor complications) and without a difference between both groups. Conclusion: A zero-fluoroscopy approach using only electroanatomic mapping without additional invasive procedures to diagnose and treat right-sided cardiac arrhythmias is feasible, efficient, and safe.
DOI: 10.25625/v3tvrb/0sp4e2
title: rdm_workshop_crc1456_livedocs_pedroklein.pdf

description: Slides of the presentation: "LiveDocs: Interactive environments for reproducible research"
DOI: 10.25625/v3tvrb/2d9isy
title: rdm_workshop_crc1456_git_gitlab_pedroklein.pdf

description: Slides of Pedro Costa Klein's presentation on Git / Gitlab: "Source code versioning and management using git and gitlab"
DOI: 10.25625/v3tvrb/a6wpr9
title: 20220926_RDM_CRC1456_v04.pdf

description: Slides from Timo Henne
DOI: 10.25625/v3tvrb/apksqr
title: rdm_workshop_crc1456_docker_pedroklein.pdf

description: Slides of the presentation: "Software reproducibility and portability using containerization."
DOI: 10.25625/v3tvrb
title: Slides of the RDM Workshop for the CRC1456 from 2022-09-26 and 2022-09-27

description: Presentation slides used in the Research data management workshop of the CRC1456 from Monday, September 26th 2022 and Tuesday September 27th 2022
DOI: 10.25625/v3tvrb/rpglns
title: rdm_workshop_crc1456_git_gitlab_pedroklein.pdf

description: Slides of Pedro Costa Klein's presentation on Git / Gitlab: "Source code versioning and management using git and gitlab"
DOI: 10.25625/v3tvrb/uiyxp7
title: CRC1456_ResearchSoftware_20220927.pdf

description: Slides for the talk: "The menoci-based Research Data Platform concept for life science consortia at Göttingen Campus", from Harald Kusch
DOI: 10.17632/fwncj8y7ys.1
title: Pledging one’s trustworthiness through gifts: An experiment

description: Datasets and codes accompanying the publication in Judgment and Decision Making, Volume 17, Number 5, September 2022
DOI: 10.17632/63nn2x7zpt.1
title: Alpinetin WB band

description: Original Western Blots data
DOI: 10.17632/gd5gvnwbkw.1
title: Data

description: source data
DOI: 10.17632/gd5gvnwbkw.2
title: Factors influencing the farmer’s chemical fertilizer reduction behavior: Dataset

description: The data  are obtained from the questionnaire survey of farmers by the research team. The research team was mainly composed of teachers, masters' and doctoral students in agricultural economic management, with a total of 10 members. Since 2020, Qingdao city has been implementing the concept of green agricultural development and adjusting the structure of chemical fertilizer inputs. By reducing traditional chemical fertilizers and increasing the use of organic fertilizers, Qingdao has achieved significant results in reducing fertilizers and increasing their efficiency and comprehensive management. Therefore, Qingdao was chosen as a representative sample region for the survey.
Considering that farmers' fertilizer behavior changes rapidly, this paper uses a sample survey to investigate farmers' fertilizer reduction behavior in Qingdao. The sampling survey method collects and collates data quickly, ensures the timeliness of the survey, dramatically reduces survey costs and improves survey efficiency.
DOI: 10.17632/b7y38jj8mr.2
title: Are Signals of Local Environmental Adaptation Diluted by Laboratory Culture?

description: Raw data for: Are Signals of Local Environmental Adaptation Diluted by Laboratory Adaptation?

Abstract:
Insects have the ability to readily adapt to changes in environmental conditions, however the strength of local environmental adaptation signals under divergent conditions and the occurrence of trait inertia after relaxation of selection, or the strength of any local environmental adaptation signal under divergent conditions, remains poorly understood, especially for traits of climate stress resistance (CSR) and their phenotypic plasticity. The strength of environmental adaptation signals depends on several selection pressures present in the local environment whilst trait inertia often occurs when there is a weakening or removal of a source of selection. Here, using Drosophila melanogaster, we asked whether signals of adaptation in CSR traits (critical thermal limits, heat and chill survival, and, desiccation and starvation resistance) persist during laboratory adaptation after exposure to laboratory culture for different durations (two vs. ten generations) across multiple four climatically distinct populations. We show that culture duration has large effects on CSR traits and can both amplify or dilute signals of local adaptation. Effects were however dependent upon interactions between the source population and, acclimation (adult acclimation at either 18°C, 23°C, or 28°C) conditions and sex of the flies. Trait plasticity is markedly affected by the interaction between population, acclimation, and duration in the laboratory. Therefore, a complex matrix of dynamic CSR trait responses is shown in space and time. Given these strong interaction effects, ‘snapshot’ estimates of environmental adaptation can result in misleading conclusions about the fitness consequences of climate variability. 

Data deposited: 
Temperature treatment data (CTmax and CTmin) of Drosophila melanogaster in response to source population, time spent in culture and acclimation treatments (Population temperature treatments.xlxs)
Heat and chill survival data in response of Drosophila melanogaster in response to source population, time spent in culture and acclimation treatments (Population Heat&Chill.xlsx).
Survival treatment data (Desiccation, Starvation and a control)  of Drosophila melanogaster in response to source population, time spent in culture and acclimation treatments (Population survival treatments).
R scripts for:
CTmin and CTmax.R
Heat and Chill.R
Survival population.R

README.txt file explaining names









































































.xlsx), an Excel file containing whole body measurements of Na, Mg, P, K, Ca, Fe present in the bodies of Drosophila melanogaster, obtained through ICP-MS analysis (ICP MS results.xlsx) and an Excel file containing wing measurements and mass data for Drosophila melanogaster from different treatments (Wing measurements.xlsx).
Scripts: Drosophila flight data.R, Ions.R and Wing.measrements.R
DOI: 10.34730/2759323ff67f47b9926ea49aedd1fd95
title: HPSC Terrsys Fall School 2022 Training Material

description: These are sample output files of CORDEX simulations from the Community Land Model, version 3, and the COSMO meteorological model, kindly provided for training purposes by Dr. Klaus Görgen, IBG-3. The primary intention of this repository is the demonstration of data publications and REST API use in a data science lecture of the HPSC Terrsys fall school in Bonn, Germany (https://www.hpsc-terrsys-fallschool.org).
description: The files in this deposit are netCDF data files (https://www.unidata.ucar.edu/software/netcdf/). See web pages for installing netCDF libraries. For easy visual inspection of the content, I recommend Panoply (https://www.giss.nasa.gov/tools/panoply/); it requires a Java installation.
DOI: 10.17632/8rfvzvjhfp.1
title: Reducing energy storage demand by spatial-temporal coordination of multienergy systems：Datasets and Supplementary Materials

description: This dataset include the the method and relating code, as well as the long-term power generation process of wind, PV and hydropower stations.
******************************************************************************************************************************************************************************
 The data relating to wind and PV power modelling in the basin were derived from the dataset of ERA5-Land monthly averaged data from 1981 to the present  and the dataset of high-resolution (3 hour, 10 km) global surface solar radiation (1983-2017) , which are used to simulate long-term power generation. Both datasets are grid-point data. We obtained the construction or planning locations of power stations (most of them have not yet been built). The temperature, radiation, and wind speed at the planned power station locations were used to calculate the long-term power generation of the corresponding energy sources using the wind and PV output models . The installed capacity of the wind and PV power stations was taken as the initial input based on the planned installed capacity of the geographical location. Here are the long-term power generation of102 wind power stations and 70 PV power stations obtained by simulation.

 Considering that all the power stations in the basin have with regulation ability, the long-term power generation process of hydropower was simulated using the historical runoff in the basin (1953 to 2019) as input and the maximum power generation as the objective. The Strengthen Elitist GA templet (SEGA) method in Geatpy in Python was used for optimization.
DOI: 10.17632/nb27pnjtsg.1
title: Azathioprine therapy induces selective NK cell depletion and IFN-γ deficiency predisposing to herpesvirus reactivation

description: Full spectrum cytometry data of PBMCs of longitudinal Myasthenia gravis patient samples before and after azathioprine therapy initiation. Additionally, the data contains samples of internal controls: three healthy individuals, two patients before/after mycophenolate treatment. In addition to data of unmanipulated cells (surface panel) intracellular cytokine expression was determined in PBMCs after ex vivo activation using phorbol 12-myristate 13-acetate and ionomycin (intracellular cytokine panel).