cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.17134682
title: Supplementary Material for: Epigenomic changes after acupuncture treatment in patients suffering from burnout

description: Introduction: The effects of acupuncture treatment in patients suffering from burnout may imply an epigenetic control mediated by DNA methylation changes. In this observational study, a genome-wide characterization of epigenetic changes in blood DNA, before and after acupuncture treatment, was performed in a cohort of 11 patients suffering from burnout. Methods: Burnout was assessed using the Maslach Burnout Inventory (MBI) and DNA was extracted from blood samples and analyzed by Illumina EPIC BeadChip. Results: Before acupuncture, all patients suffered of emotional exhaustion (EE) (MBI-EE score, 44±6), 81% suffered of depersonalization (DP) (MBI-DP score, 16±6), and 72% of low feelings of personal accomplishment (PA) (MBI-PA score, 29±9). After acupuncture, all MBI dimensions improved significantly (EE, 16±11 [p=1.5*10-4]; DP, 4±5 [p=5.3*10-4]; and PA, 40±6 [p=4.1*10-3]). For each patient, both methylomes obtained before and after acupuncture co-clustered in the multidimensional scaling plot, indicating a high level of similarity. Genes corresponding to the 10 most differentially methylated CpGs showed enrichment in the brain dopaminergic signalling, steroid synthesis and in the insulin sensitivity pathways. Conclusion: Acupuncture treatment was found to be highly effective on all burnout dimensions and the epigenetic targets identified were involved in some major disturbances of this syndrome.
DOI: 10.5281/zenodo.5948705
title: Sphingolipids are involved in Pieris brassicae egg-induced cell death in Arabidopsis thaliana

description: This table contains mean + SEM values of sphingolipid levels by LC-MS analysis in Arabidopsis thaliana (wild-type and mutant lines) and Brassica nigra (wild-type) in response to egg extract of Pieris brassicae. These data were used for Fig. 7 and Fig. 8 of Groux et al. 2022
DOI: 10.5281/zenodo.5860519
title: uprolls2018-243

description: This deposit serves as a long-term archive for the unprocessed raw data behind the uprolls2018 table in my comprehensive dataset on religion and politics in India, which is available at https://github.com/raphael-susewind/india-religion-politics/tree/master/uprolls2018
DOI: 10.5281/zenodo.5860518
title: uprolls2018-243

description: This deposit serves as a long-term archive for the unprocessed raw data behind the uprolls2018 table in my comprehensive dataset on religion and politics in India, which is available at https://github.com/raphael-susewind/india-religion-politics/tree/master/uprolls2018
DOI: 10.5281/zenodo.5860513
title: uprolls2018-255

description: This deposit serves as a long-term archive for the unprocessed raw data behind the uprolls2018 table in my comprehensive dataset on religion and politics in India, which is available at https://github.com/raphael-susewind/india-religion-politics/tree/master/uprolls2018
DOI: 10.5281/zenodo.5860512
title: uprolls2018-255

description: This deposit serves as a long-term archive for the unprocessed raw data behind the uprolls2018 table in my comprehensive dataset on religion and politics in India, which is available at https://github.com/raphael-susewind/india-religion-politics/tree/master/uprolls2018
DOI: 10.5281/zenodo.5860515
title: uprolls2018-174

description: This deposit serves as a long-term archive for the unprocessed raw data behind the uprolls2018 table in my comprehensive dataset on religion and politics in India, which is available at https://github.com/raphael-susewind/india-religion-politics/tree/master/uprolls2018
DOI: 10.5281/zenodo.5860514
title: uprolls2018-174

description: This deposit serves as a long-term archive for the unprocessed raw data behind the uprolls2018 table in my comprehensive dataset on religion and politics in India, which is available at https://github.com/raphael-susewind/india-religion-politics/tree/master/uprolls2018
DOI: 10.5281/zenodo.5938893
title: Cell Instance Segmentation Dataset

description: This project contains the data for the paper: A. Bouyssoux, R. Fezzani and J. -C. Olivo-Marin, "<em>Cell Instance Segmentation Using Z-Stacks In Digital Cytopathology,</em>" 2022 IEEE International Symposium on Biomedical Imaging (ISBI), 2022. The code associated with this project is available at: https://gitlab.com/vitadx/articles/zstacks_cell_instance_segmentation A new large Cell Instance Segmentation Dataset (CISD) is introduced. It comprises 3911 samples containing at least two touching or overlapping urothelial cells. Cell instances were manually annotated by trained cytotechnicians. All samples are extracted from 30 digital cytology slides stained with nine variations of Papanicolaou staining. The cytology slides are prepared from urine samples from healthy patients, using a Hologic ThinPrep®5000 processor, and routinely stained with the Agilent Dako CoverStainer®. The slides are finally digitized using a Hamamatsu NanoZoomer®S360 with 21 focal planes and centered on the best focus plane determined by the scanner autofocus. Note that cell instances with a bounding box width/height smaller than 10% of the sample width/height, as well as red blood cells and neutrophil cells were automatically filtered out because under-represented in the available data. Each sample is considered in three different manners in the CISD, allowing experimentation with different methods<br> for handling Z-stack data and comparison with simple 2D acquisition: Center slice: the best focus plane only as determined by the scanner, which is equivalent to a 2D slide acquisition. Extended Depth of Field (EDF): the 21 planes merged in an image where all textured parts appear in focus. Raw Z-stack: the volume composed of the 21 focal planes. Once extracted, the dataset folder contains three subfolders, one for each of the three types of samples described here above, containing the images and stack of images. A JSON file contains the instance masks, encoded in RLE format.
DOI: 10.5281/zenodo.5938892
title: Cell Instance Segmentation Dataset

description: This project contains the data for the paper: A. Bouyssoux, R. Fezzani and J. -C. Olivo-Marin, "<em>Cell Instance Segmentation Using Z-Stacks In Digital Cytopathology,</em>" 2022 IEEE International Symposium on Biomedical Imaging (ISBI), 2022. The code associated with this project is available at: https://gitlab.com/vitadx/articles/zstacks_cell_instance_segmentation A new large Cell Instance Segmentation Dataset (CISD) is introduced. It comprises 3911 samples containing at least two touching or overlapping urothelial cells. Cell instances were manually annotated by trained cytotechnicians. All samples are extracted from 30 digital cytology slides stained with nine variations of Papanicolaou staining. The cytology slides are prepared from urine samples from healthy patients, using a Hologic ThinPrep®5000 processor, and routinely stained with the Agilent Dako CoverStainer®. The slides are finally digitized using a Hamamatsu NanoZoomer®S360 with 21 focal planes and centered on the best focus plane determined by the scanner autofocus. Note that cell instances with a bounding box width/height smaller than 10% of the sample width/height, as well as red blood cells and neutrophil cells were automatically filtered out because under-represented in the available data. Each sample is considered in three different manners in the CISD, allowing experimentation with different methods<br> for handling Z-stack data and comparison with simple 2D acquisition: Center slice: the best focus plane only as determined by the scanner, which is equivalent to a 2D slide acquisition. Extended Depth of Field (EDF): the 21 planes merged in an image where all textured parts appear in focus. Raw Z-stack: the volume composed of the 21 focal planes. Once extracted, the dataset folder contains three subfolders, one for each of the three types of samples described here above, containing the images and stack of images. A JSON file contains the instance masks, encoded in RLE format.
DOI: 10.6084/m9.figshare.12003654
title: Data of the apparent respiratory quotient measurements in soil and tree stems, February 2017 to January 2019, Odem forest, Israel.

description: The files contain data of gaseous CO2 and O2 measurements of soil pore space air and headspace air of incubations of bulk-soil samples, roots, and tree stem cores. Samples were collected from Odem forest, northern Israel, located 950 m a.s.l, 33o 13’ N, 35o 45’ E. The climate is Mesic Mediterranean with a mean annual precipitation of 950 mm and summer and winter mean temperature of 21.3º C and 7.3ºC, respectively. Samples from two oak species were collected: the dominant evergreen Quercus calliprinos Webb (about 75% of the woody cover area), and the winter-deciduous Quercus boissieri Reut. (15%). Soil samples were collected underneath the trees. The soil was formed on basaltic bedrock and is classified as Eutric Lithosol in the FAO classification system and as Lithic Xerorthent in the USDA classification system. The soil pH is 6.6 and the organic C content is 10.5%. These data include CO2 and O2 concentrations, fluxes, the apparent respiratory quotient (ARQ), soil temperature, gravimetric soil moisture, and Fe2+ concentrations. The data are the results of seasonal measurements of soil gas, bulk soil, tree stem cores, and roots incubations, and additional experiments testing the links between Fe2+ oxidation, temperature, and soil moisture with ARQ.
DOI: 10.6084/m9.figshare.19121891.v1
title: Supplementary Material for: Epidemiology of Hypertension among Patients on Peritoneal Dialysis Using Standardized Office and Ambulatory Blood Pressure Recordings

description: <b><i>Introduction:</i></b> Prior studies conducted in peritoneal dialysis (PD) patients in the late 1990s provided considerably variable estimates of the prevalence and control of hypertension. The present study aimed to investigate the current state of hypertension management in this high-risk population. <b><i>Methods:</i></b> In 140 stable PD patients, we performed standardized automated office blood pressure (BP) measurements and 24-h ambulatory BP monitoring (ABPM) using the Mobil-O-Graph device (IEM, Germany). Office and ambulatory hypertension was diagnosed in patients with office BP ≥140/90 mm Hg and 24-h BP ≥130/80 mm Hg, respectively. Patients treated with ≥1 BP-lowering medications were also classified as hypertensives. <b><i>Results:</i></b> The prevalence of office and ambulatory hypertension was 92.9% and 95%, respectively. In all, 92.1% of patients were being treated with an average of 2.4 BP-lowering medications daily. Adequate BP control was achieved in 52.3% and 38.3% of hypertensives by office BP and ABPM, respectively. The agreement between these 2 techniques in the identification of patients with BP levels above the diagnostic thresholds of hypertension was moderate (<i>k</i>-statistic: 0.524). In all, 5% of patients were normotensives with both techniques, 31.4% had controlled hypertension, 5% had white-coat hypertension, 19.3% had masked hypertension, and 39.3% had sustained hypertension. Isolated nocturnal hypertension was detected in 23.6% of patients, whereas no patient had isolated daytime hypertension. <b><i>Conclusion:</i></b> Among PD patients, hypertension is highly prevalent and remains often inadequately controlled. The use of ABPM enables the better classification of severity of hypertension and identification of isolated nocturnal hypertension, which is a common BP phenotype in the PD population.
DOI: 10.6084/m9.figshare.19121891
title: Supplementary Material for: Epidemiology of Hypertension among Patients on Peritoneal Dialysis Using Standardized Office and Ambulatory Blood Pressure Recordings

description: <b><i>Introduction:</i></b> Prior studies conducted in peritoneal dialysis (PD) patients in the late 1990s provided considerably variable estimates of the prevalence and control of hypertension. The present study aimed to investigate the current state of hypertension management in this high-risk population. <b><i>Methods:</i></b> In 140 stable PD patients, we performed standardized automated office blood pressure (BP) measurements and 24-h ambulatory BP monitoring (ABPM) using the Mobil-O-Graph device (IEM, Germany). Office and ambulatory hypertension was diagnosed in patients with office BP ≥140/90 mm Hg and 24-h BP ≥130/80 mm Hg, respectively. Patients treated with ≥1 BP-lowering medications were also classified as hypertensives. <b><i>Results:</i></b> The prevalence of office and ambulatory hypertension was 92.9% and 95%, respectively. In all, 92.1% of patients were being treated with an average of 2.4 BP-lowering medications daily. Adequate BP control was achieved in 52.3% and 38.3% of hypertensives by office BP and ABPM, respectively. The agreement between these 2 techniques in the identification of patients with BP levels above the diagnostic thresholds of hypertension was moderate (<i>k</i>-statistic: 0.524). In all, 5% of patients were normotensives with both techniques, 31.4% had controlled hypertension, 5% had white-coat hypertension, 19.3% had masked hypertension, and 39.3% had sustained hypertension. Isolated nocturnal hypertension was detected in 23.6% of patients, whereas no patient had isolated daytime hypertension. <b><i>Conclusion:</i></b> Among PD patients, hypertension is highly prevalent and remains often inadequately controlled. The use of ABPM enables the better classification of severity of hypertension and identification of isolated nocturnal hypertension, which is a common BP phenotype in the PD population.
DOI: 10.5281/zenodo.5906432
title: Referentenentwurf und Stellungnahmen zum Transportrechtsreformgesetz (TRG) 1997

description: Die vorliegende Textsammlung dokumentiert Entwürfe und Stellungnahmen aus dem Gesetzgebungsvorgang zur Reform des deutschen Transportrechts im Jahr 1997. Die Texte wurden amtlich zur Verfügung gestellt und dienen der wissenschaftlichen Forschung, zunächst als Belegsammlung für den Beitrag Hamann, "Das unhaltbare Postprivileg im Frachtrecht", im Erscheinen. Mit Erscheinen des Beitrags werden die Dokumente zum öffentlichen Abruf freigegeben. Ich danke dem Leiter des Referats III A 4 (Transportrecht u.a.) im BMJV, <em>Harald Schoen,</em> und seiner Vorgängerin<em> Beate Czerwenka</em> für großes Entgegenkommen und aufopferungsvolle Unterstützung durch nachträgliche Digitalisierung wichtiger Aktenstücke
DOI: 10.6084/m9.figshare.19102712
title: row dataset for article entitled " Modulation of acoustic navigation behaviour by spatial learning in the echolocating bat Rhinolophus ferrumequinum nippon"

description: This row dataset was used for original article entitled "Modulation of acoustic navigation behaviour by spatial learning in the echolocating bat Rhinolophus ferrumequinum nippon (https://doi.org/10.1038/s41598-020-67470-z)".
DOI: 10.6084/m9.figshare.19102712.v1
title: row dataset for article entitled " Modulation of acoustic navigation behaviour by spatial learning in the echolocating bat Rhinolophus ferrumequinum nippon"

description: This row dataset was used for original article entitled "Modulation of acoustic navigation behaviour by spatial learning in the echolocating bat Rhinolophus ferrumequinum nippon (https://doi.org/10.1038/s41598-020-67470-z)".
DOI: 10.6084/m9.figshare.19121780
title: Datasets of Dayu

description: The datasets include the DEM, ESO, ESP, landuse, soil nutrition, mining area, RSEI and the statistical yearbook of Dayu.
DOI: 10.6084/m9.figshare.19121780.v1
title: Datasets in the essay

description: The datasets include the DEM, ESO, ESP, landuse, soil nutrition, mining area, RSEI and the statistical yearbook of Dayu.
DOI: 10.6084/m9.figshare.19121909
title: Supplementary Material for: Upper Tract Urinary Cancer Recurrence after Radical Cystectomy: Risk Assessment of Intraoperative Frozen Section

description: <b><i>Introduction:</i></b> Upper tract urinary cancer recurrence (UTUCR) after radical cystectomy (RC) is outcome-limiting. Surgical recommendations on intraoperative performance of frozen section analysis (FSA) and management of positive ureteral margin (PUM) are lacking. <b><i>Methods:</i></b> 634 RC cases were identified (2010–2018). In patients with PUM, sequential ureteral resections up to a negative margin were performed. We investigated the accuracy of FSA, significance of PUM, and identified risk factors (RFs) to stratify patients for UTUCR. <b><i>Results:</i></b> FSA was performed in 355 patients, including a total of 693 ureters. FSA sensitivity was 0.93 and specificity 0.99. PUM conversion was possible in 52 (91.2%) cases. UTUCR occurred in 17 (4.8%) patients. Identified UTUCR RFs are non-muscle invasive bladder carcinoma (NMIBC) (OR 3.8, 95% confidence intervals [CI] 1.4–10.2, <i>p</i> = 0.008), multifocal bladder cancer in cystectomy specimen (OR 4.7, CI 1.1–20.8, <i>p</i> = 0.042), and recurrent NMIBC (OR 4.1, CI 1.5–10.9, <i>p</i> = 0.006). Risk-group stratification showed a six-fold increase in UTUCR risk (low-to high-risk). <b><i>Conclusion:</i></b> FSA is a sensitive and specific method to identify PUM. UTUCR occurs significantly more often in patients with recurrent, multifocal NMIBC at the time of RC. Patients can be risk stratified for UTUCR. In case of NMIBC-PUM, surgeons can safely opt for a kidney preserving strategy.
DOI: 10.5281/zenodo.5962114
title: Database: results of the genotyping of the population of recombinant lines TU/MUSICA (TUM) by means of Genotyping by Sequencing

description: The database contains the files: - imagen with a seed per recombinant line as well as seed of the two parents <strong><em> Figure1_TUM RIL population.jpg</em></strong> - imagen of image of the resulting genetic map <strong><em> Figure 3.pdf</em></strong> - file with the GBS results (95678 SNPs) <em><strong>all.filter_ordered.vcf</strong></em> - file with the SNPs included in the genetic map published (842 loci/ 175 lines) <strong><em>GENETIC MAP_TUM.xlsx</em></strong> Genotyping was performed according to Garcia Fernández et al (2021) <strong>Reference</strong>: García-Fernández, C., Campa, A. & Ferreira, J.J. Dissecting the genetic control of seed coat color in a RIL population of common bean (<em>Phaseolus vulgaris</em> L.). <em>Theor Appl Genet</em> <strong>134, </strong>3687–3698 (2021). https://doi.org/10.1007/s00122-021-03922-y
DOI: 10.6084/m9.figshare.19121909.v1
title: Supplementary Material for: Upper Tract Urinary Cancer Recurrence after Radical Cystectomy: Risk Assessment of Intraoperative Frozen Section

description: <b><i>Introduction:</i></b> Upper tract urinary cancer recurrence (UTUCR) after radical cystectomy (RC) is outcome-limiting. Surgical recommendations on intraoperative performance of frozen section analysis (FSA) and management of positive ureteral margin (PUM) are lacking. <b><i>Methods:</i></b> 634 RC cases were identified (2010–2018). In patients with PUM, sequential ureteral resections up to a negative margin were performed. We investigated the accuracy of FSA, significance of PUM, and identified risk factors (RFs) to stratify patients for UTUCR. <b><i>Results:</i></b> FSA was performed in 355 patients, including a total of 693 ureters. FSA sensitivity was 0.93 and specificity 0.99. PUM conversion was possible in 52 (91.2%) cases. UTUCR occurred in 17 (4.8%) patients. Identified UTUCR RFs are non-muscle invasive bladder carcinoma (NMIBC) (OR 3.8, 95% confidence intervals [CI] 1.4–10.2, <i>p</i> = 0.008), multifocal bladder cancer in cystectomy specimen (OR 4.7, CI 1.1–20.8, <i>p</i> = 0.042), and recurrent NMIBC (OR 4.1, CI 1.5–10.9, <i>p</i> = 0.006). Risk-group stratification showed a six-fold increase in UTUCR risk (low-to high-risk). <b><i>Conclusion:</i></b> FSA is a sensitive and specific method to identify PUM. UTUCR occurs significantly more often in patients with recurrent, multifocal NMIBC at the time of RC. Patients can be risk stratified for UTUCR. In case of NMIBC-PUM, surgeons can safely opt for a kidney preserving strategy.
DOI: 10.5281/zenodo.5962084
title: Database: results of the genotyping of the population of recombinant lines TU/MUSICA (TUM) by means of Genotyping by Sequencing

description: The database contains the files: - imagen with a seed per recombinant line as well as seed of the two parents <strong><em> Figure1_TUM RIL population.jpg</em></strong> - imagen of image of the resulting genetic map <strong><em> Figure 3.pdf</em></strong> - file with the GBS results (95678 SNPs) <em><strong>all.filter_ordered.vcf</strong></em> - file with the SNPs included in the genetic map published (842 loci/ 175 lines) <strong><em>GENETIC MAP_TUM.xlsx</em></strong> Genotyping was performed according to Garcia Fernández et al (2021) <strong>Reference</strong>: García-Fernández, C., Campa, A. & Ferreira, J.J. Dissecting the genetic control of seed coat color in a RIL population of common bean (<em>Phaseolus vulgaris</em> L.). <em>Theor Appl Genet</em> <strong>134, </strong>3687–3698 (2021). https://doi.org/10.1007/s00122-021-03922-y
DOI: 10.6084/m9.figshare.17531357
title: Supplementary Material for: Association of age-related cataract risk high polygenetic risk scores involved in galactose-related metabolism and dietary interactions

description: Introduction: Cataracts are associated with the accumulation of galactose and galactitol in the lens. We determined the polygenetic risk scores for the best model(PRSBM) associated with age-related cataract(ARC) risk and their interaction with diets and lifestyles in 40,262 Korean adults aged over 50 years belonged to a hospital-based city cohort. Methods: The genetic variants for ARC risk were selected in lactose and galactose metabolism-related genes with multivariate logistic regression using the PLINK 1.9 version. PRSBM from the selected genetic variants was estimated by generalized multifactor dimensionality reduction (GMDR) after adjusting covariates. The interactions between the PRSBM and each lifestyle factor were determined to modulate ARC risk. Results: The genetic variants for ARC risk related to lactose- and galactose metabolism were SLC2A1_rs3729548, ST3GAL3_rs3791047, LCT_rs2304371, GALNT5_rs6728956, ST6GAL1_rs2268536, GALNT17_rs17058752, CSGALNACT1_rs1994788, GALNTL4_rs10831608, B4GALT6_rs1667288, and A4GALT_ rs9623659. In GMDR, the best model included all ten genetic variants. The highest odds ratio (OR) for a single SNP in the PRSBM was 1.26. However, subjects with a high-PRSBM had a higher ARC risk by 2.1-fold than a low-PRSBM after adjusting for covariates. Carbohydrate, dairy products, kimchi, and alcohol intake interacted with PRSBM for ARC risk: the participants with high-PRSBM had a much higher ARC risk than those with low-PRSBM when consuming diets with high carbohydrate and low dairy product and kimchi intake. However, only with low alcohol intake, the participants with high-PRSBM had a higher ARC risk than those with low-PRSBM. Conclusion: Adults aged &gt;50 years having high-PRSBM may modulate dietary habits to reduce ARC risk.
DOI: 10.5281/zenodo.5860517
title: uprolls2018-195

description: This deposit serves as a long-term archive for the unprocessed raw data behind the uprolls2018 table in my comprehensive dataset on religion and politics in India, which is available at https://github.com/raphael-susewind/india-religion-politics/tree/master/uprolls2018
DOI: 10.5281/zenodo.5860516
title: uprolls2018-195

description: This deposit serves as a long-term archive for the unprocessed raw data behind the uprolls2018 table in my comprehensive dataset on religion and politics in India, which is available at https://github.com/raphael-susewind/india-religion-politics/tree/master/uprolls2018
DOI: 10.5281/zenodo.5860487
title: uprolls2018-120

description: This deposit serves as a long-term archive for the unprocessed raw data behind the uprolls2018 table in my comprehensive dataset on religion and politics in India, which is available at https://github.com/raphael-susewind/india-religion-politics/tree/master/uprolls2018