cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17028/rd.lboro.15164301
title: Supplementary Information Files for Mechanical loading of tissue engineered skeletal muscle prevents dexamethasone induced myotube atrophy

description: Supplementary Information Files for Mechanical loading of tissue engineered skeletal muscle prevents dexamethasone induced myotube atrophy<br>Skeletal muscle atrophy as a consequence of acute and chronic illness, immobilisation, muscular dystrophies and aging, leads to severe muscle weakness, inactivity and increased mortality. Mechanical loading is thought to be the primary driver for skeletal muscle hypertrophy, however the extent to which mechanical loading can offset muscle catabolism has not been thoroughly explored. In vitro 3D-models of skeletal muscle provide a controllable, high throughput environment and mitigating many of the ethical and methodological constraints present during in vivo experimentation. This work aimed to determine if mechanical loading would offset dexamethasone (DEX) induced skeletal muscle atrophy, in muscle engineered using the C2C12 murine cell line. Mechanical loading successfully offset myotube atrophy and functional degeneration associated with DEX regardless of whether the loading occurred before or after 24 h of DEX treatment. Furthermore, mechanical load prevented increases in MuRF-1 and MAFbx mRNA expression, critical regulators of muscle atrophy. Overall, we demonstrate the application of tissue engineered muscle to study skeletal muscle health and disease, offering great potential for future use to better understand treatment modalities for skeletal muscle atrophy.<br>
DOI: 10.17028/rd.lboro.15164301.v1
title: Supplementary Information Files for Mechanical loading of tissue engineered skeletal muscle prevents dexamethasone induced myotube atrophy

description: Supplementary Information Files for Mechanical loading of tissue engineered skeletal muscle prevents dexamethasone induced myotube atrophy<br>Skeletal muscle atrophy as a consequence of acute and chronic illness, immobilisation, muscular dystrophies and aging, leads to severe muscle weakness, inactivity and increased mortality. Mechanical loading is thought to be the primary driver for skeletal muscle hypertrophy, however the extent to which mechanical loading can offset muscle catabolism has not been thoroughly explored. In vitro 3D-models of skeletal muscle provide a controllable, high throughput environment and mitigating many of the ethical and methodological constraints present during in vivo experimentation. This work aimed to determine if mechanical loading would offset dexamethasone (DEX) induced skeletal muscle atrophy, in muscle engineered using the C2C12 murine cell line. Mechanical loading successfully offset myotube atrophy and functional degeneration associated with DEX regardless of whether the loading occurred before or after 24 h of DEX treatment. Furthermore, mechanical load prevented increases in MuRF-1 and MAFbx mRNA expression, critical regulators of muscle atrophy. Overall, we demonstrate the application of tissue engineered muscle to study skeletal muscle health and disease, offering great potential for future use to better understand treatment modalities for skeletal muscle atrophy.<br>
DOI: 10.5281/zenodo.3746671
title: Data assessment self-reflections

description: This folder contains a dataset (in csv format) for a study that applies comparative judgement to assess medical education students’ written self-reflections. As part of their portfolio assignment in the sixth year of medical school, 119 students (22 or 23 years old) wrote two self-reflections related to an experience during their fulltime clerkship period, choosing among a list of 10 topics. These self-reflections had previously been scored using a rubric based on the ALACT-model. The sample of 22 self-reflections was purposefully selected, taking into account the variation in obtained grades, in first rater and in the frequency with which topics were chosen. This set of self-reflections were assessed by a group of eight raters using comparative judgement. see article https://doi.org/10.1080/10401334.2021.1877709
DOI: 10.5281/zenodo.3746670
title: Data assessment self-reflections

description: This folder contains a dataset (in csv format) for a study that applies comparative judgement to assess medical education students’ written self-reflections. As part of their portfolio assignment in the sixth year of medical school, 119 students (22 or 23 years old) wrote two self-reflections related to an experience during their fulltime clerkship period, choosing among a list of 10 topics. These self-reflections had previously been scored using a rubric based on the ALACT-model. The sample of 22 self-reflections was purposefully selected, taking into account the variation in obtained grades, in first rater and in the frequency with which topics were chosen. This set of self-reflections were assessed by a group of eight raters using comparative judgement. see article https://doi.org/10.1080/10401334.2021.1877709
DOI: 10.5281/zenodo.5193920
title: Datasets Cured and Enriched with Provenance from the National Vaccination Campaign Against COVID-19

description: The COVID-19 pandemic is a global threat. If, on the one hand, weaccount for many losses, on the other hand, the generation of datasets and ur-gent analytical demands has accelerated. Among the combat strategies, vacci-nation and data-centered epidemiological investigations stand out. This datasetpaper presents the process of building cured and annotated datasets with prove-nance metadata. The main dataset is based on the registration data of the Vacci-nation Campaign against COVID-19 in Brazil. The dataset contains thousandsof records processed up to March 2021. The data were analyzed, investigated,treated and cross-checked with other sources, in order to correct and comple-ment them, resulting in cured datasets and aligned to the FAIR principles.
DOI: 10.3886/e146344
title: Medical Expenditure Panel Survey (MEPS) Data, 1996-2017

description: The Medical Expenditure Panel Survey, which began in 1996, is a set of large-scale surveys of families and individuals, their medical providers (doctors, hospitals, pharmacies, etc.), and employers across the United States. MEPS collects data on the specific health services that Americans use, how frequently they use them, the cost of these services, and how they are paid for, as well as data on the cost, scope, and breadth of health insurance held by and available to U.S. workers.<br><br>The files in this deposit were downloaded from the CDC website and archived by Travis Donahoe, Harvard University. Additional information edited by Michael Darisse and Lars Vilhuber, Cornell University and American Economic Association.<br><br>
DOI: 10.5281/zenodo.5190072
title: Real-time ZTD and gradients from 20 IGS stations; year 2019

description: This dataset contains multi-GNSS real-time products, i.e. ECEF coordinates, zenith total delay (ZTD), and horizontal gradients, together with their uncertainties estimated every 1 minute over the entire year 2019 for 20 IGS stations: ALGO, BIK0, CAS1, CHPG, CPVG, FAA1, JPLM, KERG, KZN2, LHAZZ, LMMF, NKLG, NNOR, PNGM, POVE, REYK, RGDG, ULAD, WROC, YEL2. Two subsets are available that correspond to two processing strategies, i.e. common and advanced. A detailed description, validation and comparison of both strategies can be found in: https://link.springer.com/article/10.1007/s10291-020-01014-w Data are stored in standard Matlab MAT files. Each file contains a single table array (Matlab format) with the complete set of estimated parameters for a single station. Table columns are labeled and self-explanatory. A comma-delimited text file can be obtained using in-build Matlab function "writetable.m".
DOI: 10.5281/zenodo.5190071
title: Real-time ZTD and gradients from 20 IGS stations; year 2019

description: This dataset contains multi-GNSS real-time products, i.e. ECEF coordinates, zenith total delay (ZTD), and horizontal gradients, together with their uncertainties estimated every 1 minute over the entire year 2019 for 20 IGS stations: ALGO, BIK0, CAS1, CHPG, CPVG, FAA1, JPLM, KERG, KZN2, LHAZZ, LMMF, NKLG, NNOR, PNGM, POVE, REYK, RGDG, ULAD, WROC, YEL2. Two subsets are available that correspond to two processing strategies, i.e. common and advanced. A detailed description, validation and comparison of both strategies can be found in: https://link.springer.com/article/10.1007/s10291-020-01014-w Data are stored in standard Matlab MAT files. Each file contains a single table array (Matlab format) with the complete set of estimated parameters for a single station. Table columns are labeled and self-explanatory. A comma-delimited text file can be obtained using in-build Matlab function "writetable.m".
DOI: 10.5281/zenodo.5196178
title: Biomedical Data-to-Text Generation via Fine-Tuning Transformers

description: Biomedical Dataset (”BioLeaflets”) for the paper "Biomedical Data2Text Generation via fine-tuning transformers" (INLG'21)
DOI: 10.17632/3wg5js2n8j.1
title: Translational Autoregulation of the S. cerevisiae High-affinity Polyamine Transporter Hol1, Arya Vindu et al.

description: Data for protein purification of Fig. 2F, GFP fluorescent processed full image of Fig. S2A, western blot images of Fig. S2B, S5B. For detailed description and methods refer paper.
DOI: 10.6084/m9.figshare.14619228.v1
title: EQTP_REddyProc_output.txt

description: This is the REddyProc online tool output file, which provides gap-filled and partitioned flux data for the study 'Methane emissions offset net carbon dioxide uptake from an alpine peatland on the Eastern Qinghai-Tibetan Plateau'.
DOI: 10.6084/m9.figshare.14619186.v2
title: GHG_EQTP_final.csv

description: #This project is for analyzing the Carbon balance of an peatland on the Eastern Qinghai-Tibetan Plateau, details about this paper is as follows.#Methane emissions offset net carbon dioxide uptake from an alpine peatland on the Eastern Qinghai-Tibetan PlateauHaijun Peng a,d,e, Jinshu Chi b,<em>, Hu Yao a,c,d, Qian Guo a,c,d, Bing Hong a,d,e,</em>, Hanwei Ding a,c,d, Yongxuan Zhu a, Jie Wang a,c,d, Yetang Hong aa State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang 550081, China b Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, 90183, Sweden c University of Chinese Academy of Sciences, Beijing 100049, China d Bayinbuluk alpine wetland carbon flux research station, Chinese Flux Observation and Research Network e CAS Center for Excellence in Quaternary Science and Global Change, Xi’an, 710061, ChinaCorrespondence to J. Chi (jinshu.chi@slu.se) and B. Hong (hongbing@mail.gyig.ac.cn)
DOI: 10.6084/m9.figshare.14619186.v1
title: GHG_EQTP_final.csv

description: #This project is for analyzing the Carbon balance of an peatland on the Eastern Qinghai-Tibetan Plateau, details about this paper is as follows.#Methane emissions offset net carbon dioxide uptake from an alpine peatland on the Eastern Qinghai-Tibetan PlateauHaijun Peng a,d,e, Jinshu Chi b,<em>, Hu Yao a,c,d, Qian Guo a,c,d, Bing Hong a,d,e,</em>, Hanwei Ding a,c,d, Yongxuan Zhu a, Jie Wang a,c,d, Yetang Hong aa State Key Laboratory of Environmental Geochemistry, Institute of Geochemistry, Chinese Academy of Sciences, Guiyang 550081, China b Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, 90183, Sweden c University of Chinese Academy of Sciences, Beijing 100049, China d Bayinbuluk alpine wetland carbon flux research station, Chinese Flux Observation and Research Network e CAS Center for Excellence in Quaternary Science and Global Change, Xi’an, 710061, ChinaCorrespondence to J. Chi (jinshu.chi@slu.se) and B. Hong (hongbing@mail.gyig.ac.cn)
DOI: 10.5281/zenodo.5196183
title: Initial structures of macrocyclic Gαq protein inhibitors bound to the Gq heterotrimer

description: Initial PDB structures of the Gq heterotrimer in its apo form or bound to either ym2 or fr9 inhibitors. These structures were used in the molecular dynamics simulations described in the manuscript below: <strong>Unraveling binding mechanism and kinetics of macrocyclic Gαq protein inhibitors</strong> (under review)<br> <em>Jan H. Voss<sup>1</sup>, Jessica Nagel<sup>1</sup>, Muhammad Rafehi<sup>1</sup>, Ramon Guixà-González<sup>2,5</sup>, Davide Malfacini<sup>3</sup>, Julian Patt<sup>3</sup>, Stefan Kehraus<sup>3</sup>, Asuka Inoue<sup>4</sup>, Gabriele M. König<sup>3</sup>, Evi Kostenis<sup>3</sup>, Xavier Deupi<sup>2,5</sup>, Vigneshwaran Namasivayam<sup>1</sup>, and Christa E. Müller<sup>1</sup></em> <em><sup>1</sup>PharmaCenter Bonn, Pharmaceutical Institute, Pharmaceutical & Medicinal Chemistry, University of Bonn, An der Immenburg 4, D-53121 Bonn, Germany<br> <sup>2</sup>Condensed Matter Theory Group, Paul Scherrer Institute, Forschungsstrasse 111, 5232 Villigen PSI, Switzerland<br> <sup>3</sup>Institute of Pharmaceutical Biology, University of Bonn, Nussallee 6, 53113 Bonn, Germany<br> <sup>4</sup>Tohoku University, Graduate School of Pharmaceutical Sciences, Sendai, Miyagi, 980-8578 Japan<br> <sup>5</sup>Laboratory of Biomolecular Research, Paul Scherrer Institute, Forschungsstrasse 111, 5232 Villigen PSI, Switzerland</em>
DOI: 10.5281/zenodo.5196182
title: Initial structures of macrocyclic Gαq protein inhibitors bound to the Gq heterotrimer

description: Initial PDB structures of the Gq heterotrimer in its apo form or bound to either ym2 or fr9 inhibitors. These structures were used in the molecular dynamics simulations described in the manuscript below: <strong>Unraveling binding mechanism and kinetics of macrocyclic Gαq protein inhibitors</strong> (under review)<br> <em>Jan H. Voss<sup>1</sup>, Jessica Nagel<sup>1</sup>, Muhammad Rafehi<sup>1</sup>, Ramon Guixà-González<sup>2,5</sup>, Davide Malfacini<sup>3</sup>, Julian Patt<sup>3</sup>, Stefan Kehraus<sup>3</sup>, Asuka Inoue<sup>4</sup>, Gabriele M. König<sup>3</sup>, Evi Kostenis<sup>3</sup>, Xavier Deupi<sup>2,5</sup>, Vigneshwaran Namasivayam<sup>1</sup>, and Christa E. Müller<sup>1</sup></em> <em><sup>1</sup>PharmaCenter Bonn, Pharmaceutical Institute, Pharmaceutical & Medicinal Chemistry, University of Bonn, An der Immenburg 4, D-53121 Bonn, Germany<br> <sup>2</sup>Condensed Matter Theory Group, Paul Scherrer Institute, Forschungsstrasse 111, 5232 Villigen PSI, Switzerland<br> <sup>3</sup>Institute of Pharmaceutical Biology, University of Bonn, Nussallee 6, 53113 Bonn, Germany<br> <sup>4</sup>Tohoku University, Graduate School of Pharmaceutical Sciences, Sendai, Miyagi, 980-8578 Japan<br> <sup>5</sup>Laboratory of Biomolecular Research, Paul Scherrer Institute, Forschungsstrasse 111, 5232 Villigen PSI, Switzerland</em>
DOI: 10.5281/zenodo.4116401
title: Evolutionary and biogeographical support for species-specific proteins in lizard chemical signals

description: The species-specific components (SSC) of animal signals can facilitate species recognition and reduce the risks of mismatching and interbreeding. Still, empirical evidence for SSCs in chemical signals is scarce and mostly limited to insect pheromones. Based on the proteinaceous femoral gland secretions of 36 lizard species (Lacertidae), we examine the SSC potential of proteins in lizard chemical signals. By quantitatively comparing the one-dimensional electrophoretic patterns of the protein fraction from femoral gland secretions, we first reveal that protein composition is species-specific, accounting for large part of the observed raw variation, and allowing us to discriminate species on this basis. Secondly, we find increased protein pattern divergence in sympatric, closely related species. Thirdly, lizard protein profiles show a low phylogenetic signal, a recent and steep increase in relative disparity, and a high rate of evolutionary change compared to non-specifically-signal traits (i.e. body size and shape). Together, these findings provide support for the species-specificity of proteins in the chemical signals of a vertebrate lineage. We made available two datasets: <strong>rawdata.Rdata</strong> is an R-data file containing a single R-list object called “epg” (which stands for “electrophoretograms”). The list has 7 entries: $profile The normalised luma values for each sample individual; row names correspond to the species name (6 letter abbreviations) followed by a progressive integer $hpx a progressive number indicating the molecular weight integer corresponding to each luma value in epg$profile $kda the corresponding average molecular weight for each bin (in kDa) $spe a factor indicating the species for each profile row $gel a factor indicating the gel from which the profile was extracted $abso the absorbance value, proxy for protein concentration for each sample $epg.species the geometric mean of the EPG for each species (row names) <strong>gel.zip</strong> is a zipped file with all gel images used to extract individual EPG. All other information and data needed to replicate our analysis are available in the published paper or in reference therein.
DOI: 10.5281/zenodo.4116400
title: Evolutionary and biogeographical support for species-specific proteins in lizard chemical signals

description: The species-specific components (SSC) of animal signals can facilitate species recognition and reduce the risks of mismatching and interbreeding. Still, empirical evidence for SSCs in chemical signals is scarce and mostly limited to insect pheromones. Based on the proteinaceous femoral gland secretions of 36 lizard species (Lacertidae), we examine the SSC potential of proteins in lizard chemical signals. By quantitatively comparing the one-dimensional electrophoretic patterns of the protein fraction from femoral gland secretions, we first reveal that protein composition is species-specific, accounting for large part of the observed raw variation, and allowing us to discriminate species on this basis. Secondly, we find increased protein pattern divergence in sympatric, closely related species. Thirdly, lizard protein profiles show a low phylogenetic signal, a recent and steep increase in relative disparity, and a high rate of evolutionary change compared to non-specifically-signal traits (i.e. body size and shape). Together, these findings provide support for the species-specificity of proteins in the chemical signals of a vertebrate lineage. We made available two datasets: <strong>rawdata.Rdata</strong> is an R-data file containing a single R-list object called “epg” (which stands for “electrophoretograms”). The list has 7 entries: $profile The normalised luma values for each sample individual; row names correspond to the species name (6 letter abbreviations) followed by a progressive integer $hpx a progressive number indicating the molecular weight integer corresponding to each luma value in epg$profile $kda the corresponding average molecular weight for each bin (in kDa) $spe a factor indicating the species for each profile row $gel a factor indicating the gel from which the profile was extracted $abso the absorbance value, proxy for protein concentration for each sample $epg.species the geometric mean of the EPG for each species (row names) <strong>gel.zip</strong> is a zipped file with all gel images used to extract individual EPG. All other information and data needed to replicate our analysis are available in the published paper or in reference therein.
DOI: 10.5281/zenodo.5196210
title: Haywood and the World

description: Raw data for "Haywood and the World" GIS project.
DOI: 10.5281/zenodo.5196209
title: Haywood and the World

description: Raw data for "Haywood and the World" GIS project.
DOI: 10.17028/rd.lboro.15164313
title: Supplementary Information Files for Not all group members are created equal: heterogeneous abilities in inter-group contests

description: Supplementary Information Files for Not all group members are created equal: heterogeneous abilities in inter-group contests<br>Competition between groups is ubiquitous in social and economic life, and typically occurs between groups that are not created equal. Here we experimentally investigate the implications of this general observation on the unfolding of symmetric and asymmetric competition between groups that are either homogeneous or heterogeneous in the ability of their members to contribute to the success of the group. Our main finding is that relative to the benchmark case in which two homogeneous compete against each other, heterogeneity within groups per se has no discernable effect on competition, while introducing heterogeneity between groups leads to a significant intensification of conflict as well as increased volatility, thereby reducing earnings of contest participants and increasing inequality. We further find that heterogeneous groups share the labor much more equally than predicted by theory, and that in asymmetric contests group members change the way in which they condition their efforts on those of their peers. Implications for contest designers are discussed.<br>
DOI: 10.17028/rd.lboro.15164313.v1
title: Supplementary Information Files for Not all group members are created equal: heterogeneous abilities in inter-group contests

description: Supplementary Information Files for Not all group members are created equal: heterogeneous abilities in inter-group contests<br>Competition between groups is ubiquitous in social and economic life, and typically occurs between groups that are not created equal. Here we experimentally investigate the implications of this general observation on the unfolding of symmetric and asymmetric competition between groups that are either homogeneous or heterogeneous in the ability of their members to contribute to the success of the group. Our main finding is that relative to the benchmark case in which two homogeneous compete against each other, heterogeneity within groups per se has no discernable effect on competition, while introducing heterogeneity between groups leads to a significant intensification of conflict as well as increased volatility, thereby reducing earnings of contest participants and increasing inequality. We further find that heterogeneous groups share the labor much more equally than predicted by theory, and that in asymmetric contests group members change the way in which they condition their efforts on those of their peers. Implications for contest designers are discussed.<br>
DOI: 10.34740/kaggle/dsv/2522912
title: COVID Vaccination in World (updated daily)
DOI: 10.5281/zenodo.5196216
title: Genetic variation influencing DNA methylation provides new insights into the molecular pathways regulating genomic function - Selected Supplementary Tables

description: <strong>Selected Supplementary Tables - ST5, 7, 8 and 9</strong> <strong>Supplementary Table 5. Cosmopolitan results. </strong>Cosmopolitan SNP-CpG associations identified through genome-wide association amongst Europeans and South Asians. <strong>Supplementary Table 7. Cross-tissue replication.</strong> Results for further testing of the 11,165,559 cosmopolitan SNP-CpG associations identified (by genome-wide association in blood), in 4 isolated white cell subsets (CD4+ lymphocytes, CD8+ lymphocytes, monocytes and neutrophils), in adipocytes isolated from subcutaneous adipose tissue or visceral adipose tissue, and in whole adipose tissue. <strong>Supplementary Table 8. Conditional analysis.</strong> Results of conditional analysis to identify SNPs independently associated with each of the ~360K CpG sites tested. <strong>Supplementary Table 9. Sentinel SNPs and CpGs.</strong> Results of R2 pruning and locus merging to identify discrete genetic and methylation loci that are associated, and their respective sentinel SNPs and sentinel CpG sites. Other files (e.g. annotation files and 'intermediate' processing files) referenced in our code are also provided.