cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5122951.v1
title: Supplementary Material for: Heat Shock Factor 1 Protects against Lung <i>Mycoplasma pneumoniae</i> Infection in Mice

description: Heat shock factor 1 (HSF1) is a transcriptional factor that controls the induction of heat shock proteins (e.g. HSP70) in response to stress. Bacterial infections contribute to the pathobiology of chronic lung diseases such as chronic obstructive pulmonary disease and asthma. Whether HSF1 is critical to lung bacterial infection remains unknown. This study is aimed at investigating the impact of HSF1 deficiency on lung <i>Mycoplasma pneumoniae</i> (Mp) infection and elucidating the underlying molecular mechanisms, such as Toll-like receptor 2 (TLR2) signaling. HSF1<sup>–/–</sup> and HSF1<sup>+/+</sup> mice were intranasally infected with Mp or saline and sacrificed 4, 24 and 72 h after treatment. HSF1<sup>–/–</sup> mice had a higher lung Mp load than HSF1<sup>+/+</sup> mice. Mp-induced lung TLR2, nuclear factor-ĸB and associated inflammation [e.g. keratinocyte-derived chemokine (KC), neutrophils and histopathology] were delayed in HSF1<sup>–/–</sup> mice as compared to HSF1<sup>+/+</sup> mice. HSP70 protein levels in bronchoalveolar lavage fluid of HSF1<sup>–/–</sup> mice were decreased. Furthermore, in response to Mp infection, HSF1<sup>–/–</sup> alveolar macrophages had less TLR2 mRNA expression and KC production than HSF1<sup>+/+</sup> counterparts. Nuclear factor-ĸB activity and KC production in HSF1<sup>–/–</sup> macrophages could be rescued by addition of exogenous HSP70 protein. These data suggest that HSF1 is necessary to initiate host defense against bacterial infection partly through promoting early TLR2 signaling activation.
DOI: 10.6084/m9.figshare.28703654.v2
title: Python’s Evolution on Stack Overflow: An Empirical Analysis of Topic Trends

description: This is the experiment data of the thesis "Python's Evolution on Stack Overflow: An Empirical Analysis of Topic Trends". This dataset is from the open source "Stack Exchange Data Dump", which shares the latest posts information monthly. The data downloaded for this study was published on September 5, 2023.Raw DataThis is the raw data of "Stack Exchange Data Dump". We just separate them by year. The original data source is from : <b>h</b><b>ttps://archive.org/details/stackexchange</b>Training DataEach set contains two files, Training Set and Rater, Training Set is the content of the training set, i.e., the file in which the model is directly trained, and the Grade column is the result of the machine's prediction.The Rater file contains the data of the manual scoring, and contains the following sections:1. the rating data for each rater, with the specific column name Rater- rater number (e.g. Rater-1)2. the machine-predicted rating Predicted-Grade3. the average of the manual ratings (after removing the highest and lowest)Predicted Data(xlsx)Inside is the result of each year after heat calculation, some of the column names are the original column names in the xml file, some of the column names are added for better prediction of the heat value:BodyLength: The length of post content.CreateDate: The date calculation is converted to the number of days from column 'CreationDate' to September 30, 2023 (i.e., the last day of the month in which the dataset was published) to avoid the date of some posts being converted to zero.ActiveDate: The date calculation is converted to the number of days from column 'LastActivityDate' to September 30, 2023 (i.e., the last day of the month in which the dataset was published) to avoid the date of some posts being converted to zero.Score-1: The result of dividing the total number of 'Score' by the 'CreateDate' (i.e., the value of scores earned per day)Predicted_Grade: Grades predicted for each postGradeScore: Each grade's value<br>
DOI: 10.6084/m9.figshare.4560766.v1
title: Supplementary Material for: Risk of Intracranial Hemorrhage after Endovascular Treatment for Acute Ischemic Stroke: Systematic Review and Meta-Analysis

description: <b><i>Background:</i></b> Intracranial hemorrhage is a major complication of endovascular treatment in patients with acute ischemic stroke. Controlled clinical trials reported varied incidences of intracranial hemorrhage after endovascular treatment. This meta-analysis aimed to estimate whether endovascular treatment, compared with medical treatment, increases the risk of intracranial hemorrhage in patients with acute ischemic stroke. <b><i>Methods:</i></b> The current publications on endovascular treatment for acute ischemic stroke were systematically reviewed. Rates of intracranial hemorrhage after endovascular treatment for acute ischemic stroke reported in controlled clinical trials were pooled and analyzed. Random and fixed-effect models were used to pool the outcomes. For analyzing their individual risks, intracranial hemorrhages after endovascular treatment were classified as symptomatic and asymptomatic. <b><i>Results:</i></b> Eleven studies involving 1,499 patients with endovascular treatment and 1,320 patients with medical treatment were included. After pooling the data, the risk of any intracranial hemorrhage was significantly higher in patients with endovascular treatment than in patients with medical treatment (35.0 vs. 19.0%, OR = 2.55, 95% CI: 1.64-3.97, <i>p &lt; </i>0.00001). The risk of asymptomatic intracranial hemorrhage was also significantly higher in patients with endovascular treatment than in those with medical treatment (28 vs. 12%, OR = 3.16, 95% CI: 1.62-6.16, <i>p </i>&lt; 0.001). However, the risks of symptomatic intracranial hemorrhage were similar in patients with endovascular treatment and in those with medical treatment (5.6 vs. 5.2%, OR = 1.09, 95% CI: 0.79-1.50, <i>p</i> = 0.61). <b><i>Conclusion:</i></b> Although the risk of any intracranial hemorrhage may increase after endovascular treatment, the risk of symptomatic intracranial hemorrhage may remain similar as compared with medical treatment.
DOI: 10.6084/m9.figshare.25202678.v1
title: <b>Inhibition of ACSS2-mediated </b><b> crotonylation alleviates kidney fibrosis via IL-1β-dependent macrophage activation and tubular cell senescence</b>

description: Histone lysine crotonylation (Kcr), as a novel posttranslational modification, is widespread as acetylation (Kac); however, its roles are largely unknown in kidney fibrosis. In this study, we reported that histone Kcr of tubular epithelial cells wasis abnormally elevated in fibrotic kidneys. By screening these crotonylated/acetylated factors, a crotonyl-CoA-producing enzyme ACSS2 (acyl-CoA synthetase short chain family member 2) wasis found to remarkably increase histone 3 lysine 9 crotonylation (H3K9cr) level without influencing H3K9ac in kidneys and tubular epithelial cells. The integrated analysis of ChIP-seq and RNA-seq of fibrotic kidneys revealed that the hub proinflammatory cytokine IL-1β, which is regulated by H3K9cr, play crucial roles in fibrogenesis. Furthermore, genetic and pharmacologic inhibition of ACSS2 both suppressed H3K9cr-mediated IL-1β expression, which thereby alleviated IL-1β-dependent macrophage activation and tubular cell senescence to delay renal fibrosis. Collectively, our findings uncover that H3K9cr exerts a critical, previously unrecognized role in kidney fibrosis, where ACSS2 represents an attractive drug target to slow fibrotic kidney disease progression.
DOI: 10.6084/m9.figshare.25265965.v2
title: raw data.zip

description: ATG5-mediated keratinocyte ferroptosis promotes M1 polarizationof macrophages to aggravate UVB-induced skin inflammation
DOI: 10.6084/m9.figshare.26506846.v1
title: Kuempel_offshore_wind_CIA

description: Offshore renewable energy holds promise for sustainably achieving emission reduction targets. However, offshore industries transform land and seascapes with resultant trade-offs for both nature and people. Cumulative impacts have long been a challenging issue for environmental management, creating uncertainty around development limits in a region and risks to financial investments, particularly for nascent industries and governments striving to meet tight deadlines for international commitments. Here, we provide recommendations for improved accounting of cumulative impacts in offshore renewable energy sectors based on scientific best practice including: 1) clear pathways from activity to impact, 2) accounting for the full suite of cumulative impacts, 3) integration across realms and jurisdictions, 4) systematic planning processes to guide fair and equitable development opportunities within and across sectors, and 5) transparent and reproducible assessments. We demonstrate opportunities and challenges of implementing our recommendations using offshore wind project proposals in Australia, where the development of the offshore wind industry is in progress. Our recommendations outline key considerations for cumulative impact accounting in offshore energy development globally, and increase potential for positive outcomes for people and nature across these rapidly expanding sectors.<br>
DOI: 10.15468/dl.gt3899
title: Occurrence Download

description: A dataset containing 2793 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Observation, Human Observation, Machine Observation, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Cosmia pyralina (Denis & Schiffermüller), 1775"
 ]
}

 The dataset includes 2793 records from 59 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009620-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.12464870.v1
title: Perceptual competition between targets and distractors determines working memory access and produces intrusion errors in RSVP tasks

description: The two files reflect the full behavioural results from 4 experiments and main ERP results from one experiment. Each sheet reflects one experiment. The ERP recording information was as follows: A 500-Hz sampling rate with a 40 Hz low-pass filter was applied. Channels were referenced online to a left-earlobe electrode, and re-referenced offline to an average of both earlobes. Trials with eye blinks (exceeding ±60 µV at Fpz), horizontal eye movements (exceeding ±30 µV in the HEOG channels), and muscle movement artifacts (exceeding ±80 µV at all other channels) were removed as artifacts. In one analysis (one-item versus two-item trials) EEG was segmented into epochs from from 100 ms before to 800 ms after the onset of the target frame, relative to a 100 ms pre-stimulus baseline. In a second analysis (target 1<sup>st</sup> versus intrusion 1<sup>st</sup>) EEG was segmented into epochs from from 100 ms before to 500 ms after the onset of the target frame, relative to a 100 ms pre-stimulus baseline. The ERP results file average LRP difference wave (contralateral minus ipsilateral) at PO7 and PO8 electrodes. Averaged ERP waveforms were computed for trials with a target in the left or right RSVP stream, and LRPs triggered by the target frame were computed by comparing ERPs at electrodes PO7/PO8 contralateral and ipsilateral to the location of the target. Each column reflects the average results of a single participant, as a function of their response. In the first sheet: single item reports (target or distractor) vs. two item reports (target and distractor). In the second sheet: target first vs. intrusion first. For both cases, two additional sheets are included with an application of an additional 10 hz filter to segments.
DOI: 10.6084/m9.figshare.14851050.v2
title: AuPS27_data.zip

description: Particle locations, optical constants of gold and polystyrene, processed anisotropy vs. q data
DOI: 10.6084/m9.figshare.3519590.v1
title: Supplement 1. Forest/nonforest rasters for the four dates considered, a 25-m resolution digital elevation model, and a shapefile representing the nongrazed area.

description: File List DEM25_RNHPV.tif (MD5: a3c79a31ed84d1e71640612fa50c3bfc) FOR09.img (MD5: f883124fff247221b57192aebd4ffb8f) FOR93.img (MD5: d62eeb665ce38ff9abe35a19911dea57) FOR78.img (MD5: 4af6115eac3f1f8f827d6fe098b118a0) FOR48.img (MD5: 77f6fbe599cf3e4bef59c16781fb76c4) Non_grazed.zip (md5: f9c6775d1e960155c4ea14e01793d0e8) Description DEM25_RNHPV.tif contains a 25-m resolution digital elevation model of the study area. The .img files consist of 5-m resolution binary rasters of forest cover for the four dates considered. Non_grazed.zip includes four files (.sbn, .sbx, .shp, and .shx) that constitute a shapefile of the non-grazed zone considered in this study. All maps are projected using the GRS80 Lambert Azimuthal Equal Area projection. It is important to note that this Supplement contains raw data. Our intention is to provide interested parties with the input information necessary to carry out their own analysis of land cover change in the Réserve Naturelle du Hauts Plateaux du Vercors (RNHPV), France. All of the included files are intended to be opened and manipulated in a Geographic Information System (GIS). Below is an example of code for opening either a .img or .tif file in R. Files can also be opened automatically using GIS software such as ArcMap or QGIS. <pre> #Required install.packages("raster") ; install.packages("rgdal") library(raster) setwd("//...") forest09 </pre>
DOI: 10.6084/m9.figshare.5107711.v1
title: Heagy et al 2017 Inversion of RESOLVE and SkyTEM data at Bookpurnong

description: Inversion of RESOLVE (2008) and SkyTEM (2006) data as presented in <br>Heagy, L.J., R. Cockett, S. Kang, G.K. Rosenkjaer, D.W. Oldenburg,2017 (in review), A framework for simulation and inversion in electromagnetics.Computers & Geosciences. <br>There are 3 scripts included: (1) plot_load_booky.py loads the RESOLVE and SkyTEM data and plots them. This produces resolve_skytem_data.png. (2) plot_booky_1D_time_freq_inv.py performs a 1D inversion for a single sounding from each of the RESOLVE and the SkyTEM data sets. This produces booky_1d_time_freq.png. (3) plot_booky_1Dstitched_resolve_inv.py performs a 1D stitched inversion of downsampled RESOLVE data. This produces the image resolve_cond_9m.png which shows a depth slice through the recovered model and predicted and observed data at 400Hz (real). <br>The RESOLVE and SkyTEM data collected over Bookpurnong have been made available with permission from CSIRO. Please acknowledge CSIRO if using these data in a presentation, publication, etc.
DOI: 10.17028/rd.lboro.3518108.v1
title: Prediction results with selected sensors at different loading conditions

description: Figure 8 of Selection of optimal sensors for predicting performance of polymer electrolyte membrane fuel cell, which is published in Journal of Power Sources <br> <br>
DOI: 10.6084/m9.figshare.5492929.v1
title: Supplementary Material for: Mortality and Cardiovascular Morbidity Associated with Haemoglobin Levels: A Pooled Analysis of Randomised Controlled Trials

description: <b><i>Background/Aims:</i></b> Several randomised controlled trials (RCTs) have raised concerns about potential harm associated with erythropoiesis-stimulating agents (ESAs) in chronic kidney disease patients, especially when haemoglobin (Hb) levels above 13 g/dl were targeted. We report the relationship between Hb levels and outcomes in the methoxy polyethylene glycol-epoetin beta RCT programme. <b><i>Methods:</i></b> We assessed the association between Hb and a composite end point, as well as its components [all-cause mortality, myocardial infarction (MI) or cerebrovascular events (CVE)], in multiple post hoc analyses of 9 prospective RCTs (3,405 chronic kidney disease patients). Mean Hb levels over time and deviation from target were analysed using a Cox regression model. Time-adjusted average Hb, deviation from target, the last Hb, Hb slope and within-patient Hb variability preceding an event were analysed using a time-dependent Cox model. Hazard ratios and 95% confidence intervals were calculated. <b><i>Results:</i></b> Average Hb &lt;10 g/dl, decrease from stable baseline Hb &gt;1 g/dl, last Hb &lt;10 g/dl, Hb decline &gt;1.5 g/dl/4 weeks and increased Hb variability were associated with a higher risk of the composite end point and all-cause mortality. An increased risk for CVE and MI was found with a last Hb &lt;10 g/dl and with a decrease from baseline &gt;1 g/dl in the preceding month. <b><i>Conclusion:</i></b> In multiple analyses from a large programme of prospective clinical trials of ESA treatment, risk of all-cause mortality and cardiovascular morbidity risk was consistently higher at Hb &lt;10 g/dl and in patients whose Hb fell below target.
DOI: 10.6084/m9.figshare.8206568.v1
title: pick

description: Tomographic image of a toothpick.
DOI: 10.15131/shef.data.20004806.v1
title: Data from: The homogenisation of avian morphological and phylogenetic diversity under the global extinction crisis.

description: <strong>Data supporting manuscript:</strong> Hughes, E.C., Edwards, D.P. & Thomas, G.H. The homogenisation of avian morphological and phylogenetic diversity under the global extinction crisis. Current Biology. <br> <strong>SUMMARY</strong> Biodiversity is facing a global extinction crisis that will reduce ecological trait diversity, evolutionary history, and ultimately ecosystem functioning and services. A key challenge is understanding how species losses will impact morphological and phylogenetic diversity at global scale. Here, we test whether the loss of species threatened with extinction according to the IUCN leads to morphological and phylogenetic homogenisation across both the whole avian class, and within each biome and ecoregion globally. We use a comprehensive set of continuous morphological traits extracted from museum collections of 8455 bird species, including geometric morphometric beak shape data,9 and sequentially remove species from those at most to least threat of extinction. We find evidence of morphological, but not phylogenetic, homogenisation across the avian class, with species becoming more alike in terms of their morphology. We find that most biome and ecoregions are expected to lose morphological diversity at a greater rate than predicted by species loss alone, with the most imperilled regions found in East Asia and the Himalayan uplands and foothills. Only a small proportion of assemblages are threatened with phylogenetic homogenisation, in particular parts of Indochina. Species extinctions will lead to a major loss of avian ecological strategies, but not a comparable loss of phylogenetic diversity. As the decline of species with unique traits and their replacement with more widespread generalist species continues, the protection of assemblages at most risk of morphological and phylogenetic homogenisation should be a key conservation priority.
DOI: 10.6084/m9.figshare.3079963.v1
title: DFT study of the oxidation of primary alcohols by TEMPO+ cation in presence of NaCO3- buffer: concerted hydride transfer pathway

description: Data to support article: Hydrodynamic Rocking Disc Electrode Study of EC’-Type TEMPO-Mediated Primary Alcohol Oxidations <br> DOI: 10.6084/m9.figshare.3079963 Journal: Electroanalysis<br> Authors: Sunyhik D. Ahn <sup>a</sup>, Adrian C. Fisher <sup>b</sup>, Antoine Buchard <sup>a</sup>, <br> Steven D. Bull <sup>a</sup>, Alan M. Bond <sup>c</sup>, and Frank Marken*<sup>a</sup><sup><br></sup> <sup> </sup><i><sup>a</sup> Department of Chemistry, University of Bath, Claverton Down, Bath BA2 7AY, UK</i> <i><sup>b</sup> Department of Chemical Engineering, University of Cambridge, New Museums Site, Pembroke Street, Cambridge, CB2 3RA, UK</i> <i><sup>c</sup> Monash University, School of Chemistry, Clayton, Vic 3800, Australia</i> DFT study: - The DFT optimised geometries and computed free enthalpies of various primary alcohols and aldehydes was used to calculate the thermodynamics of the oxidation reaction of various primary alcohols in presence of TEMPO+ cation and NaCO3- anion. - A concerted hydride transfer step was also calculated and used to calculate the related activation barrier for each alcohol Protocol: rB3LYP/6-311+G(d,p)/cpcm=water/T=298.15K Content: - Gaussian09 rev A.02 output files <br>
DOI: 10.6084/m9.figshare.3514673.v1
title: Appendix A. Detailed information on study sites.

description: Detailed information on study sites.
DOI: 10.6084/m9.figshare.28486145.v1
title: Data structures and source data for the manuscript: <b>"</b><b>L</b><b>ayer 6 corticocortical neurons are a major route for intra and interhemispheric feedback " </b>by<b> </b>Simon Weiler, Manuel Teichert and Troy W. Margrie"

description: Data structures and Data source files. Please see also readme fileThis is the explanation of the data structure and CSV files for the manuscript:Layer 6 corticocortical neurons are a major route for intra and interhemispheric feedbackSimon Weiler, Manuel Teichert and Troy W. Margrie<br>Data_structure: Data_SW_20-02-Apr-2024.mat<br><br><br>Explanation of 12 fields in mat structure:<br>1) animal_name: name of animal<br>2) recording_date: date of recording of serial2p data<br>3) virustype: 1=retro; 10=retro outlier example<br>4) area=injection area; 0=mono VISp, 1=bino VISp, 2=SSpfb, 3=MOp<br>5) hemisphere=injection hemisphere; 0= right 1= left<br>6) gender= male or female; 0= F; 1= M<br>7) age= age of perfusion in weeks<br>8) area_names_1-xx= brain area name<br>9) ipsi_cellnr_1_xx = cell numbers ipsi in the given area<br>10) contra_cellnr_1_xx = cell numbers contra in the given area<br>11) ipsi_cellden_1_xx = cell density ipsi in the given area<br>12) contra_cellden_1_xx = cell density contra in the given area<br><br>CSV file: names_abbreviations.csv<br>First column: number of cortical areas<br>Second column: abbreviation of cortical name<br>Third column: full cortical name<br>Fourth column: x-coordinate of the cortical area in the flatmap<br>Fifth column: y-coordinate of the cortical area in the flatmap<br><br><br>CSV file: GAD_overlap.csv<br>First column: mean overlap fraction for L2/3, L4, L5, L6<br>Second column: sem overlap fraction for L2/3, L4, L5, L6<br>Third column, first row: Overall mean overlap fraction<br>Fourth column, first row: Overall sem overlap fraction<br><br>CSV file: injection_bolus.csv<br>First column: volume per viral injection for VISp<br>Second column: volume per viral injection for SSp-bfd<br>Third column: volume per viral injection for MOp<br>Fourth column: volume per viral injection for single oultier animal where injection was mainly in MOs<br><br>CSV file: injection_quant.csv<br>Percentgae of bolus volume in different brain areas for MOp, SSp-bfd and VISp<br><br>CSV files: ipsi_contra_homo_excluded and ipsi_contra_homo_included.csv<br>Area abbreviations and fraction of neurons excluding or including homotopic area for VISp, SSp-bfd, MOpWe also provide the cortical flatmap as svg. (please see cortical flatmap: https://ccf-streamlines.readthedocs.io/en/latest/data_files.html#data-files)<br><br>
DOI: 10.21942/uva.5822100.v1
title: Twemoji Dataset

description: Collection of 13M tweets divided into training, validation, and test sets for the purposes of predicting emoji based on text and/or images.
DOI: 10.6084/m9.figshare.28856267.v4
title: Supporting Information

description: This supporting information includes supplementary materials relevant to the content discussed in the main article, such as additional figures and data tables. These materials provide further details that aid in a deeper understanding of the results and discussion presented in this study. This dataset is associated with a manuscript under peer review. Please do not reuse without permission.
DOI: 10.6084/m9.figshare.19658487.v1
title: PHBL_VCF

description: Filtered sequencing files (VCF format)