cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.23599131.v1
title: Numerical simulation study on the wind pressure characteristics of low-rise buildings in sandstorm environment

description: The data describe the wind pressure characteristics of low-rise buildings in sandstorm .
DOI: 10.6084/m9.figshare.27609555.v1
title: Code and data for <i>Navigating Time's Possibilities: Plausible Counterfactual Explanations for Multivariate Time-Series Forecast through Genetic Algorithms</i>

description: Data and code for easy reproducibility of results described in the paper <i>Navigating Time's Possibilities: Plausible Counterfactual Explanations for Multivariate Time-Series Forecast through Genetic Algorithms</i><i>, </i>published on the IEEE TrustCom-2024 (23rd IEEE International Conference on Trust, Security and Privacy in Computing and Communications).Please see the paper for the full author list and more details. https://doi.org/10.1109/TrustCom63139.2024.00359<br>
DOI: 10.25403/upresearchdata.26840449.v1
title: Internal control disclosure index

description: The dataset is the result of a directed content analysis of the integrated reports of the Top 40 listed companies in South Africa from 2020 to 2022. The directed content analysis measured the internal control components in a newly developed internal control disclosure index (ICDI) to measure the level of internal control disclosed by the companies. This is the first ICDI for listed companies in South Africa and the existence of the index will enable outside stakeholders to assess internal control within companies and between companies.
DOI: 10.60893/figshare.jcp.27273486.v1
title: Supplement Number 1

description: The supplementary material includes data files containing a feature selection analysis for the ML-based mode and state-selected cross section datasets predicted in this study
DOI: 10.6084/m9.figshare.25332583.v1
title: Table S9_Homeobox Uniprot Screen in O-GlcNAc Database

description: The list of human proteins in reviewed entries obtained from UniprotKB was searched in the O-GlcNAc database (oglcnac.com)
DOI: 10.6084/m9.figshare.27118044.v1
title: Norwegian Parliamentary Debates Dataset

description: Norwegian Parliamentary debates 1945-2024 with speaker and speech metadata
DOI: 10.6084/m9.figshare.5236150.v1
title: Online material for "On the Optimal Order of Reading Source Code Changes for Review"

description: Online material for our paper "On the Optimal Order of Reading Source Code Changes for Review", published at ICSME '17.<br>It contains:- The code changes used during the interviews- The interview transcripts- Coding and memoing data from the analysis of the interviews- The aggregated empirical navigation data from the instrumented code review tool- The source code of tools used during the analysis- The complete survey questions (Limesurvey export as well as human readable)- The raw data results from the survey, as well as some derived data sets
DOI: 10.6084/m9.figshare.20220054.v1
title: SciSciNet_Journals

description: SciSciNet_Journals
DOI: 10.6084/m9.figshare.16803523.v2
title: Transcriptomic analysis of human endometrial stromal cells during early embryo invasion

description: During early embryo invasion (48 h after embryo attachment), what functional changes accompany dynamic gene expression alterations in human endometrial stromal cells? In the present study, primary human endometrial stromal cells (phESCs) were cultured. After <i>in vitro</i> decidualization, primary human endometrial stromal cells (phESCs) were cultured with blastocysts for 48 h. During this process, blastocysts attached and invaded the phESCs (embryo-invaded primary human endometrial stromal cells, ehESCs). We performed comprehensive transcriptomic profiling of phESCs (two replicates) and ehESCs (five replicates) and analyzed the differentially expressed gene (DEGs) sets for gene ontology (GO) terms and Kyoto encyclopaedia of genes and genomes (KEGG) pathway enrichment. To analyse potential connectivity patterns between the transcripts in these DEG sets, a protein-protein interaction (PPI) network was constructed using the STRING database. A total of 592 DEGs were identified between phESCs and ehESCs after embryo invasion. Primary human endometrial stromal cells underwent significant transcriptomic changes that occur in a stepwise fashion. Oxidative phosphorylation, mitochondrial organization, and P53 signalling pathways were significantly altered in phESCs after embryo invasion. EP300 may play a key role in regulating transcription <i>via</i> chromatin remodelling to facilitate the adaptive gene expression changes that occur during embryo invasion. Our data identify dynamic transcriptome changes that occur in endometrial stromal cells within 48 h after embryo invasion. The pathways that we found to be enriched in phESCs after embryo invasion (oxidative phosphorylation, mitochondrial organization, and P53 signalling) may represent novel mechanisms underlying embryo implantation, and may illuminate the reasons that some women experience reproductive failure.Key messagesHuman endometrial stromal cells have undergone changes in gene expression regulation and signalling pathways during the embryo invasion.Mitochondrial-oxidative phosphorylation changes in human stromal cells manifested as down-regulation of gene expression in the electron transport chain.TP53 signalling pathway and transcriptional regulator EP300 assist stromal cells to get adaptive changes during embryo invasion phase. Human endometrial stromal cells have undergone changes in gene expression regulation and signalling pathways during the embryo invasion. Mitochondrial-oxidative phosphorylation changes in human stromal cells manifested as down-regulation of gene expression in the electron transport chain. TP53 signalling pathway and transcriptional regulator EP300 assist stromal cells to get adaptive changes during embryo invasion phase.
DOI: 10.6084/m9.figshare.20499630.v2
title: Batch Alignment of single-cell transcriptomics data using Deep Metric Learning

description: All scRNA-seq datasets analyzed in scDML.
DOI: 10.6084/m9.figshare.27141357.v1
title: Supplementary Material for: Clinical value of impulse oscillometry in chronic obstructive pulmonary disease: a systematic review and meta-analysis

description: Introduction: Impulse oscillometry (IOS) is an effortless test compared to spirometry. Numerous studies explored the role of IOS in spirometry-based chronic obstructive pulmonary disease (COPD), but most of them had limited sample sizes with poor statistical power. This systematic review and meta-analysis aimed to pool the individual data and quantitatively analyze the clinical value of IOS in COPD. 
Methods: PubMed, Web of Science, Ovid, Cochrane Library, China National Knowledge Internet and Wanfang were searched for studies with comparisons of IOS indicators between COPD patients and healthy controls, including respiratory resistance at 5Hz (R5) and 20Hz (R20), difference between R5 and R20 (R5-R20), respiratory reactance at 5 Hz (X5), resonant frequency (Fres), and area of reactance (Ax). Meta-analyses were conducted to calculate the weighted mean differences (WMDs) and 95% confidence intervals (CIs). 
Results: 39 eligible studies were enrolled, involving 6144 COPD patients and 4611 healthy controls. Relative to healthy controls, COPD patients had significantly higher R5 (WMD: 0.17, 95% CI: 0.14, 0.20), R5-R20 (WMD: 0.13, 95% CI: 0.11, 0.15), Fres (WMD: 9.04, 95% CI: 7.66, 10.42), Ax (WMD: 1.24, 95% CI: 0.86, 1.61) and lower X5 (WMD: -0.15, 95% CI: -0.18, -0.11), and such differences became even greater as the Global Initiative for Chronic Obstructive Lung Disease (GOLD) stage escalated. Pooled correlation coefficients presented that R5, R5-R20, Fres and X5 were significantly related to post-bronchodilator forced expiratory volume in the first second (FEV1)/forced vital capacity (FVC) ratio (meta r = -0.37, -0.45, -0.53 and 0.42 respectively) and FEV1 as a percentage of predicted value (FEV1% pred) (meta r = -0.43, -0.54, -0.59 and 0.56 respectively). 
Conclusion: IOS may be a supplement to spirometry in diagnosing and assessing COPD, especially when spirometry is inappropriate. More well-designed, large sample sized, prospective studies are warranted to establish an IOS-based criterion for COPD management.
DOI: 10.6084/m9.figshare.28607750.v1
title: Supplementary Material for: Acute Visual Loss and Mesenteric Nodules: Two Case Reports of Atypical Presentations of Calciphylaxis

description: Introduction
Calciphylaxis is a systemic disease that predominantly affects individuals with chronic kidney disease, particularly in the advanced stages. It is a potentially life-threatening condition with significant morbidity. The exact underlying mechanisms leading to calciphylaxis are not fully understood. Cutaneous manifestations are the typical presentation of calciphylaxis, where patients develop painful skin ulcers affecting their extremities. However, calciphylaxis involving visceral organs are rare. 
Case Presentations
We present two cases where the initial clinical picture of calciphylaxis were atypical. The first case is a haemodialysis patient presenting with unilateral acute vision loss, mimicking giant cell arteritis (GCA). The second case is a failed transplant graft recipient on peritoneal dialysis with incidental radiological findings of heavily calcified mesenteric nodules. 
Conclusion 
These cases highlight the importance of a high clinical suspicion of calciphylaxis as it can masquerade other clinical conditions.
DOI: 10.6084/m9.figshare.7442273.v5
title: Conversational Networks For Automatic Online Moderation

description: Figures used in the following articles :<br>"Conversational Networks For Automatic Online Moderation", Etienne Papegnies, Vincent Labatut, Richard Dufour & Georges Linarès, IEEE Transactions on Computational Social Systems 6(1):38-55, 2019. DOI: 10.1109/tcss.2018.2887240<br>"Abusive Language Detection in Online Conversations by Combining Content- and Graph-based Features", Noé Cécillon, Vincent Labatut, Richard Dufour & Georges Linarès, submitted to Soc2Net workshop 2019.<br>
DOI: 10.6084/m9.figshare.25721466.v1
title: <b>Multidimensional primate niche space sheds light on interspecific competition in primate evolution</b>

description: We describe and analyse seven-dimensional niche space, comprising 11 traits, for 191 primate species. The evolution of species’ locations in niche space is regulated by selection for adaptive optima in trait combinations. Given that niche similarity results in interspecific competition, we quantify two measures of species’ niche locations relative to others. Our results provide a standardised measure of primate niches that sheds light on the partitioning and evolution of primate diversity, and how this is driven by interspecific competition.
DOI: 10.6084/m9.figshare.7718147.v1
title: Supplementary Material for: Liver Fibrosis, Not Steatosis, Associates with Long-Term Outcomes in Ischaemic Stroke Patients

description: <b><i>Background:</i></b> To investigate whether there are differences in long-term all-cause and cardiovascular mortality according to the burden of liver fibrosis or steatosis in patients with ischaemic stroke or transient ischaemic attack (TIA). ­<b><i>Methods:</i></b> Consecutive patients with acute ischaemic stroke or TIA who underwent transient elastography (TE) from January 2014 to December 2014 were considered eligible. The influence of liver fibrosis or steatosis, assessed via TE, on long-term outcomes was investigated using Cox proportional hazard models. <b><i>Results:</i></b> Among 395 patients included in this study, there were 37 (9%) patients with significant fibrosis (&gt; 8.0 kPa) and 164 (41.5%) patients with fatty liver (&gt; 250 dB/m). During the follow-up period (median 2.7 years), all-cause and cardiovascular mortality occurred in 28 (7.1%) and 20 (5.1%) patients. On multivariate analyses, significant liver fibrosis was independently associated with increased risk of all-cause (hazard ratio [HR] 8.14, 95% CI 3.03–21.90, <i>p</i> p = 0.036) mortality, whereas fatty liver was not (all <i>p</i> &gt; 0.05). <b><i>Conclusions:</i></b> This study found that the burden of liver fibrosis but not that of steatosis, assessed via TE, was an independent predictor of all-cause and cardiovascular mortality during long-term follow-up in patients with ischaemic stroke.
DOI: 10.6084/m9.figshare.23631495.v1
title: Isolate contigs

description: Contigs corresponding to Campylobacter genomes used in the study. All genomes are also found on pubMLST (https://pubmlst.org/)
DOI: 10.6084/m9.figshare.25586217.v2
title: Eucalyptus_points_cleaned.csv

description: We selected 395,289 coordinates of eucalypt distribution points in GBIF from 2001 to 2021. After removing erroneous coordinate data (such as those located on the sea or in the central Australian desert), we retained 313,146 eucalypt coordinate data from GBIF. In total, we used 313,236 location data points (313,146 from GBIF, 44 from CNKI, and 46 from Web of Science) of eucalypt in this study. We input the 313,236 eucalypt IFP distribution points into Google Earth Engine (GEE) 47. Subsequently, we extracted the NPP data for each point from the “MODIS/Terra Net Primary Production Gap-Filled Yearly L4 Global 500” dataset in GEE. Lastly, we intergrated the following data into our dataset: 1) 21 climatic factors, including annual mean vapor pressure deficit (Annual mean VPD) and vapor pressure deficit of warmest quarter (warmest quarter VPD); 2) 15 soil factors; and 3) groundwater percentile.
DOI: 10.25402/nnm.22761587.v1
title: Enhanced apoptosis and mitochondrial cell death by paclitaxel-loaded TPP-TPGS1000-functionalized nanoemulsion - supplementary data

description: Background: The present research was designed to develop a nanoemulsion (NE) of triphenylphosphine-
D-α-tocopheryl-polyethylene glycol succinate (TPP-TPGS1000) and paclitaxel (PTX) to effectively deliver
PTX to improve breast cancer therapy. Materials & methods: A quality-by-design approach was applied
for optimization and in vitro and in vivo characterization were performed. Results: The TPP-TPGS1000-
PTX-NE enhanced cellular uptake, mitochondrial membrane depolarization and G2M cell cycle arrest
compared with free-PTX treatment. In addition, pharmacokinetics, biodistribution and in vivo live
imaging studies in tumor-bearing mice showed that TPP-TPGS1000-PTX-NE had superior performance
compared with free-PTX treatment. Histological and survival investigations ascertained the nontoxicity
of the nanoformulation, suggesting new opportunities and potential to treat breast cancer. Conclusion:
TPP-TPGS1000-PTX-NE improved the efficacy of breast cancer treatment by enhancing its effectiveness and
decreasing drug toxicity.
DOI: 10.6084/m9.figshare.12762845.v1
title: Dataset S2 - Genbank Identification Numbers.xlsx

description: Genbank Identification numbers for each of the genomes downloaded and included in the phylogenetic analysis. “–“ indicates data not downloaded for that genome.
DOI: 10.6084/m9.figshare.15112320.v1
title: Yoga Pose Dataset

description: The in-house Yoga pose dataset consists of 27 individuals, comprising nineteen females and eight males, performing each of the ten Yoga poses, namely Malasana, Ananda Balasana, Janu Sirsasana, Anjaneyasana, Tadasana, Kumbhakasana, Hasta Uttanasana, Paschimottanasana, Uttanasana, and Dandasana. The videos of the Yoga poses are collected in both 1080p and 4K resolution at a rate of 30 frames per second using MI Max and One Plus 5T mobile phones. We captured the videos at various locations like gardens, rooms, certified Yoga centers, and terraces to increase the generality of the dataset and make the dataset more realistic so that the model trained using the dataset would work in a complex real-world environment. It is worth mentioning that our in-house created dataset does not contain any video sample created in the controlled laboratory-like environment with proper illumination. We did this deliberately to enhance the generalization ability of the models trained on our dataset. The individuals have voluntarily participated in data collection and have performed the ten Yoga poses with possible variations. <br>
DOI: 10.6084/m9.figshare.26047729.v1
title: Towards Informatics-Driven Design of Nuclear Waste Forms: Supporting Data

description: Supporting data and scripts for the publication "Towards Informatics-Driven Design of Nuclear Waste Forms", Hegde et al., preprint at https://doi.org/10.48550/arXiv.2405.09897 (2024).
DOI: 10.6084/m9.figshare.13072646.v1
title: Mykrobe panel sonnei version 20201012

description: This is sonnei panel data version 20201012, to be used by the command line tool mykrobe
DOI: 10.6084/m9.figshare.20089409.v1
title: Source Data: Flower patterns improve foraging efficiency in bumblebees independent of nectary guidance

description: Source data for the study: Flower patterns improve foraging efficiency in bumblebees independent of nectary guidance <br> MeasurementsPatternColour.xlsx: relative reflectance measurements of the two colours used in the artificial flowers <br> TrackData contains folders with the data used for analysis of the bees flight and walking tracks for all conditions: no, line, cross, icross (inner cross), ocross (outer cross). Each folder contains one .mat file per animal with the following identifiers: allRotData_AnimalID_patternID_recordingDate&Time BGi+ (foreground, background - B=blue, G=yellow, pattern type - cross: +, line: -, i = inner, o=outer). <br> Each file contains the following data, all rotated to that the patterns main axis (or the closest axis in the case of crosses) is parallel to the Y-Axis of the coordinate system: outlineR: 4 points marking outline of the circle of the flower patternR: base points of the pattern pixPerMM: pixels corresponding to 1mm allHeadR, allThoraxR: x and y coordinates of the head and thorax for 5 flower inspections of this bee allProbR: indicates all times during which the bee is walking or sitting on the flower by ~NaN entries timeBouts: start and end timepoints of walking/sitting phase on the flower for all approaches feedBouts: start and end timepoints of feeding phase on the flower for all approaches allDataR: stores the allProbR, allHeadR, allThoraxR, allOutlineR, allPatternR) <br> <br>
DOI: 10.6084/m9.figshare.24058452.v1
title: Cooley_Hall_and_Ridley_Raw_data_Impact_of_listening

description: This is the raw data from the study, "The Impact of Listening on Post-Discharge Outcomes After Acute Psychiatric Inpatient Hospitalization," by Ben Cooley Hall and Josephine Ridley. The manuscript has been submitted for publication and is awaiting review.<b>Abstract</b><i><b>Objective:</b></i> The purpose of this study was to explore whether people’s experience of feeling genuinely listened to, and by whom, during inpatient psychiatric hospitalization had an impact on post-discharge outcomes, including patient satisfaction, post-discharge distress, length of stay, rate of readmission, and post-discharge treatment adherence. <i><b>Methods:</b></i><b> </b>Eligible subjects (<i>N</i>=326)—people who were hospitalized in the psychiatric inpatient unit of a large, urban, US veterans’ hospital between May 1, 2016, and December 31, 2016—were mailed consent forms and questionnaire packets, including the APHES (<i>Acute Hospitalization Experiences Survey</i>), Pat-UKU-ConSat (<i>Consumer Satisfaction Rating Scale: Self-Assessment Form</i>), ISMI (<i>Internalized Stigma of Mental Illness</i> scale), and BDI-2 (<i>Beck Depression Inventory</i>). Forty-three people returned completed or partially completed packets and were included in the study. This sample was representative of the larger pool in all respects except that people diagnosed with schizophrenia or personality disorders were slightly underrepresented. <i><b>Results:</b></i><b> </b>Participants’ experience of having felt genuinely listened to during hospitalization—especially by psychiatrists and psychologists—was found to be highly correlated (.756; p&lt;.001) with patient satisfaction but not with any other outcomes that were measured. This correlation was not moderated either by participants’ diagnoses or by their pre-existing attitudes about mental health care. <i><b>Conclusions and Implications for Practice: </b></i>The implication of this finding is that prioritizing genuine listening could significantly improve people’s satisfaction with their inpatient psychiatric care. Further research is needed to determine specific practices most likely to ensure this experience of feeling genuinely listened to.<i>Keywords</i>: listening, psychiatric, inpatient, outcome, satisfaction
DOI: 10.15468/dl.d9qyjh
title: Occurrence Download

description: A dataset containing 1565 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is USA.6_1",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Bouteloua gracilis (Kunth) Lag. ex Griffiths"
 ]
}

 The dataset includes 1565 records from 52 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009453-250426092105405/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.27328584.v1
title: Rock Fracture Geometry Data in Form of Grid Coordinate Points

description: The dataset provides rock fracture geometry data of 30 fracture samples, including granite, marble, and sandstone fractures. Among them, 25 fracture samples (5 rock fractures with different roughness × 5 aperture levels) are used for DNS in the study, and another 5 fracture samples with varying roughness for laboratory experiments.
DOI: 10.6084/m9.figshare.4968476.v5
title: FigShare Data

description: Data for Selective Outcome Reporting project
DOI: 10.6084/m9.figshare.14420426.v1
title: Supplementary Material for: Endotoxin Adsorbent Therapy in Severe COVID-19 Pneumonia

description: <b><i>Introduction:</i></b> Uncontrolled systemic inflammation may occur in severe coronavirus disease 19 (COVID-19). We have previously shown that endotoxemia, presumably from the gut, may complicate COVID-19. However, the role of endotoxin adsorbent (EA) therapy to mitigate organ dysfunction in COVID-19 has not been explored. <b><i>Methods:</i></b> We conducted a retrospective observational study in COVID-19 patients who received EA therapy at the King Chulalongkorn Memorial Hospital, Bangkok, Thailand, between March 13 and April 17, 2020. Relevant clinical and laboratory data were collected by inpatient chart review. <b><i>Results:</i></b> Among 147 hospitalized COVID-19 patients, 6 patients received EA therapy. All of the 6 patients had severe COVID-19 infection with acute respiratory distress syndrome (ARDS). Among these, 5 of them were mechanically ventilated and 4 had complications of secondary bacterial infection. The endotoxin activity assay (EAA) results of pre-EA therapy ranged from 0.47 to 2.79. The choices of EA therapy were at the discretion of attending physicians. One patient was treated with oXiris® along with continuous renal replacement therapy, and the others received polymyxin B hemoperfusion sessions. All patients have survived and were finally free from the mechanical ventilation as well as had improvement in PaO<sub>2</sub>/FiO<sub>2</sub> ratio and decreased EAA level after EA therapy. <b><i>Conclusions:</i></b> We demonstrated the clinical improvement of severe COVID-19 patients with elevated EAA level upon receiving EA therapy. However, the benefit of EA therapy in COVID-19 ARDS is still unclear and needs to be elucidated with randomized controlled study.
DOI: 10.6084/m9.figshare.783066.v3
title: Age-dependent trait evolution code

description: Code for running simulations