cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.27901206.v1
title: A large annotated cervical cytology images dataset for AI models to aid cervical cancer screening

description: This dataset represents a collection of cytology images with exhaustive annotations of abnormal cervical cells, containing 8,037 non-overlapping images of 2048x2048 pixels each. The dataset was derived from 129 scanned Thinprep cytologic test (TCT) slide images reported as abnormal levels at Heilongjiang Maternal and Child Health Hospital. Three professional pathologists then conducted a detailed annotation and review process on these cytology images to generate usable annotation files. Finally, the complete dataset consists all cytology images in .png file format and annotation files of abnormal cells for each cytology image in .xml file format.
DOI: 10.6084/m9.figshare.27037921.v1
title: FSJgenome_July2024_FINAL_master_repeats.lib

description: Repeat library used for repeat annotation during long-read genome assembly of the Florida Scrub-Jay
DOI: 10.6084/m9.figshare.27894810.v1
title: student teacher457data.sav

description: student teacher
DOI: 10.17632/j2ncs4bfxz
title: Survey results on environmental indicators from the ESRS: Materiality, experience and expectations

description: Background: The Corporate Sustainability Reporting Directive (CSRD) demands companies to report in accordance with a set of European Sustainability Reporting Standards (ESRS). The first group of reporting companies will begin for the fiscal year 2024 with first reports in 2025, the second group for 2025 and the third for 2026 onwards. To provide insights to support the implementation of this directive, a survey of companies operating in Norway on their relationship with environmental indicators from the standards was conducted in spring 2024. 
Method: A representative sample of indicators from the standards were picked. Then the survey investigated: 1. Which of these the companies considered material. 2. What experience they had with measuring each material indicators. 3. How challenging they expected each material indicator to be to measure going forward. 
The sample of repondents was gathered though self-selection sampling by advertising for the study among the contacts of the Department of Mechanical and Industrial Engineering at NTNU in Norway. The sample is thus not a probability sample, and the results should not be used for direct statistical inference. The survey therefore also mapped the respondents demographics, by asking them for their sector, value chain position, and which reporting group they pertained to. For more information, await the future linked research article. 
Results: Results are given in the Microsoft Excel file. This also contains the included indicators and explanations for variables and categories.
DOI: 10.6084/m9.figshare.28194542.v3
title: Clostridioides difficile wgMLST scheme.

description: Backup of the BioNumerics Clostridioides difficile wgMLST scheme.
DOI: 10.6084/m9.figshare.28597004.v1
title: vSpeciateIT_V1V9.zip

description: vSpeciateIT_V1V9.zip
DOI: 10.6084/m9.figshare.24592368.v1
title: Supplementary Table 1.docx

description: The demographic data, clinical characteristics, and microbiological findings of pediatric patients are detailed in Supplementary Table 1.
DOI: 10.6084/m9.figshare.4579234.v1
title: Dataset_S5_matrix_FULL_reduction.txt from Computational biomechanics changes our view on insect head evolution

description: Despite large-scale molecular attempts, the relationships of the basal winged insect lineages dragonflies, mayflies and neopterans, are still unresolved. Other data sources, such as morphology, suffer from unclear functional dependencies of the structures considered, which might mislead phylogenetic inference. Here, we assess this problem by combining for the first time biomechanics with phylogenetics using two advanced engineering techniques, multibody dynamics analysis and finite-element analysis, to <i>objectively</i> identify functional linkages in insect head structures which have been used traditionally to argue basal winged insect relationships. With a biomechanical model of unprecedented detail, we are able to investigate the mechanics of morphological characters under biologically realistic load, i.e. biting. We show that a range of head characters, mainly ridges, endoskeletal elements and joints, are indeed mechanically linked to each other. An analysis of character state correlation in a morphological data matrix focused on head characters shows a highly significant correlation of these mechanically linked structures. Phylogenetic tree reconstruction under different data exclusion schemes based on the correlation analysis unambiguously supports a sistergroup relationship of dragonflies and mayflies. The combination of biomechanics and phylogenetics as it is proposed here could be a promising approach to assess functional dependencies in many organisms to increase our understanding of phenotypic evolution.
DOI: 10.6084/m9.figshare.5124592.v1
title: Supplementary Material for: Narrowband Ultraviolet B Interferes with Gene Expression in the Peripheral Blood T Cells of Patients with Psoriasis

description: <b><i>Background:</i></b> Psoriasis pathogenesis and development are closely related to abnormal T cell activity. Narrowband ultraviolet B (NB-UVB) treatment markedly improves skin lesions in psoriasis. <b><i>Objectives:</i></b> To investigate differential gene expression in psoriasis and to understand the possible mechanisms of NB-UVB therapy for psoriasis. <b><i>Methods:</i></b> The mRNA expression profiles and differentially expressed genes from peripheral blood T cells of psoriatic patients before and after NB-UVB treatment were examined using RNA sequencing and validated by real-time reverse-transcription polymerase chain reaction. <b><i>Results:</i></b> A total of 129 genes were differentially expressed in the peripheral blood T cells of psoriatic patients: 83 genes were downregulated and 46 were upregulated in psoriatic patients compared to those of healthy subjects. These genes were enriched in intracellular membrane-bound organelles, membrane-bound organelles and the nucleus, and are involved in the cell cycle, apoptosis, inflammation and other processes. These changes are reversed in psoriatic patients with good clinical outcomes following NB-UVB treatment. <b><i>Conclusion:</i></b> NB-UVB treatment has beneficial effects on local psoriatic lesions, possibly due to its effect on peripheral blood T cell gene expression.
DOI: 10.6084/m9.figshare.4519643.v1
title: Supplementary Material for: Short- and Long-Term Outcomes of Infliximab Treatment for Steroid-Refractory Ulcerative Colitis and Related Prognostic Factors: A Single-Center Retrospective Study

description: <b><i>Background/Aims:</i></b> The aim of this study was to analyze the short- and long-term outcomes of infliximab (IFX) treatment to cure steroid-refractory ulcerative colitis (UC) and related prognostic factors. <b><i>Methods:</i></b> Retrospective data were collected from 125 patients with steroid-refractory UC who received IFX treatment at our center from July 2005 to November 2013. The Lichtiger clinical activity index score was calculated at baseline, 2 weeks, 6 weeks, and 1 year, and the cumulative non-colectomy rate following IFX administration was estimated. Remission rate prognostic factors and the cumulative colectomy rate prognostic factors were evaluated using multivariate logistic regression analysis and multivariate Cox regression analysis, respectively. <b><i>Results:</i></b> Remission rates at 2 weeks, 6 weeks, and 1 year were 46, 58, and 45%, respectively. The 1-, 3-, and 5-year cumulative non-colectomy rates were 80, 78, and 75%, respectively. Previous treatment with calcineurin inhibitors was a significant prognostic factor for lower remission and cumulative non-colectomy rates, whereas concomitant immunomodulators was a significant prognostic factor for the higher remission rate. Gender (female) was a prognostic factor for higher remission rate at 1 year and higher cumulative non-colectomy rate. <b><i>Conclusions:</i></b> This study revealed good short- and long-term outcomes of IFX treatment in patients with steroid-refractory UC. Previous treatment with calcineurin inhibitors was a prognostic factor for poor outcomes of IFX treatment, whereas concomitant immunomodulators and gender (female) were prognostic factors for good outcomes.
DOI: 10.6084/m9.figshare.7376015.v1
title: WikiConv - Russian

description: WikiConv (Russian): A Corpus of the Complete Conversational History of a Large Online Collaborative Community<br><br>This directory contains the WikiConv Corpus which encompasses the full history of conversations on Wikipedia Talk Pages.<br>The project webpage for this work is at: https://github.com/conversationai/wikidetox/tree/master/wikiconv<br>The dataset and reconstruction process for this corpus has been published in the paper [WikiConv: A Corpus of the Complete Conversational History of a Large OnlineCollaborative Community](https://arxiv.org/abs/1810.13181), presented at [EMNLP 2018](http://EMNLP2018.org).<br>The work has also been presented at [the June 2018 Wikipedia researchshowcase](https://www.mediawiki.org/wiki/Wikimedia_Research/Showcase#June_2018) (the first half describes our work, using an earlier version of this dataset to predict [conversations going awry](https://arxiv.org/abs/1805.05345).<br>The meta-data in this corpus is governed by the [CC0 license v1.0](http://creativecommons.org/publicdomain/zero/1.0/), and the content of the comments is governed by the [CC-SA license v3.0](https://creativecommons.org/licenses/by-sa/3.0/).<br>
DOI: 10.6084/m9.figshare.23674488.v1
title: Supplementary Material for: Campylobacter colitis as a trigger for atypical hemolytic uremic syndrome: about one case

description: Hemolytic uremic syndrome (HUS) belongs to the family of thrombotic microangiopathies (TMA). The diagnosis of HUS is suggested by the following triad: mechanical hemolytic anemia, thrombocytopenia and acute renal failure. In general, two types of HUS are distinguished: typical HUS, usually caused by Shiga toxin–producing Escherichia coli (STEC), and atypical HUS (aHUS) caused by deregulated complement activation. Here we present the case of a 17-year-old adolescent with factor H-associated aHUS, whose initial presentation was that of a typical diarrhea-associated HUS. The purpose of this article is to draw attention to this peculiar onset of an authentic aHUS and to stress the importance of analysing the alternate pathway of complement if the course of a supposedly typical HUS turns out to be unusual.
DOI: 10.6084/m9.figshare.17701181.v1
title: EEG Dataset for RSVP and P300 Speller Brain-Computer Interfaces

description: EEG dataset for subject 32
DOI: 10.6084/m9.figshare.19922576.v1
title: Supplementary Material for: Machine learning in the diagnosis and prognostic prediction of dental caries: a systematic review

description: We performed a systematic review to evaluate the success of machine learning algorithms in the diagnosis and prognostic prediction of dental caries. The review protocol was a priori registered in the PROSPERO, CRD42020183447. The search involved electronic bibliographic databases: PubMed/Medline, Scopus, EMBASE, and Web of Science, and grey literature until December 2020. We excluded review articles, case series, case reports, editorials, letters, comments, educational methodologies or assessments of robotic devices and articles with less than 10 participants or specimens. Two independent reviewers selected the studies and performed the assessment of the methodological quality based on standardized scales. We summarize data on the machine learning algorithms used, software, performance outcomes such as accuracy/precision sensitivity/recall, specificity, area under the receiver operating characteristic curve (AUC), and positive/negative predictive values related to dental caries. Meta-analyses were not performed due to methodological differences. Our review included 15 studies (10 diagnostic studies and 5 prognostic prediction studies). Cross-sectional design studies were predominant (12). The most frequently used statistical measure of performance reported in diagnostic studies was AUC value, which ranged from 0.745 to 0.987. For most diagnostic studies, data from contingency tables were not available. Reported sensitivities were higher in low risk of bias prognostic prediction studies (median [IQR] of 0.996 [0.971-1.000] versus unclear/high risk of bias studies 0.189 [0-0.340]; p-value 0.025). While there were no significant differences in the specificity between these subgroups. We concluded that the use of these technologies for the diagnosis and prognostic prediction of dental caries, although promising, is at an early stage. The general applicability of the evidence was limited given that most models were developed outside the real clinical setting with a prevalence of unclear/high risk of bias. Researchers must increase the overall quality of their research protocols by providing a comprehensive report on the methods implemented.
DOI: 10.6084/m9.figshare.24159120.v1
title: Untitled IteTranscriptome Analysis of <i>Artemisia argyi</i> following Methyl Jasmonate (MeJA) Treatment and the Mining of Genes Related to the Stress Resistance Pathwaym

description: These data were transcriptome data of <i>Artemisia argyi</i> before and after exogenous MeJA treatment.<br><br>
DOI: 10.6084/m9.figshare.24470629.v1
title: Base de datos de literatura sobre modelos de prospectiva territorial en las zonas costeras turísticas de México

description: Base de datos de la literatura analizada en la investigación "Modelos de Prospectiva Territorial en las zonas costeras turísticas de México: una revisión de literatura"
DOI: 10.17632/5ncnnzshfw
title: Analysis code for assessing the relationship between gun ownership and fear of mass shootings

description: Rationale: Gun sales spike after mass shooting incidents. As firearm presence is associated with numerous health and safety risks, it is imperative to understand what catalyzes gun ownership. Despite evidence that Americans’ fear of mass shootings is increasing at a pace that exceeds their likelihood of victimization, the relationship between fear of mass shootings and gun ownership has received minimal attention.
Objective: The current study examines group differences in fear of mass shootings and openness to gun ownership. Specifically, it is hypothesized that (1) fear of mass shootings will increase openness to future firearm ownership among non-owners, (2) gun-owners will be more afraid of mass shootings than non-owners, and (3) protective owners will be more afraid than non-protective owners.
Methods: This paper uses Wave 26 of Pew Research Center’s nationally representative American Trends Panel (n=1,968). 
Results: Binary logistic regression analyses indicate that among non-gun-owners, fear of mass shootings decreases openness to ownership. Ordinal logistic regression analyses indicate that while fear of mass shootings does not differ between gun-owners and non-owners, protective gun-owners are more afraid than non-protective owners. 
Conclusions: Combined with prior research, these findings suggest that protective gun-owners, non-protective gun-owners, and non-owners have distinct views of the relationship between guns and mass shootings and are motivated to acquire firearms by different processes. Additional longitudinal work is needed to confirm these findings and clarify the role of causal attributions.
DOI: 10.6084/m9.figshare.15152265.v1
title: Images

description: Geo images used to make figures for paper.
DOI: 10.6084/m9.figshare.19615653.v1
title: GBMtumour.scRNAseq.counts.txt.gz

description: Filtered sc-RNA-seq count matrix
DOI: 10.6084/m9.figshare.24190992.v1
title: Complete MR table

description: Table with expression data and behavior in the network of the master regulators
DOI: 10.6084/m9.figshare.25927183.v1
title: H20_Wh

description: Energy related data for House 20
DOI: 10.6084/m9.figshare.26499571.v1
title: A phylogenetic analysis of the influence of morphology on mobility in European butterflies. Supplementary Files

description: 1. Patterns and processes of mobility in insects has been of great interest to the scientific community, not only for the complex interactions that underpin these movements, but also the morphological and physiological adaptations that mobile species have developed for flight.2. Butterflies are a model taxon for investigating these questions, as the group includes some of the most iconic and well-studied species showing a wide variety of movement patterns from long-range migrants to highly sedentary species.3. Migratory species have been found to have bigger wings, and typically larger body size, than related non-migrants to sustain these strenuous flights. However, it remains to be determined how other mobile, but non-migratory, species might have evolved adaptations to flight.4. The goal of this study is to address the question of how the morphology (size and shape of wings and body) differs between migratory, highly mobile, and sedentary butterfly species. For this we performed a phylogenetic analysis on body measurements of 78 species of European butterflies that have different mobility requirements.5. We found that sedentary species have the smallest bodies, in general, and migratory ones the largest. Highly mobile species show a mixed morphology between these other two.6. We also found that phylogeny plays a key role in the differences in morphology, with closely-related species tending to have similar morphologies. However, mobility behaviours revealed to have a clear phylogenetic effect too, meaning that mobile species’ morphology might look different to other sister species as a form of adaptation to this behaviour.
DOI: 10.17632/28mhksbnsy
title: A Bayesian segmentation of the amygdala in ALS and PLS: volumetric data

description: Temporal lobe degeneration is a recognised feature of motor neuron disease which may manifest in a range of cognitive deficits contributing to the clinical heterogeneity of the condition. Computational neuroimaging allows the detailed characterisation of this region in vivo, but existing neuroimaging studies have invariably evaluated the amygdala as a single structure. In this data set we present the volumetric profile of specific amygdalar nuclei in 100 patients with ALS, 33 patients with PLS and 117 healthy controls. T1-weighted images were acquired with a 3D Inversion Recovery prepared Spoiled Gradient Recalled echo pulse sequence with an isometric spatial resolution of 1 mm3 on a 3 Tesla MRI system. A Bayesian inference was used to segment the amygdala into specific nuclei using a probabilistic atlas. The study was sponsored by the Spastic Paraplegia Foundation, Inc. (SPF), the Health Research Board (HRB EIA-2017-019), the EU Joint Programme – Neurodegenerative Disease Research (JPND), the Andrew Lydon scholarship, the Irish Institute of Clinical Neuroscience (IICN), the Iris O'Brien Foundation. Methodological details are provided in: Amygdala pathology in amyotrophic lateral sclerosis and primary lateral sclerosis. Chipika RH, Christidi F, Finegan E, Li Hi Shing S, McKenna MC, Chang KM, Karavasilis E, Doherty MA, Hengeveld JC, Vajda A, Pender N, Hutchinson S, Donaghy C, McLaughlin RL, Hardiman O, Bede P. J Neurol Sci. 2020 Jul 18:117039. doi: 10.1016/j.jns.2020.117039. Online ahead of print. PMID: 32713609
DOI: 10.6084/m9.figshare.3547368.v1
title: Appendix C. A figure showing monthly average ice flow vectors for March, June, and September 2003.

description: A figure showing monthly average ice flow vectors for March, June, and September 2003.
DOI: 10.6084/m9.figshare.12091101.v1
title: Landslides_Data_Wong & Zhou (2021)

description: The data serves for Wong and Zhou (2021) published in Landslides
DOI: 10.6084/m9.figshare.12366245.v1
title: Dai and Karato Experimental Data.xlsx

description: Experimental Data
DOI: 10.17632/y4fs9jt44b
title: Data for Multi-Watt cavity for 266 nm light in vacuum

description: This dataset contains the data included in the manuscript "Multi-Watt cavity for 266 nm light in vacuum". It shows the performance of two investigated mirror sets in air and ultra-high vacuum. This includes power traces of locked cavities, the decay and recovery of the cavity spectrum dependent on the ambient pressure, and the change of the cavity spectrum with increasing decay.
DOI: 10.6084/m9.figshare.26047969.v1
title: <b>Gas5 regulates early life stress-induced anxiety and spatial memory</b>

description: Early life stress (ES) induced by maternal separation (MS) remains a proven causality of anxiety and memory deficits at later stages of life. Emerging studies have shown that MS-induced gene expression in the hippocampus is operated at the level of transcription. However, the extent of involvement of non-coding RNAs in MS-induced behavioural deficits remains unexplored. Here, we have investigated the role of synapse-enriched long non-coding RNAs (lncRNAs) in anxiety and memory upon MS. We observed that MS led to an enhancement of expression of the lncRNA Gas5 (Growth Arrest Specific-5) in the hippocampus; accompanied by increased levels of anxiety and deficits in spatial memory. Gas5 knockdown in early life was able to reduce anxiety and partially rescue the spatial memory deficits of maternally separated adult mice. However, the reversal of MS-induced anxiety and memory deficits is not attributed to Gas5 activity during neuronal development as Gas5 RNAi did not influence spine development. Gene Ontology analysis revealed that Gas5 exerts its function by regulating RNA metabolism and translation. Our study highlights the importance of MS-regulated lncRNA in anxiety and spatial memory.
DOI: 10.6084/m9.figshare.8332430.v1
title: Supplementary Material for: Heart Rate Monitoring in Newborn Babies: A Systematic Review

description: <b><i>Background:</i></b> Around 10% of newborn infants require assistance during transition after birth. Heart rate (HR) is the most important clinical indicator to evaluate the clinical status of a newborn. <b><i>Aim:</i></b> Our study aimed to review all established and novel methods to detect HR in babies giving special consideration to non-invasive techniques. <b><i>Methods:</i></b> We performed a systematic literature search on the following databases: MEDLINE, Embase, Cochrane Central Register of Controlled Trials (CENTRAL), and CINAHL. The inclusion criteria were studies on methods to detect HR in both term and preterm infants in comparison to one of the current gold standards: pulse oximetry (PO) or electrocardiography (ECG) published in the last 15 years. Two independent reviewers screened titles and abstracts for eligibility. Data extracted in an Excel table were analysed to produce a narrative review structured around the type of monitoring, identified obstacles in use, as well as methods to overcome these limitations. <b><i>Results:</i></b> The search revealed 649 studies after duplicates were removed. Full article analysis was performed on 26 studies of which 25 met the inclusion criteria. Well established methods such as auscultation and palpation, although rapid and easily available, have been shown to be inaccurate. ECG and PO were both more precise but the delay in obtaining a reliable HR signal from birth often exceeded 1–2 min. Novel sensors offered the advantages of minimally obtrusive technologies but have limitations mainly due to movement artefact, bad sensor coupling, intermittent measurement, and poor-quality recordings. <b><i>Conclusions:</i></b> The limitations of existing methods have a potential impact on short- and long-term morbidity and mortality outcomes. The development of a technological solution to determine HR accurately and quickly in babies at birth has immense implications for further research and can guide interventions, such as placental transfusion and resuscitation.