cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.21954/ou.rd.14527254.v1
title: Encountering Hate Crime Under Lockdown: a Refugee’s Story

description: After receiving their leave to remain and becoming refugees this family was moved to a new house in a new area. It was at the beginning of lockdown and they didn’t know anyone there. They had never encountered problems before so they were shocked when the harassment started. It took some time to talk about it as they just hoped it would go away but instead it got worse. <br> The person who told us the story below thought it may be because she wore a scarf and no one else around there did. But it was also because of lockdown because they couldn’t get to know their neighbours. She explained what had happened and how she managed to change things. Her daughter drew a picture to show how cross all the rubbish thrown in the garden made her! <br> The text was submitted by a contributor who wishes to remain anonymous. ----- This material is part of the Covid Chronicles from the Margins project, funded by The Open University and The Hague. The project aims to highlight the impact of the pandemic on refugees, asylum seekers & undocumented migrants. <br> This item can be found on our website, here: https://cov19chronicles.com/encountering-hate-crime-under-lockdown-a-refugees-story-2/
DOI: 10.6084/m9.figshare.27936708.v1
title: A highly stable monomeric red fluorescent protein for advanced microscopy

description: To quantify the monomeric state of the selected FPs, we followed the OSER assay protocol described previously​<sup>9</sup>​. Briefly, HeLa cells were cultured in the same condition as described above. Cells were seeded on glass-bottom 24-well plates pre-coated with Matrigel (356235, BD Biosciences) 3 hours before transfection. 500 ng of each pCytERM-FPs plasmid were transfected at 40-50% confluency using Lipofectamine 3000 (Invitrogen, USA) or Hieff Trans Liposomal Transfection Reagent (Yeasen, 40802ES02) according to the manufacturer’s protocol. The experimenter was blinded to the plasmid identities, as all plasmid vials were barcoded, and their identities were revealed only after data collection and analysis were complete. Samples were transfected and imaged in a random order, with plasmid vials pooled together and randomly selected during transfection. Each independent transfection was also randomized separately. Transfected live cells were imaged on a CSU-W1 SoRa imaging setup of Nikon Spinning-Disk Field Scanning Confocal System (Nikon, Japan) 20-24 hours after transfection.  Image analysis was performed by three blinded independent researchers, using NIS Elements software, and mean values with standard errors were calculated. Positive cells selected for analysis include cells with clear nuclear structure, dead or highly stressed, and out-of-focus cells were excluded from analysis. Cells with non-spherical nuclei or condensed nuclei were counted as stressed cells and excluded from normal cells fraction.
DOI: 10.6084/m9.figshare.7550993.v2
title: Central immune tolerance of T and B cells in patients with idiopathic hypoparathyroidism, T1D and autoimmune thyroiditis.

description: Abstract Context: Pathogenesis of idiopathic hypoparathyroidism is under investigation. Abnormalities in central immune tolerance have yet not been investigated in them. T-cell receptor excision circles (TRECs) and kappa-deleting recombination excision circles (KRECs), formed during receptor gene rearrangements, is novel tools to assess central T- and B -cell output. Objective: We assessed the number of circulating TRECs and KRECs in patients with IH, autoimmune type-1 diabetes (T<sub>1</sub>D), and thyroiditis (AT) and healthy controls (HC). <b> </b> <b>Design: </b>Comparative case-control at tertiary care center.<b> </b> <b> </b> <b>Subjects and methods: </b>Absolute and relative TRECs and KRECs were measured in DNA extracted from whole blood of IH patients (n = 181, 22 of whom were reassessed after a decade of follow-up), T<sub>1</sub>D (n = 133), AT (n = 53), and HC (n = 135) using quantitative RT-PCR/TaqMan probe® technique. <b> </b> <b>Results: </b> Absolute and relative means of TRECs and KRECs in IH were comparable to HC and no differences were found between IH with and without CaSRAb or class I <i>HLA-A*26:01</i> association<i>. </i>TRECs and KRECs did not change after a decade of follow-up. T<sub>1</sub>D had significantly higher absolute TRECs than IH, AT and HC, while AT patients showed lower TRECs and the highest KRECs; these levels showed no significant correlation with thyroid dysfunctions. <b> </b> <b>Conclusion:</b> Patients with IH showed TRECs and KRECs comparable to HC indicating an intact mechanism of T- and B-cell central immune tolerance. Interestingly, absolute TRECs were significantly higher in T<sub>1</sub>D than HC, suggesting impaired central immune tolerance in T<sub>1</sub>D.<br>
DOI: 10.17608/k6.auckland.6197282.v3
title: Mean Sea Level in Auckland, New Zealand

description: HIstoric recordings of the Sea Level in Auckland from 1899 to 2018, data courtesy Dr. John Hannah.
DOI: 10.6084/m9.figshare.7726148.v1
title: t. Fig4.pdf

description: 생쥐에서 OVA 특이 적 T 세포 반응에 용해 된 미세 바늘 패치로 채워진 OVA의 효과. 쥐 (n = 4 / 그룹)는 용해 - 마이크로 니들 - 패치 또는 용해 - 마이크로 니들 패치 -로드 된 OVA를 사용하여 면역화시켰다. 각 그룹의 비장 세포를 최종 면역화 7 일 후에 OVA로 재 자극하였고 CD4 <sup>+</sup> 및 CD8 <sup>+</sup> T 세포를 게이팅하고 FACCanto II (BD Biosciences)를 사용하여 FITC- 항 -IFN-γ로 염색하고 PE- 항 -CD4 / CD8. 데이터는 그룹당 4 마리의 마우스의 평균 ± SD로 나타내었다. * 재 자극 OVA에 비해 p &lt;0.05, ** p &lt;0.01 또는 ** p &lt;0.001 (-). 그룹당. <sup>#</sup> p &lt;0.05, <sup>##</sup> p &lt;0.01 또는 <sup>###</sup> p &lt;0.001 대조군 패치 그룹 대 OVA 패치 그룹.
DOI: 10.6084/m9.figshare.28539842.v1
title: Checklist for Qualitative Research

description: The checklist for the qualitative research contains the title, abstract, problem formulation, research question, qualitative research paradigm, researcher characteristics, context, sampling strategy, ethical issues, data collection, data collection methods, instruments or technologies, units of study, data processing, data analysis, research design, synthesis, links to empirical data, integration of existing works, limitations, conflict of interest and the funding details.
DOI: 10.6084/m9.figshare.27684717.v1
title: Supplementary Material for: Genotype-phenotype correlation and feminizing surgery in Danish children with congenital adrenal hyperplasia

description: Introduction: Congenital adrenal hyperplasia (CAH) is characterized by a broad spectrum of symptoms.
This study aims to describe genotype-phenotype correlations, clinical manifestations at diagnosis, and the frequency of feminizing surgery in childhood.

Methods: A nationwide retrospective cohort study of patients diagnosed with CAH, aged ≤18, between 1943 and 2018. CAH was identified in national registries and validated through medical record reviews and phenotypically classified as salt-wasting (SW), simple virilizing (SV), or non-classic (NC) CAH. In a sub-cohort (diagnosed between 1999 and 2018) clinical data and feminizing surgery data were investigated. CYP21A2 variants were grouped as Null, A, B, C, and D.

Results: The cohort comprised 379 patients with CAH. Genotype-phenotype correlations were as follows: Null and SW (100%), A and SW (94%), B and SV (51%), and C and NC (75%). In the subcohort (n=159, females=99) the female-to-male ratios were: SW=1.5, SV=1.1, and NC=2.3. Symptoms of precocious pseudopuberty dominated at diagnosis (39%). Males presented with significantly advanced bone age by the time of diagnosis (p=0.0009). In 53% of females (n=53), virilization of the external genitalia was present at the time of diagnosis, and in 46% (n=46) this developed already prenatally. Of the prenatal virilized females 85% underwent early feminizing genitoplasty. Virilization was identified in both mild and severe genotypes. 

Conclusion: Milder genotypes do not accurately predict CAH phenotype or prenatally reject serious outcomes such as virilization. The frequency of early genitoplasty is high among females with prenatal virilization. The delayed diagnosis and non-diagnosis of especially males with mild CAH advocate for a more prominent role of genetic testing in the diagnostic and screening for CAH.
DOI: 10.6084/m9.figshare.11151185.v2
title: Supplementary data for Bos grunniens genomic assembly (BosGru3.0) and population structural variation

description: This repository contains annotation file of the BosGru3.0 genome sequence, the data set of population-scale SV results.
DOI: 10.6084/m9.figshare.13857851.v1
title: Supplementary Material for: The Added Value of SOX10 Immunohistochemistry to Other Breast Markers in Identifying Cytokeratin 5-Positive Triple Negative Breast Cancers as of Mammary Origin

description: <b><i>Aims:</i></b> Triple-negative breast cancer (TNBC) represents a specific group that lacks the expression of estrogen receptors, progesterone receptors, and human epidermal growth factor receptor-2 and might also lack the expression other breast markers like GATA3, mammaglobin (MG), GCDFP15 (growth cystic disease fluid protein 15), and NYBR1; when this occurs, proving the breast origin of a metastasis is a challenging task. In the present study, we assessed the added value of SOX10 immunohistochemistry to known GATA3, MG, GCDFP15, and NY-BR-1 statuses in a series of CK5-positive primary TNBCs. <b><i>Methods:</i></b> Tissue microarrays were made from the formalin-fixed and paraffin-embedded blocks of 120 TNBCs, and 3-4-mm-thick sections were immunostained for SOX10. The cut-off for a positive reaction was at least 10% of tumor cells staining. <b><i>Results:</i></b> In our cohort, SOX10 positivity was seen in 82/119 cases, 61, 74, 76, and 82 all of which were GATA3, MG, GCDFP15, and NY-BR-1 negative, respectively. Of the SOX10 negative cases, 12 stained with at least another breast marker. Nevertheless, 25/119 (21%) cases remained negative with all markers assessed. <b><i>Discussion:</i></b> SOX10 proved to be the most commonly positive breast marker in our CK5 expressing TNBCs, but the other markers also had some additive value to SOX10.
DOI: 10.6084/m9.figshare.658958.v2
title: Color image denoising by chromatic edges based vector valued diffusion

description: Figures, results, data-sets (MATLAB files), and denoised images (PNG, TIFFs) from the following paper: V. B. S. Prasath, J. C. Moreno. <strong>Color Image Restoration by Chromatic Edges based Vector Valued Diffusion</strong>, Submitted. <br> The main zip file contains Figures - all the figures from the paper and Data - data-sets for further use. Each zip file contains a Readme.txt file which is self-explanatory.
DOI: 10.6084/m9.figshare.10292771.v1
title: GPS, borehole strain and tilt data - 24 December 2018 eruptive intrusion Etna volcano

description: On the early morning of 24 December 2018, after two months of Strombolian activity, Mt Etna was suddenly penetrated by a violent dyke intrusion that opened an eruptive fissure and continued to propagate southward for more than ten hours.<br>This dataset includes:<br>- raw GPS data from 24 to 25 December 2018 (Zip archive)<br>- borehole strain data for the 24 December (positive variation = compression; negative variation = dilatation; [counts])<br>- borehole tilt data (biaxial) for the 24 December (negative variation = uplift; [microstrain]).
DOI: 10.6084/m9.figshare.11448720.v1
title: CHILL+ LAMMPS Trajectory

description: This is the trajectory file meant to work with the <b>chillPlus</b> example folder of d-SEAMS. Check Github to navigate the source code in the browser. The filename needs to be preserved to run without any changes.
DOI: 10.6084/m9.figshare.5126584.v1
title: Supplementary Material for: SSEA-4+ CD34- Cells in the Adult Human Heart Show the Molecular Characteristics of a Novel Cardiomyocyte Progenitor Population

description: Stage-specific embryonic antigen (SSEA) expression is used to describe the differentiation state of an embryonic stem cell (ESC). In human ESCs, SSEA-3 and SSEA-4 are highly expressed in undifferentiated cells and downregulated upon differentiation. SSEA-4 has also been described as a marker for adult stem cells in various tissues, including human neonatal cardiac tissue. However, there is currently little data on the expression of SSEAs in human adult cardiac tissue. We obtained right and left atrial biopsies from patients undergoing cardiac surgery. These were dissociated, stained for SSEAs and other cardiac stem cell markers and analyzed by flow cytometry. Directly isolated cells expressed variable levels of SSEA-1, SSEA-3 and SSEA-4. The SSEA-1+ population was established as contaminating hematopoietic cells. The SSEA-4+ population, on the other hand, could be subdivided based on the endothelial progenitor marker CD34. The SSEA-4+ CD34- population in the right atrium had a high gene expression of both early <i>(TBX5, NKX2.5)</i> and late <i>(TNNT2)</i> cardiomyocyte markers. The SSEA-4+ CD34+ population, on the other hand, overlapped with previously described C-kit+ CD45- cardiac stem cells. Primary monolayer-cultured cells retained expression of SSEAs while the cardiomyogenic specification in the SSEA-4+ CD34- population was lost. In tissue sections, SSEA-4+ cells could be identified both within and outside the myocardium. Within the myocardium, some SSEA-4+ cells coexpressed cardiomyogenic markers. In conclusion, the results show that the adult human heart expresses SSEAs and that there is a subpopulation of SSEA-4+ CD34- cells that show features of a cardiomyocyte progenitor population.
DOI: 10.6084/m9.figshare.5242096.v1
title: Erratum: Clinicopathological Features and Therapeutic Responses of Chinese Patients with Advanced Lung Adenocarcinoma Harboring an Anaplastic Lymphoma Kinase Rearrangement

description: <b><i>Background:</i></b> Presence of anaplastic lymphoma kinase (<i>ALK</i>) rearrangement is an indication for crizotinib in the treatment of patients with advanced or metastatic lung adenocarcinoma. Here, we sought to elucidate the association between clinicopathological features and <i>ALK</i> rearrangement status in Chinese patients with advanced lung adenocarcinoma harboring an <i>ALK</i> rearrangement. <b><i>Patients and Methods:</i></b><i>ALK</i> rearrangement status was determined using immunohistochemistry (IHC) in tumor tissues from 120 patients with advanced lung adenocarcinoma, and further assessed by fluorescence in situ hybridization (FISH) assay. The associations between <i>ALK</i> rearrangement status and clinicopathological features were analyzed. <b><i>Results:</i></b> According to IHC testing, the <i>ALK</i>-positive rate among the advanced lung adenocarcinoma patients was 6.67% (8/120). FISH validation found 5 patients with <i>ALK</i> rearrangement among the 8 IHC-positive cases. No significant difference was observed regarding age, sex, or smoking status between FISH-positive and -negative patients (p &gt; 0.05). None of the 5 FISH-positive patients benefited from first-line chemotherapy. <b><i>Conclusion:</i></b> IHC can be used as a reliable method for <i>ALK</i> rearrangement screening in patients with lung adenocarcinoma, but further FISH validation is imperative. Presence of <i>ALK</i> rearrangement predicts a more aggressive biological behavior of the tumor and might be indicative of poor response to chemotherapy.
DOI: 10.6084/m9.figshare.28738190.v21
title: Syllogistic reasoning pdf v1-2-3-4.rar

description: Logic and being
DOI: 10.6084/m9.figshare.19397117.v2
title: Estimating burden of COVID-19 with disability-adjusted life years and value of statistical life in West Bengal, India

description: The following are the datasets that might be of interest to the readers of the article entitled "Estimating burden of COVID-19 with disability-adjusted life years and value of statistical life in West Bengal, India"
DOI: 10.6084/m9.figshare.23733639.v1
title: <strong>Supplemental Table 3</strong>

description: <strong>Supplemental Table 3. Metabolome comparison among different treatment groups. </strong>Fold change (FC) analysis is to compare the absolute values of change between group means in <strong>A</strong>) lumen and <strong>B</strong>) serum. Original metabolite measurement without normalization in FC analysis. Two-sample t-test to calculate significance value. Metabolites with p value &lt;0.05 included in the table. Pathway enrichment analysis to indicate the significantly affected pathways by treatment in <strong>C</strong>) lumen and <strong>D</strong>) serum. Enrichment analysis using predefined libraries of metabolites using metabolite set enrichment analyses (MSEA) (Xia and Wishart, 2010).
DOI: 10.6084/m9.figshare.5124286.v1
title: Supplementary Material for: Wnt Signaling Regulates Intermediate Precursor Production in the Postnatal Dentate Gyrus by Regulating Cxcr4 Expression

description: Previous studies have examined the role of diverse signaling pathways in dentate neurogenesis, but how these signaling pathways are integrated remains unknown. Using mice that allow genetic manipulation of type 1 radial progenitors in the dentate, we show that forced induction of Wnt signaling leads to expansion of the intermediate progenitor cell (IPC) pool while selective activation of Sonic hedgehog (Shh) signaling drives neurogenesis without significant expansion of IPCs. Thus, both Wnt and Shh signaling are proneurogenic, but they act in distinct manners when their signaling is forced in subgranular zone radial progenitors. We examined potential targets of the Wnt pathway in these cells and found that Cxcr4 is a direct target of Lef1 in dentate gyrus progenitors and that loss of Cxcr4 in postnatal neurogenesis decreases the production of IPCs. This suggests that Wnt activation of dentate gyrus progenitors induces Cxcl12 signaling by regulating receptor expression. This study provides evidence that distinct morphogenic pathways have notably different roles in regulating ongoing dentate neurogenesis.
DOI: 10.6084/m9.figshare.19209747.v1
title: E-Levy Twitter Dataset

description: The dataset comprises of twitter data for phase 1, phase 2, phase 3, phase 4 , and phase 5 in addition to the full data.
DOI: 10.6084/m9.figshare.3554214.v1
title: Appendix C. Generalized linear model analysis of tree growth rate using dendrometer data only.

description: Generalized linear model analysis of tree growth rate using dendrometer data only.
DOI: 10.6084/m9.figshare.13634972.v1
title: Personality Traits, Workers’ Age, and Job Satisfaction: The moderated effect of conscientiousness

description: The dataset includes information concerning, Personality Traits, Age, and Job Satisfaction in a group of Italian workers.
DOI: 10.6084/m9.figshare.26087566.v1
title: Amplicon data of 80 soil fungi from the Pamir Plateau

description: The ASV tables, fasta sequences, and taxonomy data for fungi.
DOI: 10.6084/m9.figshare.28380887.v1
title: Dataset for "A computer vision approach based on deep learning for the detection of dairy cows in free stall barn"

description: Results of dairy cattle image processing
DOI: 10.6084/m9.figshare.3524132.v1
title: Appendix A. Details of methods used in the paper, including a figure showing the daily count of live pink salmon over the periods 1997–2000 and tables showing (Table A1) locus descriptions from the loci used in parentage analysis of pink salmon in 1997 and 1998 and (Table A2) sequences of the primers used to amplify the loci used in the parentage analysis.

description: Details of methods used in the paper, including a figure showing the daily count of live pink salmon over the periods 1997–2000 and tables showing (Table A1) locus descriptions from the loci used in parentage analysis of pink salmon in 1997 and 1998 and (Table A2) sequences of the primers used to amplify the loci used in the parentage analysis.
DOI: 10.15482/usda.adc/1324538
title: USDA Database for the Isoflavone Content of Selected Foods, Release 2.1 (November 2015)
DOI: 10.6084/m9.figshare.28329977.v1
title: Electron Diffusion at Sn Perovskite/Fullerene Derivative Interfaces and Its Influence on Open-Circuit Voltage

description: The text data of the paper "Electron Diffusion at Sn Perovskite/Fullerene Derivative Interfaces and Its Influence on Open-Circuit Voltage".
DOI: 10.6084/m9.figshare.28733072.v1
title: Experimental data from the study “<b>Native plant diversity provides resistance to invasion by an alien species in natural and experimental settings</b>”.

description: Experimental data from the study “<b>Native plant diversity provides resistance to invasion by an alien species in natural and experimental settings</b>”.
DOI: 10.6084/m9.figshare.6231662.v2
title: Codes for "Transforming Bell's Inequalities into State Classifiers with Machine Learning"

description: We provide codes in order to help readers reproduce main numerical results in our manuscript "Transforming Bell's Inequalities into State Classifiers with Machine Learning".<br>
DOI: 10.6084/m9.figshare.9808274.v2
title: CHI2020_Results_Comparative_Study_Colection_2019

description: This is the dataset provided by the aforementioned authors of the quantitative results provided by a comparative empirical study between CustomCheck4Play, a Customizable Heuristic-Based Evaluation Process, and GH Heuristic Set.<br>In this dataset you will find raw quantitative data from the empirical study and evaluation of this data. Moreover, a evaluation of this data was developed using the knowledge by each evaluator, checking how they were interpreted.
DOI: 10.6084/m9.figshare.12651716.v1
title: Diagnostic Accuracy of a Urine Dipstick for Detecting Albuminuria in Hypertensive Patients

description: Data of urine albumin from urine dipsticks and urine albumin-to-creatinine ratio in hypertensive patients
DOI: 10.6084/m9.figshare.25866679.v1
title: Data base and R code for food selection and salival response of spider monkeys

description: data bases related to sample of food consumed by spider monkeys
DOI: 10.6084/m9.figshare.28120409.v2
title: Observed and modeled cloud absorption

description: <i>R</i>、<i>α</i><sub><em>c</em></sub> and <i>α</i><sub><em>ca</em></sub> across different sites
DOI: 10.6084/m9.figshare.9828827.v2
title: Harmonization of DMSP and VIIRS nighttime light data from 1992-2018 at the global scale

description: The dataset contains (1) temporally calibrated DMSP-OLS NTL time series data from 1992-2013; and (2) converted NTL time series from the VIIRS data (2014-2018)<br>Spatial resolution: 30 arc-seconds (~1km)<br>Information about the composited images from the calibrated DMSP dataset:F10(1992-1994); F12(1995-1996); F14(1997-2003); F16(2004-2009); F18(2010-2013)<br>We suggested using pixels with DN values greater than 7.
DOI: 10.6084/m9.figshare.1569750.v1
title: A refinement of the Band spreadsheet for wind turbine collision risk allowing for oblique entry

description: A new spreadsheet is presented, to be used as part of the Band model for estimating potential avian mortality due to wind turbine strike. The spreadsheet extends the Band collision risk spreadsheet by allowing for oblique approach angles and wind speed. The differences in the results between this new spreadsheet and the standard Band spreadsheet are given for two species, the white-tailed eagle <i>Haliaeetus albicilla</i> and the South Island pied oystercatcher <i>Haematopus finschi</i>, chosen for their contrasting sizes and flight characteristics. Under more representative conditions, the true risk for large birds is shown to be substantially greater than that calculated by the Band spreadsheet. Examples of how to use the new spreadsheet with bird survey and wind data are given.