cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14963790.v1
title: MiRNA based tumor mutation burden diagnostic and prognostic prediction models for endometrial cancer

description: Uterus Corpus Endometrial cancer (UCEC) is the sixth most common malignant tumor worldwide. In this research, we identified diagnostic and prognostic biomarkers to reflect patients’ immune microenvironment and prognostic. Various data of UCEC patients from the TCGA database were obtained. Firstly, patients were divided into a high tumor mutation burden (TMB) level group and a low TMB level group according to the level of TMB. Then, differentially expressed miRNAs between the two groups were obtained. LASSO logistic regression analysis was used to construct a diagnostic model to predict the level of TMB. Univariate, multivariate, and LASSO regression analysis were used to construct a prognostic risk signature (PRS) to predict the prognosis of UCEC patients. Twenty-one miRNAs were used to construct a diagnostic model for predicting TMB levels. The AUC values of ROC curves for 21-miRNA-based diagnostic models were 0.911 in the training set, 0.827 in the test set, and 0.878 in the entire set. This diagnostic model showed positive correlation with TMB, PDL1 expression, and the infiltration of immune cells. In addition, three prognostic miRNAs were finally used to construct the PRS. The PRS was related to the expression of multiple immune checkpoints and the infiltration of multiple immune cells. Furthermore, the PRS can also reflect the response to some commonly used chemotherapy regimens. We have established a miRNA-based diagnostic model and a prognostic model that can predict the prognosis of UCEC patients and their response to chemotherapy and immunotherapy, thus providing valuable information on the choice of treatment regimen.
DOI: 10.6084/m9.figshare.16570518.v1
title: CRL

description: Fetal ultrasound dataset (CRL)
DOI: 10.6084/m9.figshare.21173743.v2
title: Identification of new salicylic acid signaling regulators for root development and microbiota composition in plants

description: <b>Processing and source data for:</b>Identification of new salicylic acid signaling regulators for root development and microbiota composition in plants<b>Correspondence:</b>Prof. Xianqing Jia, jiaxq.nju@gmail.com, Northwest UniversityProf. Keke Yi, yikeke@gmail.com, Chinese Academy of Agricultural Sciences<br>
DOI: 10.6084/m9.figshare.5554531.v1
title: Experiment CLA-SubjectF-150916-3States

description: Experiment in which subject performed 3 imageries of left and right hand motion and a passive state.
DOI: 10.17632/3s5skxzgrb
title: Food habits and occupations affect genes in the human body

description: This article explores the causes and solutions to the emotional and human changes that are taking place in today's society according to the age of each person. Here is a data and information on personal discussions and research with some educated, uneducated, students, youth, young people and people involved in different professions After the first article on the relationship of genetic modification with occupation in human life was published in (Psyche) Mendeley data. The present work is grounded in some of Significance quest Theory. Some of the largest organizations in the world have taken various initiatives to move the present society towards progress; significantly, this society will show more tolerance in terms of human food intake or family behavior. Evolution in food habits with gene transfusion; It is a great effort. This article has been written by studying the problems of people of different professions for a long time, Before thousand of years, it is mentioned that, every human being has six values in their body. These six values are 1. Lust, 2. Anger, 3. Greed, 4. Delusion, 5. Pride, 6. Envy. If any one of the value is more than the other five values then, others can be affected and increase or, decrease in exact amount.
DOI: 10.6084/m9.figshare.13264793.v9
title: BioSR: a biological image dataset for super-resolution microscopy

description: BioSR is a biological image dataset for super-resolution microscopy, currently including more than 2200 pairs of low-and-high resolution images covering four biology structures (CCPs, ER, MTs, F-actin), nine signal levels (15-600 average photon count), and two upscaling-factors (linear SIM and non-linear SIM). BioSR is now freely available, aiming to provide a high-quality dataset for the community of single bio-image super-resolution algorithm and advanced SIM reconstruction algorithm developers. For more information about BioSR, please see our Nature Methods manuscript, "Evaluation and development of deep neural networks for image super-resolution in optical microscopy" (DOI: 10.1038/s41592-020-01048-5).
Update 2022.10.04
Add <em>DataSet of rDL-SRM (Zenodo Link).xlsx</em> file, which includes descriptions and Zenodo links of BioSR+ (data extension of BioSR) and other data used in our Nature Biotechnology paper "Rationalized deep learning super-resolution microscopy for sustained live imaging of rapid subcellular processes" (DOI: 10.1038/s41587-022-01471-3 ).<br>
DOI: 10.6084/m9.figshare.16866799.v1
title: The level of pollination specialization affects the relationship between the shape of flowers and the bill of their hummingbird pollinators in Antillean Gesneriaceae

description: Script and morphometric data accompanying the following paper:<br>Faure, J., Martén-Rodríguez, S., Clark, J.L., Joly, S. 2022. The level of pollination specialization affects the relationship between the shape of flowers and the bill of their hummingbird pollinators in Antillean Gesneriaceae. <i>International Journal of Plant Sciences</i>.
DOI: 10.6084/m9.figshare.25845283.v1
title: Black bream CTmax across body mass and populations

description: Climate change is pushing temperatures towards intolerable limits for many fishes. Fish are ectothermic, or "cold-blooded", meaning that they function within a range of environmental temperatures, and exposure to extreme temperatures can become intolerable. The capacity of ectotherms to tolerate environmental warming has come into focus with ongoing climate change. Yet, we currently lack an understanding of how factors such as body size affects thermal limits, and whether different populations within a species differ in their capacity to cope with warming. To address this research gap, I used black bream (Acanthopagrus butcheri) to test two main hypotheses; first, that population-level differences exist in thermal tolerance, with northern populations being more tolerant of warming; and second; that thermal limits increase with increasing body size. Critical thermal maximum (CTmax) was used as a measure of heat tolerance to address the hypotheses. The first hypothesis was tested by measuring CTmax of fish from four distinct populations; a northern (Moore River), a mid-latitude (Serpentine River) and two southern (Blackwood River and Kalgan River) populations along a 5 degree latitudinal cline of the West Australian coastline. The influence of body mass on CTmax was tested in black bream across a ~500 g (mean = 52.4 g, range = 0.57 – 541 g) mass range. These data provide critical insight into the capacity of black bream to cope with environmental warming. These data highlight the importance of considering various factors when considering a species' vulnerability to climate change that can help prioritise conservation and management actions.
DOI: 10.6084/m9.figshare.3519275.v1
title: Appendix D. A figure depicting the age distribution of samples by taxonomic group.

description: A figure depicting the age distribution of samples by taxonomic group.
DOI: 10.6084/m9.figshare.11394765.v1
title: GRF_COP_AP_PRO_right

description: This file is structured as a matrix with N rows x M columns. Each row holds the data of one subject and trial. The first column identifies each subject "SUBJECT_ID", the second column each recording session "SESSION_ID", and the third column each single trial within a recording session "TRIAL_ID".
DOI: 10.6084/m9.figshare.14304446.v1
title: Urinary incontinence in institutionalized elderly: prevalence and impact on quality of life

description: AbstractIntroduction Urinary incontinence is a geriatric syndrome that generates strong economic and social impacts as well as emotional changes and negative consequences for the health of the elderly.Objective The objective of this work was to identify the prevalence of urinary incontinence and its associated factors, as well as its impact on quality of life of institutionalized elderly.Materials and methods A cross-sectional study was conducted herein, with 10 long-term institutions for the elderly of the municipality of Natal (Northeast Brazil). The Minimum Data Set was completed by caregivers to determine the presence of incontinence, and the Short Form of the International Consultation on Incontinence Questionnaire was answered by the elderly, to assess the frequency and amount of urinary leakage, the impact on quality of life, and the type of incontinence. The chi-square test and Fisher’s exact test were applied in the bivariate analysis, and logistic regression was utilized for multivariate analysis.Results The prevalence of urinary incontinence was 42.7% (95% CI: 34.8–50.8). The impact of this condition on daily life was mild in 46.5% of cases, moderate for 29.3% of cases, and severe in 24.1% of cases. The condition was associated with functional impairment (p &lt; 0.001; RP: 4.13).Final considerations The prevalence of urinary incontinence in this sample, which presented cognitive ability to answer questionnaires, was over 40% with a high degree of severity. Approximately half of the incontinents referred a moderate-severe impact of incontinence. Control measures for this geriatric syndrome within the institutions are important to delay the decline of health and improve the quality of life of the residents.
DOI: 10.6084/m9.figshare.16843153.v2
title: Data_Commnunity PolygonData

description: Data_Commnunity PolygonData<br><br>
DOI: 10.6084/m9.figshare.22691191.v2
title: Untitled Item

description: The MIDOG++ dataset represents an extension of the data set used in the MIDOG 2021 and 2022 challenges. We provide region of interest images from 503 histological specimens of seven different tumor types with variable morphology: breast carcinoma, lung carcinoma, lymphosarcoma, neuroendocrine tumor, cutaneous mast cell tumor, cutaneous melanoma, and (sub)cutaneous soft tissue sarcoma. The human and canine samples were processed and stained at different human and veterinary pathology laboratories with standard H&E dye and digitized with different digital whole slide image scanners. We provide labels for 11,937 mitotic figures that have been differentiated against 14,351 imposter cells in a blinded consensus by two pathologists and a final decision by a third pathologist for disagreed labels.
DOI: 10.6084/m9.figshare.26927032.v1
title: Raman spectra data for TCMs.rar

description: Raman spectroscopy is a rapid, non-invasive, and non-destructive method, featuring high chemical specificity for different biological materials and low sensitivity to water. This makes it ideal for natural medicines, as it offers a relatively objective and comprehensive characterization for their complicated material basis. Therefore, Raman spectroscopy plays a crucial role in the identification of medicinal properties, authentication of authenticity, and quality control of TCMs. At present, TCMRSD stands as the only downloadable, comprehensive Raman spectral database for TCMs, which encompasses spectra of 327 Chinese medicines collected through rigorous methodological validation. The selection of TCMs for database development is based on the considerations of diversity of medicines, medicinal importance and variety of medicinal properties, in order to guarantee a comprehensive range and representation of substances used in Chinese medicine.
DOI: 10.6084/m9.figshare.29069411.v1
title: All the origin data set for the manuscript "<b>The reconstructed evolu</b><b>tionary</b><b> history of</b><b> </b><b>the </b><b>Engelhardia spicata </b><b>complex </b><b>highlights</b><b> the </b><b>impact of t</b><b>hree-</b><b>tiered</b><b> </b><b>landform</b><b> in the </b><b>Indo-Burma ecoregion</b>"

description: <b>ABSTRACT</b><b>Premise: </b>The lateral displacement of the Indochina Peninsula, caused by the collision between the Indian and Asian tectonic plates, significantly altered the topography of the Indo-Burma ecoregion, affecting both its climate and biological evolution. This ecoregion has long fascinated biologists due to its intricate biodiversity. However, our understanding of the spatiotemporal evolutionary patterns and geological evolution of this area remains limited.<b>Methods: </b>We analyzed the Engelhardia spicata complex, which has a continuous distribution across Indo-Burma, based on a robust phylogenetic framework comprising 778 individuals from 80 populations, to illuminate its spatiotemporal and paleogeological evolution. We used ancestral area reconstruction to reconstruct the historical biogeography of the species complex, and to understand the broader evolutionary history of the Indo-Burma ecoregion.<b>Results:</b><b> </b>An initial divergence within the E. spicata complex occurred around 26.62 million years ago, separating a lineage in the Truong Son Mountain Range from one found in the Hengduan Mountains and the Shan Plateau. The Shan Plateau and Hengduan Mountain lineages subsequently diverged around 23.03 Ma. Our study highlights a three-tiers of landform in the Indo-Burma ecoregion, characterized by high-elevation northern regions (the Hengduan Mountains and the Yunnan-Guizhou Plateau), intermediate-elevation central plateaus (the Shan Plateau), and low-elevation southern ranges (the south Truong Son Mountain Range).<b>Conclusions: </b>Our findings support the tectonic hypothesis that crustal thickening and lateral extrusion of Indochina occurred simultaneously during the Late Oligocene, which led to the formation of the Indo-Burma ecoregion, and highlights the significance of three-tiered landforms (north-to-south altitudinal gradients) in the Indo-Burma ecoregion, providing novel insights into biogeographic patterns in Southeast Asia.
DOI: 10.17632/zvg5pk78wg
title: [SMMP] A modern package for simulation of proteins

description: Abstract A Fortran package is presented which provides useful routines for molecular simulation of proteins within the standard geometry model. Highly efficient algorithms for the calculation of energy and its derivatives are implemented. A set of energy minimization routines and modern Monte Carlo algorithms are added. Three different parameter sets are used to calculate the internal energy: ECEPP/2 potential, ECEPP/3 and the FLEX potential. The solvation energy of the protein can be calculated using... Title of program: SMMP Catalogue Id: ADOJ_v1_0 Nature of problem Molecular mechanics computations and Monte Carlo simulation of proteins. Versions of this program held in the CPC repository in Mendeley Data ADOJ_v1_0; SMMP; 10.1016/S0010-4655(01)00197-7 ADOJ_v2_0; SMMP; 10.1016/j.cpc.2005.10.013 ADOJ_v3_0; SMMP; 10.1016/j.cpc.2007.11.004 This program has been imported from the CPC Program Library held at Queen's University Belfast (1969-2019)
DOI: 10.6084/m9.figshare.1327660.v1
title: Bacterial diversity and Clostidia abundance decrease with increasing severity of necrotizing enterocolitis

description: FNA, QUAL, and Mapping file used in the study.
DOI: 10.6084/m9.figshare.14211266.v1
title: mBio_Wang_etal_2020_supplement_TableS10

description: <b>Supplemental Table S10. Genes differentially expressed between extreme phenotypic groups in the 21 <i>C. albicans </i>isolates<i>. </i></b>Each tab is associated with a different phenotype. Row 1 indicates the strains used for comparison and the criteria that defined each set in the comparison. LogFC is log<sub>2</sub> fold change, logCPM is log2 counts per million differences, PValue is the p-value for the gene, and FDR indicates the false discovery rate corrected p-value. Positive LogFC value indicate higher expression in the second strain in the tab title and negative value indicate lower expression.
DOI: 10.6084/m9.figshare.17032022.v1
title: Ecoregions species lists with red list status

description: This dataset was assembled in 2020. It contains a list of species known to occur in each terrestrial ecoregion of the world, based on the Dinerstein (2017) ecoregion definitions. The IUCN Red List conservation status is also included for each species, for as many years as they were available. Includes mammals, birds, and amphibians.<br>Input datasets:<br>BirdLife International. 2019. Bird species distribution maps of the world.<br><br>GBIF. 2020 (accessed via rgbif R package)<br>Dinerstein E, et al. 2017. An Ecoregion-Based Approach to Protecting Half the Terrestrial Realm. BioScience:534. Accessed on 7/11/2018 from: https://ecoregions.appspot.com/ <br><br>Henriques S, Bohm M, Collen B, Luedtke J, Hoffmann M, Hilton-Taylor C, Cardoso P, Butchart SHM, Freeman R. 2020. Accelerating the monitoring of global biodiversity: Revisiting the sampled approach to generating Red List Indices.<br>IUCN. 2015. The IUCN Red List of Threatened Species range maps, accessed on 7/8/2020 https://www.iucnredlist.org/resources/spatial-data-download <br><br><br>
DOI: 10.6084/m9.figshare.20764843.v6
title: Beaconet: A Reference-Free Method for Integrating Multiple Batches of Single-Cell Transcriptomic Data in Original Molecular Space

description: The analysis code, the visualization of all correction results of benchmark methods, the preprocessed benchmark datasets in the paper "Beaconet: A Reference-Free Method for Integrating Multiple Batches of Single-Cell Transcriptomic Data in Original Molecular Space"doi of our paper: https://doi.org/10.1002/advs.202306770
DOI: 10.6084/m9.figshare.25572387.v3
title: How can appropriate hue ranges be selected for sequential color schemes on choropleth maps? A quantitative evaluation using map-reading experiments

description: We recruited 414 college students to participate in the experiment. Through the experiment, we collected their visual data and arranged them according to different visual indicators. Then we process our data through qualitative and quantitative analysis to get the final result.
DOI: 10.6084/m9.figshare.26326894.v1
title: Background Data for Seress et al "Radio-tracking urban breeding birds: the importance of native vegetation"

description: Datasheet containing background data for Seress et al. "Radio-tracking urban breeding birds: the importance of native vegetation". The datasheet contains, for example, the surveyed plant species; plant species' categorization (nativeness, leaf type), occurrance and estimated canopy volume on birds' territories; birds' foraging preference (FPI) values for each plant species; plant species' average FPI values; time efficiency scores and caterpillar scores calculated for foraging birds on different plant species etc. A key is provided to describe each variable.
DOI: 10.6084/m9.figshare.26517172.v1
title: <b>LABORATORIOS VIRTUALES Y FORMACIÓN DE AGENTES EDUCATIVOS. UNA REVISIÓN BIBLIOGRÁFICA</b>

description: Base de datos con 15 artículos.
DOI: 10.6084/m9.figshare.6832514.v1
title: Evidence for varicose vein treatment: an overview of systematic reviews

description: ABSTRACT BACKGROUND: Varicose veins affect nearly 30% of the world’s population. This condition is a social problem and needs interventions to improve quality of life and reduce risks. Recently, new and less invasive methods for varicose vein treatment have emerged. There is a need to define the best treatment options and to reduce the risks and costs. Since there are cosmetic implications, treatments for which effectiveness remains unproven present risks to consumers and higher costs for stakeholders. These risks and costs justify conducting an overview of systematic reviews to summarize the evidence. DESIGN AND SETTING: Overview of systematic reviews within the Discipline of Evidence-Based Health, at Universidade Federal de São Paulo (UNIFESP). METHODS: Systematic reviews on clinical or surgical treatments for varicose veins were included, with no restrictions on language or publication date. RESULTS: 51 reviews fulfilled the inclusion criteria. Outcomes and comparators were described, and a narrative review was conducted. Overall, there was no evidence that compression stockings should be recommended for patients as the initial treatment or after surgical interventions. There was low to moderate evidence that minimally invasive therapies (endovenous laser therapy, radiofrequency ablation or foam sclerotherapy) are as safe and effective as conventional surgery (ligation and stripping). Among these systematic reviews, only 18 were judged to present high quality. CONCLUSIONS: There was evidence of low to moderate quality that minimally invasive treatments, including foam sclerotherapy, laser and radiofrequency therapy are comparable to conventional surgery, regarding effectiveness and safety for treatment of varicose veins.
DOI: 10.17632/jp4ncmtxbc
title: GDP Spatialization in Zhengzhou City Based on NPP/VIIRS Nighttime Light and Socioeconomic Statistical Data Using Machine Learning

description: GIS DATASETS：
RESEARCH_AREA_NLD_DATA.zip: the vector maps data of the study area.
2012_NLD_of_Zhengzhou_City, 
2013_NLD_of_Zhengzhou_City, 
2014_NLD_of_Zhengzhou_City,
2015_NLD_of_Zhengzhou_City, 
2016_NLD_of_Zhengzhou_City, 
2017_NLD_of_Zhengzhou_City,
PROGRAMS DATASETS:
FCN8.py, 
Unet.py, 
predict.py, 
训练数据.py
FIGUREs DATASETS:
Figure 1. Location map of the study area (Zhengzhou City, Henan Province).
Figure 2. Night Light Data (NPP) of Zhengzhou City, 2017.
Figure 3. Road Map of the research study.
Figure 4. Flow chart of classification process of SVM algorithm.
Figure 5. Flow chart of the semantic segmentation classification process.
Figure 6. Structure diagram of Full Convolution Neural Network (FCN) Model.
Figure 7. Structure diagram of U-Net Neural Network Model.
Figure 8. (a) NPP training results of SVM algorithm (2012-2017)
Figure 8. (b) NPP training results of FCN model (2012-2017)
Figure 8. (c) NPP training results of U-Net model (2012-2017).
Figure 9. Comparison of Calculated data.
Figure 10. ScatterPlot (Response vs. Predictor).
Figure 11. Accuracy with Given Data by Municipal of Bureau.
Figure 12. (a) GDP 2012 Model.
Figure 12. (b) GDP 2013 Model.
Figure 12. (c) GDP 2014 Model.
Figure 12. (d) GDP 2015 Model.
Figure 12. (e) GDP 2016 Model.
Figure 12. (f) GDP 2017 Model.
DOI: 10.4121/13011239.v1
title: Isotropic plasma atomic layer etching of Al2O3

description: Data used to plot all of the figures in the letter titled "Isotropic plasma atomic layer etching of Al2O3 using a fluorine containing plasma and Al(CH3)3)". Each figure has its own page, original origin files are available upon request.
DOI: 10.6084/m9.figshare.25272253.v2
title: Source data.rar

description: The source data of ''Deep-potential enabled multiscale simulation of gallium nitride devices on boron arsenide cooling substrates''
DOI: 10.7910/dvn/ajzrn3
title: Energy cane as a new oil

description: Fieldnotes from an interview with a sugarcane scientist.