cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/7x65rj7ph4
title: CAD Assembly of Total Knee Replacement with Femur and Tibia bones for CAE Analysis

description: Contact mechanics determine the outcomes of a Total Knee Replacement (TKR) surgery in which the infected knee joint of a human is replaced with Total Knee Replacement components made up of bio-compatible materials. To get valuable insights into the contact mechanics of knee joint, CAD (Computer Aided Design) and CAE (Computer Aided Engineering) analysis have proved very significant. Total Knee Replacement has three components- femoral component, bearing, and tibial component. These components are fixed to Femur and Tibia with a strong cement. The assembly of TKR components with Femur and Tibia bones is presented here as CAD. This CAD assembly can be used for any finite element analysis or CAE analysis concerning the knee joint. The TKR components of a posterior-stabilized, fixed bearing total knee prosthesis, PFC (De Puy, Johnson & Johnson, Leeds, UK)(1) were modelled using reverse engineering technique that converts a point cloud data gathered after scanning an actual physical product to CAD surfaces and solids. 3D point cloud data of TKR components were obtained with ATOS compact scanner (GOM GmbH, Germany) (2) consisting of two cameras, a laser source, a software and working area. The specifications of the scanner were: camera pixels: 8 or 12 mega- pixels, measuring area: 45 x 30 to 1200 x 1000 mm², working distance: 450 to 1200 mm and sensor dimension: 340 mm x 130 mm x 230 mm. The Geometric modelling of TKR component from these point cloud data was developed using Geomagic studio 12 (Raindrop Geomagic, Research Triangle Park, NC) (3). The bones, Femur and Tibia were modelled using point cloud data from MRI images of an Indian patient collected from Apollo hospital, Bangalore. The final assembly was executed in Solidworks 2013 (Dessault Systemes, Velizy-Villacoublay, France) (4). The resection of Femur and Tibia bone was accomplished with the help of a professional TKR surgeon at Apollo hospital, Bangalore The CAD model can be meshed in a CAE software and used to perform a CAE analysis be it a simple linear implicit analysis or a complex dynamic explicit analysis. The CAD (.stp format) needs an "import" to the CAE software. All dimensions are in mm.
DOI: 10.17632/tkdn6zbw7k
title: Root-secreted coumarins and the microbiota interact to improve iron nutrition in Arabidopsis.Harbort and Hashimoto et al.

description: Data and scripts used to generate figures from "Root-secreted coumarins and the microbiota interact to improve iron nutrition in Arabidopsis" by CJ Harbort and Masayoshi Hashimoto et al., Cell Host & Microbe 2020.
DOI: 10.17632/wzzv2wc7fd
title: A MATLAB tool for computing the spherical harmonic fractal dimension of the cerebral cortex

description: Fractal dimension (FD) has become a very useful tool in neuroscience with a wide range of applications in characterizing several neurodegenerative diseases. The most commonly used method for computing the FD of brain tissues is box-counting. This technique performs very well on 2D images and 3D volumes; however, it presents several drawbacks when processing cortical surfaces in 3D. In this study, we present a MATLAB program for computing the FD of 3D surfaces based on spherical harmonics. We developed a novel MATLAB program, called UJA-SHFD, based on a spherical harmonics FD algorithm which overcomes the limitations of the classical box-counting algorithm when processing 3D surfaces. Moreover, spherical-harmonic-based FD (SHFD) enables the processing of both global (providing a single FD value for the entire surface) and local level assessments in each cortical surface vertex. UJA-SHFD has been specifically designed and tested for processing cortical surfaces obtained from the FreeSurfer software suite. Nevertheless, the program can also process any kind of surface in the Wavefront OBJ format. UJA-SHFD can be used both through a graphical user interface and at the command line. The present study demonstrates the usefulness of UJA-SHFD through its application to a neuroimaging study looking at the progression of brain atrophy in Alzheimer’s disease. UJA-SHFD is a novel MATLAB program with the goal of developing neuroimaging analyses of FD computation for the investigation of brain morphological changes in neurodegenerative and neuropsychiatric disorders. The MATLAB source code of UJA-SHFD is freely available.
DOI: 10.17632/x2zmwzdttp
title: Gamow, a program for calculating the resonant state solution of the radial Schrödinger equation in an arbitrary optical potential

description: Title of program: GAMOW FUNCTIONS Catalogue Id: AAOD_v1_0 Nature of problem The program calculates the normalized Gamow solution of the radial Schrodinger equation, i.e. the solution which is regular at the origin and has purely outgoing wave asymptotics, in a spherically symmetric complex potential of arbitrary form. Optionally either the complex energy eigenvalue in a given potential, i.e. the position of the pole of the scattering function S(E) or the strength of the short range potential belonging to a given energy value is computed. Versions of this program held in the CPC repository in Mendeley Data AAOD_v1_0; GAMOW FUNCTIONS; 10.1016/0010-4655(82)90178-3 This program has been imported from the CPC Program Library held at Queen's University Belfast (1969-2019)
DOI: 10.6084/m9.figshare.23688981.v1
title: Spatially explicit causes of extinction of the European bison from 21,000 years before present to 1500 CE

description: We performed spatially explicit, process-explicit simulations of the range collapse of the European bison (<em>Bison bonasus</em>) from 21,000 years ago to 1500 CE, validating our models against observed patterns of fossil occurrence and population persistence. We examined the top 25 models to find the cause of extinction in each grid cell where the European bison became extinct in our simulations. These raster data provide a map of these causes of extinction at a 86 by 75 km resolution. The spatial projection of the raster is Albers equal area, with a central meridian at 25E, and standard parallels at 42.5 and 72.5N. The values in the raster are dummy variables, which correspond to the following categories: <br> 0 - Range of the European bison in 1500 CE. These cells do not become extinct in the simulation. 1 - Local extinction due to climate change. These cells became climatically unsuitable for the European bison between 21,000 years BP and 1500 CE. 2 - Local extinction due to human drivers. European bison became extinct in these grid cells due to human hunting or land use change. 3 - No occupancy. European bison never occupied these grid cells at any point in the simulation.
DOI: 10.6084/m9.figshare.10311209.v1
title: Measuring Alcohol Use-Related Shame and Guilt: Development and Validation of the Perceptions of Drinking Scale

description: <i>Background</i>: The dispositional tendency to experience guilt is inversely related to disordered alcohol use, while dispositional shame-proneness appears to share a positive relationship with alcohol problems. <i>Objective</i>: In order to further research in this domain, a new measure of alcohol use-related shame and guilt is described. <i>Methods</i>: Using exploratory and confirmatory factor analysis (CFA), the psychometric properties of the Perceptions of Drinking Scale (PODS) were validated across two independent samples (Sample 1 <i>N</i> = 293, Sample 2 <i>N</i> = 429). <i>Results</i>: A four factor model of the PODS was identified in exploratory factor analysis. The hypothesized four-factor PODS model was validated in an independent sample using CFA (RMSEA = .046; CFI = .99; TLI = .99). Alcohol use-related shame and guilt were reliably differentiated, and test re-test stability, divergent and convergent validity was established. Alcohol use-related shame was not clearly related to taking action to address problematic alcohol use, but was positively related with measures of negative affect and using avoidance-based coping strategies. Conversely, alcohol use-related guilt was generally unrelated to measures of negative affect and was clearly associated with the taking of action to address problematic alcohol use. <i>Conclusions</i>: The Perceptions of Drinking Scale has good psychometric properties and also appears to reliably distinguish between experiences of alcohol use-related shame and guilt. Both alcohol use-related shame and guilt appear to be positively associated with the contemplation of changing one’s alcohol use-related behaviors. Only alcohol use-related guilt was clearly linked to the taking of <i>action</i> to address problematic drinking behavior.
DOI: 10.6084/m9.figshare.22358254.v1
title: Dataset3_Initial soil chemical properties.xlsx

description: The initial soil chemical properties of experiemental blocks (block 1-4).
DOI: 10.17632/9s2nmbxkrs
title: The Impact of Social Media on Daily Lives

description: This dataset was created as part of a study investigating the impact of social media on students, employees, and the unemployed. A total of 522 responses were collected, containing both numeric and string data. The majority of the data was gathered from students, with additional contributions from employees and the unemployed to ensure a diverse and representative sample. The data was collected through a Google Form, which was specifically designed to capture comprehensive and relevant information for the study. The questionnaire comprised 14 carefully selected questions sourced from reputable platforms such as SurveyMonkey, QuestionPro, and JotForm. These sources were utilized to ensure the use of well-established question formats, enhancing the reliability and validity of the dataset. This dataset provides valuable insights into how social media impacts individuals in different life roles and serves as a foundation for further analysis and research.
DOI: 10.6084/m9.figshare.28592528.v1
title: Population genetics of the Brown Rat (Rattus norvegicus) in a Heterogeneous Urban Landscape. "populations.norvegicus.urban.filtered.vcf"

description: <i>Rattus norvegicus</i>, a globally distributed invasive species, has successfully established urban populations in close association with humans posing significant economic and public health challenges worldwide. Understanding the relationship between landscape features and genetic differentiation among <i>R. norvegicus</i> populations is crucial for developing effective control and management strategies. The aim of this study was to analyze the genetic connectivity among <i>R. norvegicus</i> populations in different urban environments of the Metropolitan Area of Buenos Aires including parks, urban reserves, port areas, informal settlements, and residential neighborhoods.
DOI: 10.17632/7sg6bn8m74
title: Supplementary Data: Clinical presentation and differential splicing of SRSF2, U2AF1 and SF3B1 mutations in patients with Acute Myeloid Leukaemia

description: Additional supplementary material for the article "Clinical presentation and differential splicing of SRSF2, U2AF1 and SF3B1 mutations in patients with Acute Myeloid Leukaemia"
DOI: 10.6084/m9.figshare.22904477.v1
title: <i>Arabidopsis thaliana</i>: a powerful model organism to explore histone modifications and their upstream regulations

description: Histones are subjected to extensive covalent modifications that affect inter-nucleosomal interactions as well as alter chromatin structure and DNA accessibility. Through switching the corresponding histone modifications, the level of transcription and diverse downstream biological processes can be regulated. Although animal systems are widely used in studying histone modifications, the signalling processes that occur outside the nucleus prior to histone modifications have not been well understood due to the limitations including non viable mutants, partial lethality, and infertility of survivors. Here, we review the benefits of using <i>Arabidopsis thaliana</i> as the model organism to study histone modifications and their upstream regulations. Similarities among histones and key histone modifiers such as the Polycomb group (PcG) and Trithorax group (TrxG) in <i>Drosophila,</i> Human, and Arabidopsis are examined. Furthermore, prolonged cold-induced vernalization system has been well-studied and revealed the relationship between the controllable environment input (duration of vernalization), its chromatin modifications of <i>FLOWERING LOCUS C</i> (<i>FLC</i>), following gene expression, and the corresponding phenotypes. Such evidence suggests that research on Arabidopsis can bring insights into incomplete signalling pathways outside of the histone box, which can be achieved through viable reverse genetic screenings based on the phenotypes instead of direct monitoring of histone modifications among individual mutants. The potential upstream regulators in Arabidopsis can provide cues or directions for animal research based on the similarities between them.
DOI: 10.6084/m9.figshare.28151696.v1
title: <b>A Multi-Scale Hybrid Scene Geometric Similarity Measurement Method Using Heterogeneous Graph Neural Network</b>

description: <b>A Multi-Scale Hybrid Scene Geometric Similarity Measurement Method Using Heterogeneous Graph Neural Network</b>
DOI: 10.6084/m9.figshare.5125156.v1
title: Supplementary Material for: From Communicative Functions to Prosodic Forms

description: This is a proposal in favour of proceeding from communicative function to linguistic form, rather than the reverse, for an insightful account of how humans communicate by speech in languages. A functional framework is developed that encompasses argumentation structures, declarative and interrogative functions, and expressive intensification. Such a function orientation can become a powerful tool in comparative prosodic research across the world's languages. The potential of this approach is shown by comparing the prosodic form of Mandarin Chinese data collected in functionally contextualized scenarios with corresponding data from English and German.
DOI: 10.6084/m9.figshare.19884205.v1
title: Sequential acquisition data

description: Images compare reconstruction techniques on MAI-SIM data acquired under ideal phase shift conditions. Fixed COS7 cells were labelled for beta-tubulin using scondary anti-body staining with Alexa590. Pixel size is 86 nm in the raw data and 43 nm after upscaling during reconstruction.
DOI: 10.6084/m9.figshare.26131405.v1
title: Single-cell assay for transposase-accessible chromatin sequencing of human clear cell renal cell carcinoma

description: The organization of accessible chromatin across the genome plays an essential role in establishing and maintaining cellular identity, reflecting a network of epigenetic regulation through which enhancers, promoters, insulators and chromatin-binding factors cooperatively regulate gene expression. In particular, alterations in chromatin accessibility have been implicated in driving cancer initiation, progression and metastasis. Here, we provide a high-quality chromatin accessibility data for ccRCC at single-cell level. Performing high-throughput scATAC-seq on 3 human ccRCC samples , we obtained a total of 18,703 high quality nuclei and 104,818 unique peaks, including coding, non-coding regions, promoters and enhancers.
DOI: 10.6084/m9.figshare.6066563.v1
title: Edge information of the reduced Chilean power grid

description: Edge data of Chilean power grid 'reduced' version. Edge lists are recorded with ID of nodes. It also includes the length, capacity information. Please, see the corresponding node file to see the detail informaion of the nodes.
DOI: 10.17632/ddc7krkx32
title: Dataset on the questionnaire-based survey and mapping of flood risk perception in Southern-Corvallis, OR, USA

description: This data is from a household survey, which was conducted to determine residents' risk perceptions in the 1%- and 0.2% annual chance floodplain in Corvallis, OR. This Archive contains 1. De-identified data sets of survey responses; 2. Questionnaire sample in English and Spanish used in the survey; 3. Floodplain mapping of the study area
DOI: 10.6084/m9.figshare.15102957.v1
title: Additional file 1 of N2O emission and its influencing factors in subtropical streams, China

description: Additional file 1: Fig. S1. amoA genes abundance in the Jinshui River and Qi River. Vertical bar denote SE of triplicate samples (Zhao et al. 2020). The genes primers were shown in Table S7. Fig. S2. nirK gene abundance in the Jinshui River and Qi River. Vertical bar denote SE of triplicate samples (The data have not yet been published). The measured method was the same as amoA genes. The gene primer was shown in Table S7. Fig. S3. nirS genes abundance in the Jinshui River and Qi River. Vertical bar denote SE of triplicate samples (The data have not yet been published). The measured method was the same as amoA genes. The gene primer was shown in Table S7. Fig. S4. nosZ genes abundance in the Jinshui River and Qi River. Vertical bar denote SE of triplicate samples (The data have not yet been published). The measured method was the same as amoA genes. The gene primer was shown in Table S7. Fig. S5. Potential nitrification rates in the Jinshui River and Qi River. Vertical bar denote SE of triplicate samples (Zhao et al. 2020). Fig. S6. Potential nitrification rates in the Jinshui River and Qi River. Vertical bar denote SE of triplicate samples (The data have not yet been published). Table S1. The land use attribute table of the Jinshui River and Qi River. Table S2. Wind speed (m/s) at 2 m above water surface of Jinshui River and Qi River. Table S3. Pearson’s correlation analyses between N2O concentration and physicochemical variables. * represent P &lt; 0.05, **represent P
DOI: 10.6084/m9.figshare.22799645.v2
title: genome and its annotation of taesp

description: Here is a genome of Taenioides sp. provided by Yantao Liu and Zhenming Lü
DOI: 10.6084/m9.figshare.25036925.v1
title: Treating pain in sickle cell disease by means of focused ultrasound neuromodulation (Ultrasound Characterizations: <i>Ex-vivo</i> Scanning)

description: We developed a novel transcranial focused ultrasound transducer for treating pain in humanized sickle cell mice. The project promises to provide non-pharmacologic chronic pain treatment for patients associated with underlying conditions such as cancer or sickle cell disease (SCD).This dataset includes 4 original ex-vivo scans formatted in MATLAB workspace. Their long file names include the scanning senarios, power source levels, fundamental frequency, sampling number, pulse repetition frequency, cycle per pulse number, x and y distances with step size, z distance with slice size, and z focal distance.For convenience, we also attached other 4 .mat files with formatted transcranial focused ultrasound pressure magnitude data scanned through hydrophone in a water tank (3-dimensional variable: <b><i>I</i></b><b><i>ntensity_locations</i></b>). Each file name is labeled with the scanning scenarios, i.e., free water vs. mouse skull, and with voltage levels of the Vantage system, i.e., 2.4 V or 20 V. 2.4 V power source is the major voltage used to test the efficacy of tFUS stimulation in modulating pain, and the 20 V power source is the scaled-up scenario used in positive control condition to test the safety of tFUS stimulation in mice. The spatial step sizes of the 3D matrix (<b><i>Intensity_locations</i></b>) are included in each of these files (variables: <b><i>step </i></b>for x and y dimensions, <b><i>slice </i></b>for z dimension, physical unit: mm). The pulse duration (<b><i>PD</i></b>) is 200 micro-second. The variables <b><i>xaxis_locations</i></b>, <b><i>y</i></b><b><i>axis_locations</i></b>, and <b><i>z</i></b><b><i>axis_locations </i></b>described the total step/slice numbers along those three directions.The ex-vivo scannings were implemented in the presence of a freshly excised mouse skull sample. This work was supported in part by NIH EB029354, NS124564, and NS131069. More information can be found in the corresponding manuscript:Kim MG*, Yu K*, Yeh C-Y, Fouda R, Argueta D, Kiven S, Ni Y, Niu X, Chen Q, Kim K, Gupta K, He B. Low-intensity transcranial focused ultrasound changes pain-associated behaviors by modulating pain processing brain circuits. bioRxiv: https://doi.org/10.1101/2022.12.07.519518 (*Equal contribution, first author)If anyone uses the whole or part of the dataset provided here, we kindly ask you to cite the above publication in any of your publications or presentations:
DOI: 10.6084/m9.figshare.5231203.v2
title: Transparent skull method for intrinsic signal optical imaging.

description: Raw data on comparison between cranial window (CW) installation and transparent skull (TS) preparation for intrinsic optical imaging in mice.<br>
DOI: 10.17632/b75scngkz8
title: A dataset for Attention to Climate change

description: The dataset includes three groups of time series. First, data for 16 Google topics related to attention to climate change. Second, data series for a set of control variables. Third, data series for five environmentally friendly financial assets that include MAC global solar energy index (SONX), S&P global clean energy index (CLNX), Dow Jones sustainability world index (SUSX), S&P global 1200 carbon efficient index (LCEX), and S&P green bond index (GBDX). The sample period is from January 03, 2014 to March 08, 2024.
DOI: 10.6084/m9.figshare.21331143.v1
title: UATD_Dataset

description: This dataset file includes a training set named UATD_Trainging.zip, two test sets named UATD_Test_1.zip and UATD_Test_2.zip respectively, and a sonar image label tool named UATD_OpenSLT.zip
DOI: 10.6084/m9.figshare.23497442.v1
title: Stress, Self-Control, and Procrastination

description: This data is associated with our study.
DOI: 10.17632/njyxh337cc
title: Problem Instances for the Generalized Assignment Problem (GAP) with Resource-Independent Task Profits and Identical Resource Capacity

description: This dataset includes the problem instances generated for the Generalized Assignment Problem (GAP) with resource-independent task profits and identical resource capacity. We have set the four problem features - the number of tasks, the number of resources, the homogeneity of resources, and the relative capacity ratio of resources to total demands for tasks - with different levels for the features, resulting in 54 classes of the problem instances. For each class, 20 instances are generated, thus, a total of 1080 instances is included in the dataset. The main aim for this dataset creation was to test the performance of a solution algorithm to the target optimization problem and to characterize the performance of the algorithm as a function of the problem feature values. The findings along with the process could help a solution algorithm developer to understand the target optimization problem and thus design a solution algorithm with acceptable performance.
DOI: 10.6084/m9.figshare.21378213.v4
title: Quality assessment checklist for publications to be considered for review - Adapted from JBI and CASP

description: According to Whittemore & Knafl, two quality criterion instruments should be utilized during the review process to assure the authenticity, methodological quality, and informative value of the included research. The CASP tool and the JBI Critical Appraisal Tool each include a set of detailed questions to enhance the visualization of the data. A common checklist is adapted to simplify this complex comparison between the CASP tool and the JBI Critical Appraisal Tool. Each article can be assessed using the adapted checklist to analyze the articles clearly and succinctly. They were adjusted to include the essential criteria stated in both the CASP tool and the JBI Critical Appraisal Tool. The modified checklist includes a clear aim, methodology, design, recruitment, data collection, researcher-participant relations, participants and their voices, ethical considerations, data analysis and rigor, findings, and research value.