cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/9scn37td2p.2
title: Dataset on optimization and development of a point-of-care glucometer-based SARS-CoV2 detection assay by using aptamers

description: The paper presents the Supplementary Data of the published research work entitled “Hitting the diagnostic sweet spot: Point-of-care SARS-CoV-2 salivary antigen testing with an off-the-shelf glucometer” (Singh et al., 2021, Biosensor and Bioelectronics) . The assay is designed to be performed at home or a healthcare center without the requirements of expensive instruments or operational training. The virus is detected by an aptamer-based assay that specifically targets SARS CoV-2 Nucleocapsid (N) or Spike (S) proteins. The binding of N or S proteins by their respective aptamers results in the competitive release of a complementary antisense-invertase enzyme complex from the aptamers. The released enzyme then catalyzes the conversion of sucrose to glucose that is measured by a glucometer. The data presented here describe the optimization of the assay parameters and their contribution in the development of the aptamer-based assay for the detection of SARS CoV-2. The assay performance was checked in standard buffer, contrived, and real patient samples, and validated with well-established scientific methods. The resulting dataset can be used to further develop the glucometer-based point-of-care system for diagnosing other communicable and non-communicable diseases
DOI: 10.17632/k59j8jxskh.2
title: Source code and demo for pyCLAMs.py

description: Supplemental Materials for the article "pyCLAMs: an integrated python toolkit for classifiability analysis" File list: pyCLAMs.py - the main module other py files - dependent modules pyCLAMs demo.pdf - API demo report
DOI: 10.17632/nc3zm6v6cg.1
title: Variant Data: The high global prevalence and ethnic heterogeneity of primary ciliary dyskinesia gene variants.

description: Variants interpreted by Invitae are shown in the spreadsheet "Variants interpreted by Invitae." This spreadsheet includes variants of uncertain significance that were excluded as described in the methods. In addition to the variants shown in this spreadsheet, 53 copy number variants interpreted at Invitae were included in the analysis and are provided in the spreadsheet "CNV data." The gnomAD presumed loss of function variants are provided in the spreadsheet "gnomAD pLoF variant data."
DOI: 10.17632/d6m4xhwtyw.2
title: The efficacy and acceptability of exposure therapy for the treatment of post-traumatic stress disorder in children and adolescents: A systematic review and meta-analysis

description: Efficacy at post-treatment in PTSD symptom severity (continuous variables)，Efficacy of follow-up in PTSD symptom severity (continuous variables)，Depressive symptom (continuous variables)，Quality of life/social functioning (continuous variables)，Acceptability (binary variables)
DOI: 10.17632/k3jcvb769d.1
title: Data for: Training enhances the ability of listeners to exploit visual information for auditory scene analysis

description: Dataset to accompany Atilgan and Bizley (preprint: https://www.biorxiv.org/content/10.1101/295766v3). Summary data for each participant (1 per row) for pretest and post-test performance in the auditory selective attention task. Included are d', bias, hit rates and false alarm rates for the auditory task, and visual hit rates for the visual element.
DOI: 10.17632/2spwzf4sx4.1
title: RDW

description: CBC of the patients who were admitted to intensive care unit were obtained along with their demographic, severity scores and comorbid disease. The correlation was made to their clinical outcome and the cutoff value for Red cell Distribution Width was calculated to predict an unfavorable outcome.
DOI: 10.17632/jjjmh26c2g.3
title: Locomotor responses to salt stress in native and invasive mud-tidal gastropod populations (Batillaria)

description: This data set includes footage videos of snails reacting to different saline regimes of 13, 23, 33, and 43 PSU. These snails were collected from the north and east coast of the Japan archipelago (Nemuro city, 43°15’N, 145°28’E and Matsushima bay, 38°22’N, 141°4’E), and the west coast of the USA (Monterey Bay, Elkhorn Slough, 36°49’N, 121°45’W). There are three zipped files named after the sampling sites of Nemuro, Matsushima, and Elkhorn Slough. Each zipped file contains 15 folders labeled with recorded day. Each of these contains 80 AVI files labeled with the format of Recorded day_Salinity_FF_number, in which FF is "FastForwarded" and numbers are identities of recorded snails. For example, the first video in Matsushima zipped file/Folder Day 1/Day 1_13_FF_1 is a locomotor video of snail 1 recorded on the first day of the acclimation experiment when exposed to 13 PSU. STL_tool.zip contains Spectral Time Lapse Matlab script used for tracking and quantifying the movement of recorded snails.
DOI: 10.17632/kxp7x7p39b.1
title: Coo and Price

description: this data solicited the views of second-hand clothing (SHC) users on the variables: country of origin stereotypes (COO), price sensitivity (PS), purchase intention (PI), and attitude (AT). the sample size was 272 respondents.
DOI: 10.17632/78w9ndc95h.1
title: Structure-activity mapping of the force- and sequence-dependent landscape of T cell activation

description: This project contains the AutoCAD designs (parallel flow focuser and microwell device) and T cell Ca2+ flux data for the BATTLES experiments related to: Structure-activity mapping of the force- and sequence-dependent landscape of T cell activation.
DOI: 10.17632/dg2rt3vfty.1
title: CrossPerformancePowerPrediction

description: We have collected performance and power datasets for 6 benchmark applications; mser, tracking, svm and stitch from SD-VBS benchmark and sha and dijkstra from MiBench benchmark from simulation systems built-in Gem5 simulator with emulation mode as well as from physical systems. Simulation Systems Performance and Power Dataset: We have built 475 simulation systems in the Gem5 simulator using emulation mode by collecting nine hardware features cpu clock speed, instriction-set-architecture (ISA), cores, L1 cache size, L2 cache size, L3 cache size, memory type, memory access speed and memory size from real systems available in the market today. We have executed each of the 6 benchmark applications on each of the 475 simulation systems to collect actual runtime along with hardware features. We have utilized the McPAT to collect power consumption for each application execution on Gem5 simulation systems. The hardware features, performance (Runtime) and Power is available in files /benchmark_algo/%application%/%application%_power.csv e.g. for mser it is available at benchmark_algo/mser/mser_power.csv, etc. Physical Systems Performance and Power Dataset: We have selected 4 physical systems for our cross performance power prediction experiments. We first have collected hardware feature values from each of the four systems using the dmidecode utility. We have modified each of the 6 benchmark applications' source code to integrate PAPI-API to collect power consumption. PAPI-API uses Intel's RAPL to read machine status registers (MSRs) to collect power consumption. We have executed modified versions of each benchmark application on each physical system to collect runtime and power consumption from benchmark logs. The hardware features, performance (Runtime) and Power are available in files /benchmark_algo/%application%/%application%_power_lab.csv e.g. for mser it is available at benchmark_algo/mser/mser_power_lab.csv, etc. Performance and Power Dataset from Gem5 Systems with Hardware Features of Physical Systems: For validation purposes, we have to build Gem5 systems with identical hardware feature values as the physical systems. We have collected performance power for each benchmark application by executing each of these systems. The files /benchmark_algo/%application%/Gem5LabSystemConfigs.csv under each application folder consists of performance (runtime) and power for the Gem5 systems with features of physical systems.
DOI: 10.17632/p5jbs7gdfg.1
title: Data for: Sanctioning and trustworthiness across ethnic groups: Experimental evidence from Afghanistan

description: Data and code for "Sanctioning and trustworthiness across ethnic groups: Experimental evidence from Afghanistan" (see notes in the code)
DOI: 10.17632/t78j3jhzgd.1
title: Data for: In vitro assessment of PEEK and titanium prosthetic abutments: screw loosening and microleakage evaluations under dynamic mechanical testing

description: Raw data from mechanical and functional tests
DOI: 10.17632/sksdk3z5dk.2
title: Fate challenge purges the regulatory T cell repertoire of unstable clones - supplementary tables S.Junius et al.

description: paper: "Fate challenge purges the regulatory T cell repertoire of unstable clones" Steffie Junius, Adamantios V. Mavrogiannis, Pierre Lemaitre, Margaux Gerbaux, Frederik Staels, Vanshika Malviya, Oliver Burton, Raul Yhossef Tito Tadeo, Jeroen Raes, Joost P. M. van Meerwijk, Stephanie Humblet-Baron, Adrian Liston*, Susan M. Schlenner* Folder single-cell RNA sequencing - Fig. 4: Purpose: identify differentially expressed genes between ex-Treg obtained 5, 10, or 15 days post-adoptive transfer into a lymphopenic environment compared to ex vivo Treg in order to identify Treg subset with heightened instability. Method: Treg from Foxp3YFP-Cre Rosa26RFP (PMID: 18387831, PMID: 17171761) were co-injected with congenically-disparated naive T cells in a 1:1 ratio into Rag1KO mice and ex-Treg were sorted at 15 days, 10 days or 5 days post-transfer. As a control, ex vivo Treg was sorted from Foxp3YFP-Cre Rosa26RFP (d0 sample). Next, samples were stained with multiplexing antibodies using the BD Single-Cell Multiplexing Kit (BD biosciences), then pooled and stained with the following oligonucleotide-conjugated antibodies: anti‑CD25 (PC61), anti-CD44 (IM7), anti-CD62L (MEL-14), anti-GITR (DTA-1), anti-CD4 (RM4-5), anti‑TCRb (H57-597), anti‑CD69 (H1.2F3), anti‑TIGIT (1G9), anti‑CD95 (Jo2), anti‑CD122 (TM‑1β), anti‑Tim-3 (5D12), anti‑CCR7 (4B12), anti‑CD103 (M290), anti‑CD279 (J43), anti‑CD274 (MIH5), anti‑CD233 (C9B7W), anti‑CD71 (C2), anti‑CD278 (7E7G9), anti‑ITGB7 (M293), anti‑CD137 (1AH2), anti‑CD40 (3/23), anti‑CD3e (145-2C) from BD Biosciences. Single-cell capture and cDNA library preparation was performed using the BD Rhapsody Single-cell analysis system (BD Biosciences), according to the manufacturer’s instructions, using a custom gene panel (591 genes). Sequencing was performed on an Illumina NextSeq500 instrument using a Mid‑Output kit v2.5 (150 cycles, paired-end). Sample demultiplexing, barcode processing, alignment, filtering, UMI counting were done using the standard BD Biosciences Rhapsody analysis pipeline on Seven Bridges (www.sevenbridges.com). Result and conclusion: In this study, we showed that ex-Treg downregulate Treg core-specific genes immediately upon adoptive transfer into a lymphopenic environment. Further, we identified a naïve-like Treg population enriched for unstable Treg clones. Folder microbiome sequencing- Fig S4: Purpose: Analyze diversity in microbial communities within fecal samples of SPF housed mice and SPF mice co-housed with pet store mice (CoH) method: Microbiome sequencing was performed as previously described in Pasciuto et al. (PMID: 32702313) result and conclusion: The microbial communities were different in SPF mice compared to CoH mice; 19 % of the variation on the microbial composition can be explained by this grouping (adonis test, R2 = 0.18791, p = 0.001). Twelve genera were identified with differences in relative abundance, seven enriched and five depleted in CoH mice (q-values &lt; 0.1, Wilcoxon test).
DOI: 10.17632/9293fsmrw6.1
title: Turkey Result from tree-way ANOVA

description: This project estimated urban trees DBH with iPad Pro 2020. We have used individual- and multiple-tree scan mode with different settings (Resolution: 10 mm, 15 mm, 20 mm; Confidence: High, Low). And then three-way ANOVA was used to see the difference between different methods. This is the results of Tukey post-hoc test, which is also the forward analysis of ANOVA.
DOI: 10.17632/4gtv3yj3wd.1
title: Data for: An Experiment on Referrals in Health Care

description: Dataset for the Paper "An Experiment on Referrals in Health Care"
DOI: 10.21957/strn-cs36
title: CY47R1 wave hindcast based on ERA5 forcing 1990-1999
DOI: 10.17632/jrfdtw9g28.1
title: Data for: The effects of selective contamination on the early Paleozoic intracontinental mafic rocks in the South China Block: New insights from high-δ18O zircon

description: Raw data of zircon O isotope
DOI: 10.17632/5x9m53xgsy.5
title: The Supporting Information for Spatial Changes in Late Quaternary Slip Rates along the Gyaring Co Fault: Implications for Strain Partitioning and Deformation Modes in Central Tibet

description: Author: Wang Duo, Hong Chang, Gongming Yin, Fei Han, Zebin Mao, Jinhua Du Wenjun Zheng and Xulong Wang Corresponding author: Xulong Wang (wxl@loess.llqg.ac.cn) Contents of this file Text S1 Figures S1 to S3 Table S1 Introduction The supporting information including sampling, pretreatments, all details of Optically Stimulated Luminescence (OSL) dating and collected rates and ages along strike-slip and normal faults in central Tibet. Text S1 shows detailed OSL dating processing and analysis procedures. Figures S1, S2 and S3 show OSL dating details at Kong Co, Aruo and Nacha site, respectively. Table S1 shows the rates and ages of strike-slip and normal faults and their corresponding references in central Tibet.
DOI: 10.6084/m9.figshare.14484609
title: Harel et al 2021_Ageing forests.csv

description: Dataset associated with article: Ageing forests and carbon storage: A case study in boreal balsam fir stands. Accepted for publication in Forestry: An International Journal of Forest Research.
DOI: 10.17632/x53tts3zfr.1
title: Charting human development using a multi-organ atlas and organoid models

description: Organs are composed of diverse cell types, which traverse transient states during organogenesis. To interrogate this diversity during human development, we generate a single-cell transcriptome atlas from multiple developing endodermal organs of the respiratory and gastrointestinal tract. We illuminate cell states, transcription factors, and organ-specific epithelial stem cell and mesenchyme interactions across lineages. We implement the atlas as a high-dimensional search space to benchmark pluripotent stem cell-derived human intestinal organoids (HIOs) in multiple culture conditions. We show that HIOs recapitulate reference cell states, and use HIOs to reconstruct the molecular dynamics of intestinal epithelium and mesenchyme emergence. We show that the mesenchyme-derived niche cue NRG1 enhances intestinal stem cell maturation in vitro and that the homeobox transcription factor CDX2 is required for regionalization of intestinal epithelium and mesenchyme in humans. Collectively, this work combines cell atlases and organoid technologies to understand how human organ development is orchestrated. We provide following data here: 1. Data S1 referred in the main text, which includes cellular heterogeneity of the multi-organ atlas/tHIO/developing duodenum mesenchyme/HIO mesenchyme, expression of gastrointestinal (GI) disease-associated genes in developing intestine and tHIO, intestinal stem cell and mesenchymal signaling potential over development, and transcription factors related to intestine epithelial and mesenchymal development; 2. Processed sequencing data; 3. Fetal atlas CSS model and UMAP model which we used for projection of organoid data to the developing atlas; 4. Intensity and list of cell type enriched epithelium-mesenchyme interactions in each organ reported by CellPhoneDB. Related to Figure 3; 5. Regulons associated with intestinal stem cell phase 4, 5 and 6. Related to Figure 5; 6. Reference patterns for novoSpaRc. Related to ExtData-6 of Data S1; 7. TF network module associated with in vitro HIO epithelial and mesenchymal development. Related to ExtData-8A; 8. Regulons of time course in vitro HIO mesenchymal cells and epithelial cells reported by pySCENIC. Related to ExtData-8G and Figure S7A.
DOI: 10.5281/zenodo.4720490
title: Rosalia: an experimental research site to study hydrological processes in a forest catchment - data repository

description: This repository is a supplement to the paper <strong>Fürst et al. (2020). Rosalia: an experimental research site to study hydrological processes in a forest catchment </strong>(submitted in August 2020 to Earth System Science Data (ESSD). Experimental watersheds have a long tradition as research sites in hydrology and have been used as far back as the late 19<sup>th</sup> and early 20<sup>th</sup> century. The University of Natural Resources and Life Sciences Vienna (BOKU) has been operating the experimental research forest site called “Rosalia” with an area of 950 ha since 1875 to support and facilitate research and education. Recently, BOKU researchers from various disciplines extended the “Rosalia” instrumentation towards a full ecological-hydrological experimental watershed. The overall objective is to implement a multi-scale, multi-disciplinary observation system that facilitates the study of water, energy and solute transport processes in the soil-plant-atmosphere continuum. This repository contains the datasets collected by a monitoring network of 4 discharge gauging stations, 7 rain-gauges, together with observations of air and water temperature, relative humidity and conductivity. In four profiles, soil water content and temperature are recorded in different depths. In 2019, additionally a program to collect isotopic data in precipitation and discharge was started. On one site, also Nitrate, TOC and turbidity are monitored. All data collected since 2015, including in total 56 high resolution time series data (10 min sampling interval), are provided to the scientific community.
description: Updates are planned annually, as soon as the raw data of the previous year are checked for plausibility.
DOI: 10.17632/76sjsc5j7v.1
title: Genotype-to-phenotype crop growth model for pepper

description: The data in this article includes 300 simulated two-way data tables with 200 genotypes in the rows and 12 environments in the columns each. The yield data was obtained from a genotype-to-phenotype crop growth model that was adapted for pepper. The genotypes were characterized by 237 markers covering all the 12 chromosomes, and the environments were obtained as a combination of: (i) two levels of radiation based on historical data; (ii) three levels of daily average temperatures, 15, 20 and 25ºC; and (iii) two countries, Spain and The Netherlands. 100 two-way data tables were obtained for each of the three levels of heritability in the environments, 0.3, 0.5 and 0.8.
DOI: 10.5281/zenodo.4720408
title: Hierarchical ICA BRCA-TCGA example deconvolution data

description: Example data to use for Hierarchical ICA decomposition with the Jupyter notebook found on: https://github.com/NicolasSompairac/Hierarchical_ICA
DOI: 10.5281/zenodo.4720407
title: Hierarchical ICA BRCA-TCGA example deconvolution data

description: Example data to use for Hierarchical ICA decomposition with the Jupyter notebook found on: https://github.com/NicolasSompairac/Hierarchical_ICA
DOI: 10.17632/xksypbzdwp.1
title: mileszhuhousingmonetary

description: Data for the paper "Housing and the Changing Impac t of Monetary Policy by WIlliam Miles and Xiaoyang Zhu.
DOI: 10.17632/sbxr7xxvnd.4
title: Pore sizes, porosity, and surface area of TPMS-based scaffold

description: This dataset enabled the researchers to design the tissue engineering scaffold computationally with a specific porosity and pore size by choosing the scaffold pattern (TPMS, or the customized implicit function), ω, and t. The TPMS-based scaffolds were generated from the marching cube algorithm (https://github.com/nodtem66/Scaffolder). The pore sizes (minimum Feret diameter and maximum Feret diameter), porosity (1 -scaffold volume / original volume), and surface area were acquired by the slice contour technique and geometric algorithm. The two parameters: angular frequency (ω) and iso-level (t), were introduce to customize the TPMS functions. Data for: https://doi.org/10.1016/j.cmpb.2021.106088 Program source code: https://github.com/nodtem66/Scaffolder
DOI: 10.17632/hnjjy3t6xm.1
title: Dynamic Blood Tests Reveal Predicted Week of Death and Tricky Week for Surveillance in Severely Ill COVID-19 Patients

description: Supplementary figures
DOI: 10.17632/hnjjy3t6xm.2
title: Dynamic Blood Tests Reveal Predicted Week of Death and Tricky Week for Surveillance in Severely Ill COVID-19 Patients

description: Supplementary figures
DOI: 10.17632/s8fhhrfrzg.1
title: Dataset for CEPchain: A graphical model-driven solution for integrating complex event processing and blockchain

description: This dataset contains the files used and obtained in the vaccine delivery case study, which was conducted to test our CEPchain model-driven solution.
DOI: 10.17632/xh424gwdrz.1
title: Measuring the Quality of Higher Education in Bangladesh: A Study on University of Dhaka

description: Education is one of the most important basic needs that shape the structure of a nation. Ensuring the quality of higher education is the major concern of a developing country like Bangladesh. Though both public and private universities have been playing a great role in this regard but still people are fascinated and have a great desire for studying in The University of Dhaka. In recent years, the quality of education of Dhaka University fell in front of questions. This paper is an attempt to determine the quality of higher education in Bangladesh by measuring the service quality of the University of Dhaka, the most prominent educational institution for higher studies, based on the responses of the students. The paper has identified five independent variables to evaluate the overall quality of the service provided to the students. The variables are tangibility, responsiveness, assurance, reliability and empathy. The study has made a survey of 200 respondents over the university students, both who are studying and who have already completed their graduation. The study has not found out highly satisfactory responses from the respondents. The regressive value shows there is mediocre level of satisfaction among the respondents on the quality issues. Why the students are not overall satisfied and specifically on which criteria they are not satisfied have been clearly demonstrated in this paper. The study has also recommended along with the findings what new adjustments the university authority make in this context.
DOI: 10.17632/5tscfbzcp8.1
title: Trade Unemployment and Monetary Policy

description: Replication files for “Trade, Unemployment, and Monetary Policy” by Matteo Cacciatore and Fabio Ghironi.
DOI: 10.17632/829ph4nkny.1
title: Dataset for Chemical Kinetics Bayesian Inference Toolbox (CKBIT)

description: The robust estimation of chemical kinetic parameters and their associated uncertainty is essential in the field of chemistry and catalysis. The Chemical Kinetics Bayesian Inference Toolbox (CKBIT) is a Python software library introduced to enable users to implement advanced Bayesian inference techniques for kinetic parameter estimation and uncertainty quantification. Leveraging functionalities of other open source Python packages and offering simplified implementation through minimal user-required coding and straightforward Excel input files, CKBIT aspires to make the inference method easily accessible for chemical kinetics. CKBIT provides maximum a posteriori, Markov chain Monte Carlo, and variational inference estimation options. Users may apply these functionalities to estimate activation energies, reaction orders, and pre-exponential terms from chemical reaction data from batch reactors, continuous stirred-tank reactors, and plug flow reactors. The availability of prior distribution specification and the implementation of hierarchical modeling in CKBIT provide a heightened level of accuracy in estimates of kinetic parameters and their uncertainties.