cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.4039413
title: Cilia density and flow velocity affect alignment of motile cilia from brain cells

description: Here we store video and code used for the publication Cilia density and flow velocity affect alignment of motile cilia from brain cells. We provide raw images and codes to support the article.The complete dataset of raw images is more than 1 Tb. Here we are limited to 50Gb. The full dataset is available upon request. <br> We choose to provide a full dataset of two culture at DIV 16, one treated with shear flow and a control without flow. <br> For each of the two cultures, the videos with propelled particles are in the directory FL,<br> The bright field images without particles are stored in BF. Unfortunately we uploaded only few videos because of their large size. The results of the analysis of this dataset is reported in the directory analysis (available for each culture). Moreover we provide the code to analyse these data.<br> The analysis routine: Step 1: for each field of view (fov) getting the cilia beating direction from the FL images. This is done with PIV. The code is Step1_PIVanalysis.mat Step 2: for each fov getting ciliated cell position and CBF from the BF movies. Gather the cilia beating direction and cilia posion and frequency in a unique figure and matlab class (Res.mat). This is done in Step2_gatherResults.mat The results of these analysis are stored in the analysis folder for each culture. These routines are repeated for each experiment and results are then plotted to get trends. In the folder code4figures we report the code that we used to make the figures in the papers starting from a matlab file "all_results*.mat", where are gathered all the analysis. The code may improve in the future with more comments. please check Nicola's github page for the latest update. Please contact us for any problem. https://github.com/NicolaPellicciotta/Code4-Cilia-density-and-flow-velocity-affect-alignment-of-motile-cilia-from-brain-cells All the raw videos and code are in the archive.
DOI: 10.5281/zenodo.4039612
title: MFA Puebla_Mexico 2004-2017

description: The Excel file contains the accounting and extensive indicators of the material flow analysis for the Mexican state of Puebla, from 2004 to 2017.
DOI: 10.5281/zenodo.4039611
title: MFA Puebla_Mexico 2004-2017

description: The Excel file contains the accounting and extensive indicators of the material flow analysis for the Mexican state of Puebla, from 2004 to 2017.
DOI: 10.25919/5f689ea479d9d
title: Parkes observations for project P1054 semester 2020APRS_05

description: With this proposal we ask time to begin a follow-up campaign of potential new discoveries from the TRAPUM (TRAnsients and PUlsars with Meerkat) survey, which is due to start in January 2020. About 10 new pulsars are expected to be found during the first semester of operations, in targeted pointings towards supernova remnants, pulsar wind nebulae and Fermi unidentified point sources. Timing observations have an essential role in exploiting the full potential of any pulsar discovery, allowing the precise measurement of rotational, astrometric and orbital parameters which, in turn, give us powerful tools to improve our understanding of the physics in extreme environments as well as of the population of neutron stars as a whole. The UWL receiver of the Parkes telescope is a sensitive, versatile instrument that will allow us to successfully time the bright-end of TRAPUM discoveries. We here request (up to) 2-hr long monthly observations of any new TRAPUM pulsar with a flux density at 1.4 GHz above $\sim 60 \mu$Jy.
DOI: 10.5281/zenodo.4030318
title: Size, Mass and Density of Asteroids (SiMDA)

description: This data set contains 'best' values for the bulk density, the size (volume-equivalent diameter) and the mass of 428 small bodies (mainly asteroids) of our Solar System.
DOI: 10.5281/zenodo.4038115
title: Local adaptation to light in Norway spruce

description: Exome capture data of the 1654 trees involved in the study of local adaptation to light quality in Norway spruce: 1. control_genes.vcf - Raw vcf file of the ten control genes that were not differentially expressed genes in response to SHADE (low R:FR light), between the southern and northern natural populations of Norway spruce in Sweden. 2. degs.vcf - Raw vcf file of the 54 differentially expressed genes in response to SHADE (low R:FR light), between the southern and northern natural populations of Norway spruce in Sweden, that showed at least one missense SNP in coding region. Missense variations in coding regions of nine candidate genes followed a latitudinal cline in allele and genotype frequencies.
DOI: 10.5281/zenodo.4038114
title: Local adaptation to light in Norway spruce

description: Exome capture data of the 1654 trees involved in the study of local adaptation to light quality in Norway spruce: 1. control_genes.vcf - Raw vcf file of the ten control genes that were not differentially expressed genes in response to SHADE (low R:FR light), between the southern and northern natural populations of Norway spruce in Sweden. 2. degs.vcf - Raw vcf file of the 54 differentially expressed genes in response to SHADE (low R:FR light), between the southern and northern natural populations of Norway spruce in Sweden, that showed at least one missense SNP in coding region. Missense variations in coding regions of nine candidate genes followed a latitudinal cline in allele and genotype frequencies.
DOI: 10.5281/zenodo.4039889
title: Replication package for: The Aggregate Implications of Mergers and Acquisitions

description: The package contains the codes to replicate the figures and tables in David (forthcoming). "The Aggregate Implications of Mergers and Acquisitions." Review of Economic Studies. Detailed instructions are also given about accessing the raw data.
DOI: 10.5281/zenodo.4039887
title: DSCI560_hw2_zhou

description: The first version of assignment 2 for DSCI560 at USC
DOI: 10.5281/zenodo.4039886
title: DSCI560_hw2_zhou

description: The first version of assignment 2 for DSCI560 at USC
DOI: 10.5281/zenodo.4039892
title: Dataset for genes linked to gastroschisis along with bioinformatics analysis

description: The dataset consists of records from genes linked to gastroschisis. Genes displaying statistical significance with gastroschisis (excluding those genes undergoing adjusted calculations with covariates) were selected and manually curated for further bioinformatics analysis. Figure 1 illustrates the systematic review of the literature search strategy and selection criteria, publishing crude (unadjusted) genes linked to gastroschisis from January 1, 1990 to August 2, 2020. The full list of tables is described in the file READ ME and remains available in CSV files.
description: {"references": ["Carbon S et al. AmiGO: online access to ontology and annotation data. Bioinformatics 2009;25:288\u2013289.", "Chen J et al. ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic Acids Res 2009;37:W305\u2013W311.", "Feldkamp ML et al. Shared genomic segments in high-risk multigenerational pedigrees with gastroschisis. Birth Defects Res 2019, doi: 10.1002/bdr2.1567", "Mi H et al. PANTHER version 14: more genomes, a new PANTHER GO-slim and improvements in enrichment analysis tools. Nucleic Acids Res 2019;47: D419\u2013D426.", "Salinas-Torres VM et al. Genetic variants conferring susceptibility to gastroschisis: a phenomenon restricted to the interaction with the environment? Pediatr Surg Int 2018;34:505\u2013514.", "Salinas-Torres VM et al. A clinical-pathogenetic approach on associated anomalies and chromosomal defects supports novel candidate critical regions and genes for gastroschisis. Pediatr Surg Int 2018;34:931\u2013943.", "Salinas-Torres VM et al. Bioinformatic analysis of gene variants from gastroschisis recurrence identifies multiple novel pathogenetic pathways: implication for the closure of the ventral body wall. Int J Mol Sci 2019;20:2295.", "Salinas-Torres VM et al. Database for gene variants and metabolic networks implicated in familial gastroschisis. Data 2019;4:97.", "Stelzer G et al. The GeneCards suite: from gene data mining to disease genome sequence analyses. Curr Protoc Bioinformatics 2016;54:1.30.1\u20131.30.33.", "Szklarczyk D et al. STRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets. Nucleic Acids Res 2019;47:D607\u2013D613."]}
DOI: 10.5281/zenodo.3374930
title: Dataset for genes linked to gastroschisis along with bioinformatics analysis

description: The dataset consists of records from genes linked to gastroschisis. Genes displaying statistical significance with gastroschisis (excluding those genes undergoing adjusted calculations with covariates) were selected and manually curated for further bioinformatics analysis. Figure 1 illustrates the systematic review of the literature search strategy and selection criteria, publishing crude (unadjusted) genes linked to gastroschisis from January 1, 1990 to August 2, 2020. The full list of tables is described in the file READ ME and remains available in CSV files.
description: {"references": ["Carbon S et al. AmiGO: online access to ontology and annotation data. Bioinformatics 2009;25:288\u2013289.", "Chen J et al. ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic Acids Res 2009;37:W305\u2013W311.", "Feldkamp ML et al. Shared genomic segments in high-risk multigenerational pedigrees with gastroschisis. Birth Defects Res 2019, doi: 10.1002/bdr2.1567", "Mi H et al. PANTHER version 14: more genomes, a new PANTHER GO-slim and improvements in enrichment analysis tools. Nucleic Acids Res 2019;47: D419\u2013D426.", "Salinas-Torres VM et al. Genetic variants conferring susceptibility to gastroschisis: a phenomenon restricted to the interaction with the environment? Pediatr Surg Int 2018;34:505\u2013514.", "Salinas-Torres VM et al. A clinical-pathogenetic approach on associated anomalies and chromosomal defects supports novel candidate critical regions and genes for gastroschisis. Pediatr Surg Int 2018;34:931\u2013943.", "Salinas-Torres VM et al. Bioinformatic analysis of gene variants from gastroschisis recurrence identifies multiple novel pathogenetic pathways: implication for the closure of the ventral body wall. Int J Mol Sci 2019;20:2295.", "Salinas-Torres VM et al. Database for gene variants and metabolic networks implicated in familial gastroschisis. Data 2019;4:97.", "Stelzer G et al. The GeneCards suite: from gene data mining to disease genome sequence analyses. Curr Protoc Bioinformatics 2016;54:1.30.1\u20131.30.33.", "Szklarczyk D et al. STRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets. Nucleic Acids Res 2019;47:D607\u2013D613."]}
DOI: 10.5281/zenodo.4039933
title: Budget Depreciation: When Budgeting Early Increases Spending

description: This dataset contains data, syntax, and output files for all studies in the paper.
DOI: 10.5281/zenodo.4039932
title: Budget Depreciation: When Budgeting Early Increases Spending

description: This dataset contains data, syntax, and output files for all studies in the paper.
DOI: 10.5281/zenodo.4037541
title: A digital mapping application for quantifying and displaying air temperatures at high spatiotemporal resolutions in near real-time across Australia

description: This repository hosts the raw data and source code for the paper entitled " A digital mapping application for quantifying and displaying air temperatures at high spatiotemporal resolutions in near real-time across Australia" [DOI: 10.7717/peerj.10106]. Two zip archives are available: Raw data and methods evaluation.zip - Retains empirical data and method evaluation code (R scripts) that relate to data presented in the results and discussion sections of the article, specifically, Figures 3 -11 and Tables 1 and 2. RTmap_source_code_and_data_structure.zip - This repository hosts the source code for http://austemperature.live/, as described in the methods section of the article. A README.docx presents the contents and subsequent procedures for deploying the mapping code and web map application. For further information about this files please email: mweb7041@uni.sydney.edu.au
DOI: 10.5281/zenodo.4037540
title: A digital mapping application for quantifying and displaying air temperatures at high spatiotemporal resolutions in near real-time across Australia

description: This repository hosts the raw data and source code for the paper entitled " A digital mapping application for quantifying and displaying air temperatures at high spatiotemporal resolutions in near real-time across Australia" [DOI: 10.7717/peerj.10106]. Two zip archives are available: Raw data and methods evaluation.zip - Retains empirical data and method evaluation code (R scripts) that relate to data presented in the results and discussion sections of the article, specifically, Figures 3 -11 and Tables 1 and 2. RTmap_source_code_and_data_structure.zip - This repository hosts the source code for http://austemperature.live/, as described in the methods section of the article. A README.docx presents the contents and subsequent procedures for deploying the mapping code and web map application. For further information about this files please email: mweb7041@uni.sydney.edu.au
DOI: 10.5281/zenodo.4039620
title: Retrofitting coal-fired power plants with biomass co-firing and CCS for net zero carbon emission: A plant-by-plant assessment based on GIS-LCA framework

description: Dataset for "Retrofitting coal-fired power plants with biomass co-firing and CCS for net zero carbon emission: A plant-by-plant assessment based on GIS-LCA framework"
DOI: 10.5281/zenodo.4039619
title: Retrofitting coal-fired power plants with biomass co-firing and CCS for net zero carbon emission: A plant-by-plant assessment based on GIS-LCA framework

description: Dataset for "Retrofitting coal-fired power plants with biomass co-firing and CCS for net zero carbon emission: A plant-by-plant assessment based on GIS-LCA framework"
DOI: 10.5281/zenodo.4026928
title: Dataset and code for supporting Smith et al. 2020. Restricted constrictors: Space use and habitat selection of native Burmese pythons in Northeast Thailand

description: Datasets, shapefiles and code used for publication of Restricted constrictors: Space use and habitat selection of native Burmese pythons in Northeast Thailand
DOI: 10.5281/zenodo.4026927
title: Dataset and code for supporting Smith et al. 2020. Restricted constrictors: Space use and habitat selection of native Burmese pythons in Northeast Thailand

description: Datasets, shapefiles and code used for publication of Restricted constrictors: Space use and habitat selection of native Burmese pythons in Northeast Thailand
DOI: 10.21227/574g-kw83
title: Cyber Influence Campaign Ontology dataset

description: The ASU/UNSW-CICMOD01 was developed to support the novel Cyber Influence Campaign (CIC) model and ontology. It contains full captures of specific tags (hashtags) regardling individual cyber influence campaings scrapped from Twitter and Instagram.
DOI: 10.5281/zenodo.3772148
title: Dataset for Angular Dependence and Spatial Distribution of Jupiter's Centimeter-Wave Thermal Emission from Juno's Microwave Radiometer

description: This dataset comprises all processed data (in HDF5 format) used in figures and discussion in the paper "Angular Dependence and Spatial Distribution of Jupiter's Centimeter-Wave Thermal Emission from Juno's Microwave Radiometer".
DOI: 10.5281/zenodo.3754090
title: Analysis of laboratory reporting practices using a quality assessment of a 'virtual patient'. (data)

description: Dataset for paper Analysis of laboratory reporting practices using a quality assessment of a ‘virtual patient', published in Genetics in Medicine. This dataset consists of the FASTQ, BAM, and VCF for the virtual patients as described in the paper.<br>
DOI: 10.5281/zenodo.3754089
title: Analysis of laboratory reporting practices using a quality assessment of a 'virtual patient'. (data)

description: Dataset for paper Analysis of laboratory reporting practices using a quality assessment of a ‘virtual patient', published in Genetics in Medicine. This dataset consists of the FASTQ, BAM, and VCF for the virtual patients as described in the paper.<br>
DOI: 10.5281/zenodo.4040399
title: Calcium stable isotopes of Tonga and Mariana arc lavas and implications for slab fluid-mediated carbonate transfer in subduction zones

description: The Table 1 shows Ca isotopes and selected major and trace element compositions of the Tonga rear arc and Mariana arc lavas. Supporting imformation includ Figure S1 and Table S1 Figure S1 shows the δ<sup>44/42</sup>Ca‰ versus δ<sup>43/42</sup>Ca‰ in all samples and reference materials measured by Nu Plasma 1700 MC-ICP-MS in GPMR. Table S1 lists the major and trace element contents of NW Rota-1 and Esmeralda Bank samples from Mariana arc. Major elements are tested on board and trace elements are measured by ICP-MS in GPMR.
DOI: 10.5281/zenodo.1230170
title: MD simulation of POPC lipids bilayer at 310K (Berger, Gromacs 3.1.4)

description: Simulation data and files for POPC Berger simulation at 310K used in publication J. Phys. Chem. B 2007, 111, 3139-3150.
DOI: 10.5281/zenodo.3835061
title: Calcium stable isotopes of Tonga and Mariana arc lavas and implications for slab fluid-mediated carbonate transfer in subduction zones

description: The Table 1 shows Ca isotopes and selected major and trace element compositions of the Tonga rear arc and Mariana arc lavas. Supporting imformation includ Figure S1 and Table S1 Figure S1 shows the δ<sup>44/42</sup>Ca‰ versus δ<sup>43/42</sup>Ca‰ in all samples and reference materials measured by Nu Plasma 1700 MC-ICP-MS in GPMR. Table S1 lists the major and trace element contents of NW Rota-1 and Esmeralda Bank samples from Mariana arc. Major elements are tested on board and trace elements are measured by ICP-MS in GPMR.
DOI: 10.5281/zenodo.1230169
title: MD simulation of POPC lipids bilayer at 310K (Berger, Gromacs 3.1.4)

description: Simulation data and files for POPC Berger simulation at 310K used in publication J. Phys. Chem. B 2007, 111, 3139-3150.
DOI: 10.6084/m9.figshare.12982085
title: Blaming Automated Vehicles (Study 1)

description: Study on tha blame judgments and causal attributions palced on human and machine drivers when making mistakes in simple, novel and complex situations.
DOI: 10.5281/zenodo.4040423
title: POPC CHARMM36 T313K

description: POPC CHARMM36 T313K. The simulations are ran for simulations with cationic surfactants for NMRlipids IV project at 313 K using Gromacs 5. itp files called in top files can be found from the root of repository https://doi.org/10.5281/zenodo.1288296.
DOI: 10.5281/zenodo.4040422
title: POPC CHARMM36 T313K

description: POPC CHARMM36 T313K. The simulations are ran for simulations with cationic surfactants for NMRlipids IV project at 313 K using Gromacs 5. itp files called in top files can be found from the root of repository https://doi.org/10.5281/zenodo.1288296.
DOI: 10.5281/zenodo.4019994
title: Base de Datos Documentos Publicados sobre COVID-19 en Argentina (07/09/2020)

description: Base de Datos Documentos Publicados sobre COVID-19 en Argentina (07/09/2020)
DOI: 10.5281/zenodo.3981033
title: GREEN-DB: Genomic Regulatory Elements ENcyclopedia

description: GREEN-DB is a standardized collection of 2.4 million regulatory elements in the human genome. Information on controlled gene(s), tissue(s) and associated phenotype(s) are provided for each element when possible. We also calculated a variation constraint metric (range 0-1) for these regulatory regions and showed that genes controlled by constrained regions are enriched for disease-associated genes and essential genes from mouse knock-out screenings. The database also includes information from ENCODE TFBS and DNase peaks; ultra-conserved non-coding elements (UCNE), and super-enhancers (dbSuper). This release includes 2 files: RegulatoryRegions.db.gz: The full database is available in SQLite format GREEN-DB_v2_bedfiles.tar.gz: Contains 2 BED files describing the regulatory regions and assciated information useful for variant annotations (controlled genes, closest gene, constraint metric). To annotate a VCF file with information from GREEN-DB you can use our tools GREEN-VARAN (https://github.com/edg1983/GREEN-VARAN). For more information on the GREEN-DB please refer to our publication (https://doi.org/10.1101/2020.09.17.301960) and to online documentation (https://green-varan.readthedocs.io/en/latest/) GREEN-DB is free to use for academic users, please refer to the attached LICENSE file.
DOI: 10.5281/zenodo.4040492
title: Base de Datos Documentos Publicados sobre COVID-19 en Argentina (07/09/2020)

description: Base de Datos Documentos Publicados sobre COVID-19 en Argentina (07/09/2020)
DOI: 10.5281/zenodo.4019993
title: Base de Datos Documentos Publicados sobre COVID-19 en Argentina (07/09/2020)

description: Base de Datos Documentos Publicados sobre COVID-19 en Argentina (07/09/2020)
DOI: 10.5281/zenodo.4040496
title: Characterization of descriptors in machine learning for data-based sputtering yield prediction

description: table I
DOI: 10.5281/zenodo.4040501
title: Characterization of descriptors in machine learning for data-based sputtering yield prediction

description: table I
DOI: 10.5281/zenodo.3702043
title: Characterization of descriptors in machine learning for data-based sputtering yield prediction

description: descriptor and target variables
DOI: 10.5281/zenodo.3702042
title: Characterization of descriptors in machine learning for data-based sputtering yield prediction

description: descriptor and target variables