cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11955069.v1
title: O-DAM-CPZ-W03-CO-ASSEMBLY

description: This data pack is suitable for anvi'o v6.1 or later. This particular dataset contains one set of co-assemblies of comparable samples that were used in Miyoshi and Miyoshi et al. (2020) study to subsequently generate a final set of non-redundant MAGs.
DOI: 10.6084/m9.figshare.11955072.v1
title: O-PUP-CON-W03-CO-ASSEMBLY

description: This data pack is suitable for anvi'o v6.1 or later. This particular dataset contains one set of co-assemblies of comparable samples that were used in Miyoshi and Miyoshi et al. (2020) study to subsequently generate a final set of non-redundant MAGs.
DOI: 10.6084/m9.figshare.11955060
title: Final non-redundant 216 MAGs

description: This data pack is suitable for anvi'o v6.1 or later. It includes final set of metagenome-assembled genomes used in Miyoshi and Miyoshi et al. (2020) study.<br>The co-assemblies from which these final set of genomes are also available in the same collection of data.<br>See the following FigShare project for all data items for this project:<br>https://figshare.com/projects/Data_for_Jun_Miyoshi_and_Sawako_Miyoshi_et_al_2020_/76938<br>
DOI: 10.6084/m9.figshare.11955024
title: Supplements_Table_S1_Potential of gut microbiome for detection of autism spectrum disorde.docx

description: The final parameters of machine learning model
DOI: 10.6084/m9.figshare.11954970
title: MYC-Luciferase Reporter Assay and q-PCR for MYC at the same timing with Luc-assay

description: A luciferase reporter harboring -3.1 kb of the MYC promoter region was integrated into a pGL4 vector (Promega). A pT3.5-CAG-M1AP was generated with pENTR221-M1AP and pT3.5-CAG-DEST (Kurata M et al., PLoS One, 2018, PMID:30222773) using Gateway® LR clonase. The luciferase reporter vectors, the pT3.5-CAG-M1AP vector, and the pRL Renilla luciferase reporter vector were co-transfected in the HEK 293T cells. The samples were harvested 48 and 72 hours after the transfection. Each assay was biologically triplicated and repeated. Luciferase activities were measured using the dual-luciferase reporter assay system (Promega) and Lumat LB9507 (Perkin Elmer). RNA was harvested at the same time points and the expression of MYC mRNA was analyzed by qPCR. RNA was isolated using an RNeasyR Mini Kit (Qiagen) according to the manufacturer’s instructions. Complementary DNA (cDNA) was generated from RNA with ReverTra AceR qPCR RT Master Mix (Toyobo). Beta-ACTIN was used as an endogenous control. Using the ABI Prism 7900HT (Applied Biosystems), quantitative PCR (qPCR) analysis was performed to quantify the RNA level using SYBR Mix. The sequences for the PCR primers used in gene expression were as follows: MYC: 5′-CGACTCTGAGGAGGAACAAGAA-3′ (forward) and 5′-CAGCAGAAGGTGATCCAGACT-3′ (reverse), β-ACTIN: 5′-CACAGAGCCTCGCCTTTGCC-3′ (forward) and 5′-CACAGAGCCTCGCCTTTGCC-3′ (reverse). The mRNA level of the targeted gene was analyzed by comparison with the standard calibration curve.
DOI: 10.6084/m9.figshare.11954913
title: nearest neighbor file

description: These files store the nearest neighbor indices used in "A Bayesian retrosynthesis algorithm".
DOI: 10.6084/m9.figshare.11954970.v1
title: MYC-Luciferase Reporter Assay and q-PCR for MYC at the same timing with Luc-assay

description: A luciferase reporter harboring -3.1 kb of the MYC promoter region was integrated into a pGL4 vector (Promega). A pT3.5-CAG-M1AP was generated with pENTR221-M1AP and pT3.5-CAG-DEST (Kurata M et al., PLoS One, 2018, PMID:30222773) using Gateway® LR clonase. The luciferase reporter vectors, the pT3.5-CAG-M1AP vector, and the pRL Renilla luciferase reporter vector were co-transfected in the HEK 293T cells. The samples were harvested 48 and 72 hours after the transfection. Each assay was biologically triplicated and repeated. Luciferase activities were measured using the dual-luciferase reporter assay system (Promega) and Lumat LB9507 (Perkin Elmer). RNA was harvested at the same time points and the expression of MYC mRNA was analyzed by qPCR. RNA was isolated using an RNeasyR Mini Kit (Qiagen) according to the manufacturer’s instructions. Complementary DNA (cDNA) was generated from RNA with ReverTra AceR qPCR RT Master Mix (Toyobo). Beta-ACTIN was used as an endogenous control. Using the ABI Prism 7900HT (Applied Biosystems), quantitative PCR (qPCR) analysis was performed to quantify the RNA level using SYBR Mix. The sequences for the PCR primers used in gene expression were as follows: MYC: 5′-CGACTCTGAGGAGGAACAAGAA-3′ (forward) and 5′-CAGCAGAAGGTGATCCAGACT-3′ (reverse), β-ACTIN: 5′-CACAGAGCCTCGCCTTTGCC-3′ (forward) and 5′-CACAGAGCCTCGCCTTTGCC-3′ (reverse). The mRNA level of the targeted gene was analyzed by comparison with the standard calibration curve.
DOI: 10.6084/m9.figshare.11954913.v1
title: nearest neighbor file

description: These files store the nearest neighbor indices used in "A Bayesian retrosynthesis algorithm".
DOI: 10.6084/m9.figshare.11954892
title: fine-tuned prediction model

description: This is the fine-tuned Molecular Transformer used in "A Bayesian retro synthesis algorithm".
DOI: 10.25810/zb7c-gf43.7
title: Oceania Newspaper Coverage of Climate Change or Global Warming, 2000-2020 - July 2020

description:         The Media and Climate Change Observatory Data monitors 117 sources (across newspapers, radio and TV) in 53 countries in seven different regions around the world. Data is assembled by accessing archives through the Lexis Nexis, Proquest and Factiva databases via the University of Colorado libraries. More information may be found at: http://mecco.colorado.edu.
DOI: 10.6084/m9.figshare.11954796
title: Dataset

description: Dataset containing the independent and depended variables of the main findings (left globus pallidus volume on task-switching)
DOI: 10.21253/dmu.11954787
title: Survey questions for paper on Estimating the value of computer files using willingess to pay and willingess to accept

description: The survey questions used for paper on Estimating the value of computer files using willingess to pay and willingess to accept.
DOI: 10.6084/m9.figshare.11954784
title: Implementation and Application of Innovative Design Software for Kinematic Scheme of Series Mechanical System Based on TRIZ

description: 基于串联机械系统运动学方案创新设计软件的实现与应用。 <br>
DOI: 10.21253/dmu.11954787.v1
title: Survey questions for paper on Estimating the value of computer files using willingess to pay and willingess to accept

description: The survey questions used for paper on Estimating the value of computer files using willingess to pay and willingess to accept.
DOI: 10.21253/dmu.11954772
title: Survey data for paper on Estimating the value of computer files using willingess to pay and willingess to accept

description: Survey data for paper on Estimating the value of computer files using willingess to pay and willingess to accept. Excel file with 2002 entries. Details on the survey questions available in the paper.
DOI: 10.6084/m9.figshare.11954784.v2
title: Implementation and Application of Innovative Design Software for Kinematic Scheme of Series Mechanical System Based on TRIZ

description: 基于串联机械系统运动学方案创新设计软件的实现与应用。 <br>
DOI: 10.21253/dmu.11954772.v1
title: Survey data for paper on Estimating the value of computer files using willingess to pay and willingess to accept

description: Survey data for paper on Estimating the value of computer files using willingess to pay and willingess to accept. Excel file with 2002 entries. Details on the survey questions available in the paper.
DOI: 10.6084/m9.figshare.11954784.v1
title: Implementation and Application of Innovative Design Software for Kinematic Scheme of Series Mechanical System Based on TRIZ

description: 基于串联机械系统运动学方案创新设计软件的实现与应用。 <br>
DOI: 10.6084/m9.figshare.11954742
title: Benchmark AFLOW Data Sets for Machine Learning

description: Materials informatics is increasingly finding ways to exploit machine learning algorithms. Techniques such as decision trees, ensemble methods, support vector machines, and a variety of neural network architectures are used to predict likely material characteristics and property values. Supplemented with laboratory synthesis, applications of machine learning to compound discovery and characterization represent one of the most promising research directions in materials informatics. A shortcoming of this trend, in its current form, is a lack of standardized materials data sets on which to train, validate, and test model effectiveness. Applied machine learning research depends on benchmark data to make sense of its results. Fixed, predetermined data sets allow for rigorous model assessment and comparison. Machine learning publications that don't refer to benchmarks are often hard to contextualize and reproduce. In this data descriptor article, we present a collection of data sets of different material properties taken from the AFLOW database. We describe them, the procedures that generated them, and their use as potential benchmarks. We provide a compressed ZIP file containing the data sets, and a GitHub repository of associated Python code. Finally, we discuss opportunities for future work incorporating the data sets and creating similar benchmark collections.
DOI: 10.6084/m9.figshare.11954733
title: 2013year-2015year snow data.xls

description: Snowfall, snow accumulation, and stand structure in a primitive Korean pine forest of the Xiaoxing'an Mountains, China, were assessed for 2 consecutive years.
DOI: 10.6084/m9.figshare.11954667
title: Data and analysis script for "Effective dimensionality: A tutorial"

description: Data and R script for the illustrative analyses reported in: <br><br>Del Giudice, M. (2020). Effective dimensionality: A tutorial. Multivariate Behavioral Research. <br>
DOI: 10.6084/m9.figshare.11954733.v2
title: 2013year-2015year snow data.xls

description: Snowfall, snow accumulation, and stand structure in a primitive Korean pine forest of the Xiaoxing'an Mountains, China, were assessed for 2 consecutive years.
DOI: 10.6084/m9.figshare.11954664
title: Fig_data.zip

description: Fig data for paper submitted to JGR-ocean.
DOI: 10.6084/m9.figshare.11954733.v1
title: 2013year-2014year snow data.xls

description: Snowfall, snow accumulation, and stand structure in a primitive Korean pine forest of the Xiaoxing'an Mountains, China, were assessed for 2 consecutive years.
DOI: 10.6084/m9.figshare.11954664.v1
title: Fig_data.zip

description: Fig data for paper submitted to JGR-ocean.
DOI: 10.6084/m9.figshare.11954532
title: Additional file 2 of Cross-cultural adaptation and validation of the Romanian knee disability and osteoarthritis outcome score for joint replacement (KOOSJR)

description: Additional file 2. Raw data sets.
DOI: 10.6084/m9.figshare.11954532.v1
title: Additional file 2 of Cross-cultural adaptation and validation of the Romanian knee disability and osteoarthritis outcome score for joint replacement (KOOSJR)

description: Additional file 2. Raw data sets.
DOI: 10.6084/m9.figshare.11954511
title: Different responses of tropical cyclone tracks over the western North Pacific and North Atlantic to two distinct SST warming patterns

description: How future tropical cyclone (TC) activity could change under global warming (GW) is enormously important to society, which has been widely assessed using state-of-the-art climate models. However, these models were predominantly based on projection of an El Niño-like warming pattern. Recent studies suggested that a La Niña-like warming pattern is also possible. Here, we compare the responses of TC track density (TCTD) over the western North Pacific (WNP) and North Atlantic (NA) to the two distinct GW patterns. We find that the La Niña-like warming pattern reduces WNP TCTD except in the South China Sea and along China coast and increases NA TCTD, while the El Niño-like warming pattern generally reduces TCTD in both basins. This is due to different responses of large-scale dynamic/thermodynamic conditions to the distinct zonal sea surface temperature gradients associated with the two warming patterns. These results help better understand potential future change in TC tracks.
DOI: 10.6084/m9.figshare.11954514
title: Plos data submitted for research article "Spatial Complexity Facilitates Ordinal Mapping with a Novel Symbol Set"

description: Plos data submitted for research article "Spatial Complexity Facilitates Ordinal Mapping with a Novel Symbol Set" (Experiments 1 and 2 .mat files)
DOI: 10.6084/m9.figshare.11954481
title: DATASET for single_phase flow

description: <i>Figure 1</i>: Theoretical critical radius <i>R<sub>c</sub></i> versus<i> </i>(<i>z</i> - <i>z<sub>c</sub></i>) for different values of σ/&lt;<i>r</i>&gt; as indicated in the inset. <i></i><i>Figure 2</i> Ensemble average of the critical flow rate <i>Q<sub>c</sub></i> versus<i> </i>(<i>z</i> - <i>z<sub>c</sub></i>) for different values of σ/&lt;<i>r</i>&gt; as indicated in the inset. The error bars represent the uncertainty of the ensemble averages. <i>Figure 3</i> Ensemble average of the size of {<i>Q<sub>c</sub></i>} versus<i> </i>(<i>z</i> - <i>z<sub>c</sub></i>) for different values of σ/&lt;<i>r</i>&gt; as indicated in the inset. <br><i>Figure 4</i> Ensemble average of the number of connected pipes in {<i>Q<sub>c</sub></i>}, <i>S<sub>Qc</sub></i><sup>°</sup>, versus<i> </i>(<i>z</i> - <i>z<sub>c</sub></i>) for different values of σ/&lt;<i>r</i>&gt; as indicated in the inset. <br><i>Figure </i>5 Ensemble average of the partition index <i>I<sub>Pr</sub></i> versus<i> </i>(<i>z</i> - <i>z<sub>c</sub></i>) for different values of σ/&lt;<i>r</i>&gt; as indicated in the inset<br><i>Figure 6</i> Ensemble averaged values of a) <i>S<sub>QR</sub></i> and b) <i>S<sub>QR</sub></i><sup>°</sup>. <br><br>
DOI: 10.6084/m9.figshare.11954460
title: Botulinum Neurotoxin A: Light Chain and Nitrophenyl Psoralen (NPP) molecule

description: Complete PDB structure of the light chain of Botulinum Neurotoxin A molecule paired with a Nitrophenyl Psoralen (NPP) molecule. Structure was reconstructed from PDB entry 3BTA by using molecular dynamics simulations accelerated on GPUs.
DOI: 10.6084/m9.figshare.11954460.v1
title: Botulinum Neurotoxin A: Light Chain and Psoralen molecule

description: Complete PDB structure of the light chain of Botulinum Neurotoxin A molecule paired with Psoralean molecule. Structure was reconstructed from PDB entry 3BTA by using molecular dynamics simulations accelerated on GPUs.
DOI: 10.26180/5e64354c9c7c1
title: Titanite geochronology and thermochronology

description: Titanite geochronology and thermochronology
DOI: 10.6084/m9.figshare.11954352
title: E-cigarettes and associated predictors for smoking cessation

description: Results from anonymous questionnaire of 175 participants on their e-cigarette use and smoking behaviour.Participants were older than 18 and attended three universities in the UK.None of the participants were on nicotine replacement therapy.<br><br><br>CPD=cigarettes smoked per day
DOI: 10.6084/m9.figshare.11954352.v1
title: E-cigarettes and associated predictors for smoking cessation

description: Results from anonymous questionnaire of 175 participants on their e-cigarette use and smoking behaviour.Participants were older than 18 and attended three universities in the UK.None of the participants were on nicotine replacement therapy.<br><br><br>CPD=cigarettes smoked per day
DOI: 10.6084/m9.figshare.11954220
title: Additional file 12 of Novel heavy metal resistance gene clusters are present in the genome of Cupriavidus neocaledonicus STM 6070, a new species of Mimosa pudica microsymbiont isolated from heavy-metal-rich mining site soil

description: Additional file 12: Figure S7. A comparison of proximal and distal sites in Cupriavidus neocaledonicus STM 6070 RND-HME proteins compared to related proteins in other bacterial strains.
DOI: 10.6084/m9.figshare.11954214
title: Additional file 3 of Comprehensive analysis of the cardiac proteome in a rat model of myocardial ischemia-reperfusion using a TMT-based quantitative proteomic strategy

description: Additional file 3. PANTHER analysis results of the differentially expressed proteins in IR injury.
DOI: 10.6084/m9.figshare.11954217
title: Additional file 11 of Novel heavy metal resistance gene clusters are present in the genome of Cupriavidus neocaledonicus STM 6070, a new species of Mimosa pudica microsymbiont isolated from heavy-metal-rich mining site soil

description: Additional file 11: Table S6. HME determinants in STM 6070 genome and their comparison with those detected in Cupriavidus species.
DOI: 10.6084/m9.figshare.11954217.v1
title: Additional file 11 of Novel heavy metal resistance gene clusters are present in the genome of Cupriavidus neocaledonicus STM 6070, a new species of Mimosa pudica microsymbiont isolated from heavy-metal-rich mining site soil

description: Additional file 11: Table S6. HME determinants in STM 6070 genome and their comparison with those detected in Cupriavidus species.
DOI: 10.6084/m9.figshare.11954220.v1
title: Additional file 12 of Novel heavy metal resistance gene clusters are present in the genome of Cupriavidus neocaledonicus STM 6070, a new species of Mimosa pudica microsymbiont isolated from heavy-metal-rich mining site soil

description: Additional file 12: Figure S7. A comparison of proximal and distal sites in Cupriavidus neocaledonicus STM 6070 RND-HME proteins compared to related proteins in other bacterial strains.
DOI: 10.6084/m9.figshare.11954214.v1
title: Additional file 3 of Comprehensive analysis of the cardiac proteome in a rat model of myocardial ischemia-reperfusion using a TMT-based quantitative proteomic strategy

description: Additional file 3. PANTHER analysis results of the differentially expressed proteins in IR injury.
DOI: 10.6084/m9.figshare.11954208
title: Additional file 2 of Comprehensive analysis of the cardiac proteome in a rat model of myocardial ischemia-reperfusion using a TMT-based quantitative proteomic strategy

description: Additional file 2. List of IR-related proteins indentified based on the high stringency criteria. The fold-change (log2 scale) is calculated by averaging the two ratio values of IR versus sham or TALE versus IR. No. of peptides indicates the number of independent spectra used for the quantification.
DOI: 10.6084/m9.figshare.11954208.v1
title: Additional file 2 of Comprehensive analysis of the cardiac proteome in a rat model of myocardial ischemia-reperfusion using a TMT-based quantitative proteomic strategy

description: Additional file 2. List of IR-related proteins indentified based on the high stringency criteria. The fold-change (log2 scale) is calculated by averaging the two ratio values of IR versus sham or TALE versus IR. No. of peptides indicates the number of independent spectra used for the quantification.
DOI: 10.6084/m9.figshare.11954202
title: Additional file 1 of Comprehensive analysis of the cardiac proteome in a rat model of myocardial ischemia-reperfusion using a TMT-based quantitative proteomic strategy

description: Additional file 1. List of MS data and proteins indentified in two independent sets by TMT-based quantitative proteomics.
DOI: 10.6084/m9.figshare.11954202.v1
title: Additional file 1 of Comprehensive analysis of the cardiac proteome in a rat model of myocardial ischemia-reperfusion using a TMT-based quantitative proteomic strategy

description: Additional file 1. List of MS data and proteins indentified in two independent sets by TMT-based quantitative proteomics.
DOI: 10.6084/m9.figshare.11954139
title: Additional file 1 of Genome-wide analysis of constitutional DNA methylation in familial melanoma

description: Additional file 1: Table S1. Methylation levels (β-value) and cancer genes information of all 6 significant upregulated CpGs in all subjects (n=10). Table S2. Methylation levels (β-value) and cancer genes information of all 35 significant downregulated CpGs in all subjects (n=10).
DOI: 10.6084/m9.figshare.11954139.v1
title: Additional file 1 of Genome-wide analysis of constitutional DNA methylation in familial melanoma

description: Additional file 1: Table S1. Methylation levels (β-value) and cancer genes information of all 6 significant upregulated CpGs in all subjects (n=10). Table S2. Methylation levels (β-value) and cancer genes information of all 35 significant downregulated CpGs in all subjects (n=10).
DOI: 10.6084/m9.figshare.11954121
title: Additional file 5 of Metatranscriptomic analysis to define the Secrebiome, and 16S rRNA profiling of the gut microbiome in obesity and metabolic syndrome of Mexican children

description: Additional file 5: Table S2. Pearson correlations between clinical/anthropometric parameters and significantly abuindant taxa among NW, O, and OMS.
DOI: 10.6084/m9.figshare.11954121.v1
title: Additional file 5 of Metatranscriptomic analysis to define the Secrebiome, and 16S rRNA profiling of the gut microbiome in obesity and metabolic syndrome of Mexican children

description: Additional file 5: Table S2. Pearson correlations between clinical/anthropometric parameters and significantly abuindant taxa among NW, O, and OMS.
DOI: 10.6084/m9.figshare.11953770
title: Dataset for "Luck as a Double Edged Sword"

description: Full dataset.
DOI: 10.6084/m9.figshare.11953770.v1
title: Dataset for "Luck as a Double Edged Sword"

description: Full dataset.
DOI: 10.6084/m9.figshare.11953740
title: Supplementary Summary from Beyond non-backtracking: non-cycling network centrality measures

description: Walks around a graph are studied in a wide range of fields, from graph theory and stochastic analysis to theoretical computer science and physics. In many cases it is of interest to focus on non-backtracking walks; those that do not immediately revisit their previous location. In the network science context, imposing a non-backtracking constraint on traditional walk-based node centrality measures is known to offer tangible benefits. Here, we use the Hashimoto matrix construction to characterize, generalize and study such non-backtracking centrality measures. We then devise a recursive extension that systematically removes triangles, squares and, generally, all cycles up to a given length. By characterizing the spectral radius of appropriate matrix power series, we explore how the universality results on the limiting behaviour of classical walk-based centrality measures extend to these non-cycling cases. We also demonstrate that the new recursive construction gives rise to practical centrality measures that can be applied to large-scale networks.
DOI: 10.6084/m9.figshare.11953746
title: nhmmr result files

description: Result files of nhmmer against six Apis MLEs using Dromar hmm profile.
DOI: 10.6084/m9.figshare.11953752
title: table results of nhmmr

description: table results of hmmr
DOI: 10.6084/m9.figshare.11953752.v1
title: table results of nhmmr

description: table results of hmmr
DOI: 10.6084/m9.figshare.11953764.v1
title: Integrating population information using DNA methylation to explore the spatiotemporal dynamics and developmental mechanisms of populations

description: Serious disconnection among researches on individual physiological adaption, population genetic diversity and spatiotemporal demography has obstructed us in the knowledge of plant population ecology. Here we develop an approach to integrate those three research aspects by taking advantage of recent knowledge about DNA methylation. We show that by using various epigenetic parameters corresponding to individual physiological metabolic reprogramming potential, gene expression repression degree and physiological reaction characteristics, the contribution of various biotic and abiotic factors to an individual state and population structure can be quantified. Furthermore, population dynamics can be narrowly estimated by analysing DNA methylation of populations at different developmental stages. This study demonstrates an approach for the overall analysis of plant populations and exploring the spatiotemporal dynamics and developmental mechanisms of a population using <i>Castanopsis chinensis </i>as the model species.
DOI: 10.6084/m9.figshare.11953734
title: all Dromar hmm file

description: All Dromar hmmer files were merged to a single file to use for nhmmer.