cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.26302237.v3
title: The chronology and cooling history of type 7 chondrites: insights into the early impact events on chondritic parent body

description: Type 7 chondrites, which record a higher degree of heating process than typical type 3 to type 6 chondrites, are characterized with textures and petrography of partial melting. Understanding the timing and cooling history of incipient melting event for type 7 chondrites could provide insights into the complex thermal process of the early solar system. Here, we studied two chondrites NWA 12272 and NWA 11021. Both samples display partial melting characteristics of LL chondrites, including interconnected plagioclase/high-Ca pyroxene network, zoned plagioclase and lack of chondrules, which concurs with their classification of LL7 chondrites in the Meteoritical Bulletin Database. The 53Mn-53Cr isotopic data of NWA 12272, determined by mineral separates and bulk samples, yielded an isochron with a 53Mn/55Mn ratio of (1.40 ± 0.59) ×10-6 and a corresponding absolute age of 4558.8 ± 2.3 Ma (anchored to D’Orbigny angrite). Combined with the cooling rate estimated by the integration of REE-in-two-pyroxene thermometry and two-pyroxene thermometry, Mn-Cr isochron age of 4558.8 ± 2.3 Ma and Ca-phosphate Pb-Pb age of 4517 ± 6 Ma, we suggest that NWA 12272 experienced a two-stage cooling process after the incipient melting: it exposed to a relatively cold environment with a rapid cooling rate of ~30-100 °C/yr at 1150-1000 °C, and soon reburied with a slower cooling rate of ~13 °C/Ma at 1000-475 °C. Although the Mn-Cr isotopic study was not conducted for NWA 11021, the average Ca-phosphate Pb-Pb age of 4509 ± 7 Ma and high-temperature cooling rate (~1-30 °C/yr) of NWA 11021 are indistinguishable from or slightly lower than those of NWA 12272. Assuming NWA 11021 cooled from the same incipient melting event as NWA 12272, it could have recorded a similar two-stage cooling process. We suggest that the studied LL7 chondrites were most likely formed in the early solar system when additional impact heat overlapped on the “heated” type 5-6 chondrites. Integrated with the previous cooling rates of LL6-7 chondrites, the prevailing two-stage cooling rates of LL chondrites provide compelling evidence for the fragmentation-re-accretion process in the early history of LL chondrite parent body. This early impact event also happened in other ordinary chondrite groups and some iron meteorites.
DOI: 10.6084/m9.figshare.7012430.v2
title: Supplementary File S4 from Integrated human-virus metabolic stoichiometric modelling predicts host-based antiviral targets against Chikungunya, Dengue and Zika viruses.

description: A list of model reactions identified from the host-enforcement analysis that are able to reduce one of the three viruses, CHIKV, DENV and ZIKV, to below 80% of the original virus optima in the original model (without additional constraints). Inhibitors are listed for the respective reactions and were identified through the Brenda Enzymatic Database via the Enzyme Commission Number associated with the reaction.
DOI: 10.6084/m9.figshare.7618601.v2
title: Ocean mesoscale structure–induced air–sea interaction in a high-resolution coupled model

description: Using the Community Earth System Model framework, the authors build a very-high-resolution quasi-global coupled model by coupling an eddy-resolving quasi-global ocean model with a high-resolution atmospheric model. The model is successfully run for six years under present climate conditions, and the simulations are evaluated against observational and reanalysis data. The model is capable of simulating large-scale oceanic and atmospheric circulation patterns, sea surface temperature (SST) fronts, oceanic eddy kinetic energy, and fine-scale structures of surface winds. The ocean mesoscale structure–induced air–sea interaction characteristics are explored in detail. The model can effectively reproduce positive correlations between SST and surface wind stress induced by mesoscale structures through comparison with observations. The positive correlation is particularly significant over regions with strong oceanic fronts and eddies. However, the responses of wind stress to eddy-induced SST are weaker in the simulation than in the observations, although different magnitudes exist in different areas. Associated with weak wind responses, surface sensible heat flux responses to eddy-induced SST are underestimated slightly, while surface latent heat flux responses are overestimated because of the drier atmospheric boundary layers in the model. Both momentum mixing and pressure adjustment mechanisms play important roles in surface wind changes over oceanic fronts and eddies in the high-resolution model.
DOI: 10.6084/m9.figshare.915289.v1
title: LIBS: enhancing its performance for chemical analysis and plasma diagnostics

description: A Research project proposal on enhancing LIBS performance.
DOI: 10.17632/hzx7t8htdp
title: THE IMPACT OF ALTERNATIVE NITROGEN SOURCES ON THE GROWTH AND VIABILITY OF LACTOBACILLUS DELBRUECKII SUBSP. BULGARICUS

description: In this study, we developed and optimized a growth medium using various nitrogen sources for the cultivation of Lactobacillus delbrueckii subsp. bulgaricus, a probiotic and essential dairy starter culture. The composition of deMan, Rogosa and Sharpe (MRS) culture medium was modified, and the nitrogen content was replaced by alternative nitrogen sources X-Seed Nucleo Max, X-Seed KAT, and X-Seed Carbo Max in various blends of 5g/L and 10g/L respectively. Results showed that bacterial growth was significantly higher when the nitrogen source blend KCMax (10/10) was used. The optical densities (OD610nm) of the Lb. bulgaricus strains were significantly higher in the KCMax (10/10) medium than in the MRS medium. There was no significance in bacterial counts for both the MRS and the KCMax (10/10) medium, and all bacterial counts were estimated at 8 Log CFU/ml. The buffering capacity of the KCMax (10/10) medium was also tested and supplemented with L-histidine and was significantly higher than that of the MRS control medium. KCMax (10/10) also supported the freeze stability and viability of the bulgaricus cells during freezing and freeze-drying operations. Our results suggest that the alternative nitrogen sources X-Seed Nucleo Max, X-Seed KAT and X-Seed Carbo Max can substantially support the growth of lactic acid bacteria as demonstrated with Lb. bulgaricus. These alternative nitrogen sources could thus be recommended for LAB fermentation and for the cultivation of dairy starter cultures.
DOI: 10.6084/m9.figshare.19470599.v1
title: MPF.2021.2.8

description: This dataset contains the MPF.2021.2.8 data used to train the m3gnet model reported in `https://arxiv.org/abs/2202.02450` <br> I have split the dataset into two pickle files. To load the data, you can use example code as below. <br> ``` import pickle with open('block_0.p', 'rb') as f: data = pickle.load(f) <br> with open('block_1.p', 'rb') as f: data.update(pickle.load(f)) ``` <br> where `data` will be a dictionary with `material_id` as the key and an inner dictionary as the value. <br> The inner dictionary contains the snapshots of this `material_id`, with the following keys. ``` - structure - energy - force - stress - id ``` Each id in the `id` list is of format `material_id-calc_id-ionic_step_id`, where `calc_id` is 0 (second) or 1 (first) in the double relaxation process. The `stress` here is the raw output from VASP, meaning that it is really the negative stress using the convention in our paper. Hence to train the model, please multiply stress with -0.1 (kBa to GPa and change sign) <br> The units for energy, force and stress in the data are eV, eV/A, and kBa. Remember to convert the stress to GPa and take the negative sign to work with m3gnet training.
DOI: 10.6084/m9.figshare.23715222.v1
title: Supplementary Material for: Predicting Alzheimer’s Disease with Interpretable Machine Learning

description: Introduction: This study aimed to develop novel machine learning models for predicting Alzheimer's disease (AD) and identify key factors for targeted prevention. Methods: We included 1219, 863, and 482 participants aged 60+ years with only sociodemographic, both sociodemographic and self-reported health, both the former two and blood biomarkers information from Alzheimer’s Disease Neuroimaging Initiative (ADNI) database. Machine learning models were constructed for predicting the risk of AD for the above three populations. Model performance was evaluated by discrimination, calibration, and clinical usefulness. Shapley additive explanations (SHAP) was applied to identify key predictors of optimal models. Results: The mean age was 73.49, 74.52, and 74.29 years for the three populations, respectively. Models with sociodemographic information and models with both sociodemographic and self-reported health information showed modest performance. For models with sociodemographic and self-reported health, and blood biomarker information, their overall performance improved substantially, specifically, LR performed best, with an AUC value of 0.818. Blood biomarkers of ptau protein and plasma neurofilament light, age, blood tau protein and education level were top five significant predictors. In addition, taurine, inosine, xanthine, marital status, and L.Glutamine also showed importance to AD prediction. Conclusion: Interpretable machine learning showed promise in screening high-risk AD individual, and could further identify key predictors for targeted prevention.
DOI: 10.6084/m9.figshare.24050697.v1
title: Monthly Surface Water Extent in the Yangtze Plain

description: The dataset refers to the monthly surface water extent in the Yangtze Plain with a spatial resolution of 10 m from January 2016 to December 2020 from Sentinel-1 and Sentinel-2 images. The accuracy assessment result demonstrated that MSWE outperformed in accuracy with OA of 94.8% and F1 90.2%. The dataset are constructed with 60 monthes results of estimated surface water extent. Each month has two GeoTIFF tiles and the filename of each tile is in the form (YYYYMM-yMin-xMin) where xMin and yMin are the coordinates of each tile within the overall bounding box of the exported image. This dataset benifits to the related decision-maker and stakeholderes.The dataset was generated based on the Google Earth Engine and are available at figshare.
DOI: 10.6084/m9.figshare.5120506.v1
title: Supplementary Material for: Telomeres, histone code, and DNA damage response

description: Genomic stability is maintained by telomeres, the end terminal structures that protect chromosomes from fusion or degradation. Shortening or loss of telomeric repeats or altered telomere chromatin structure is correlated with telomere dysfunction such as chromosome end-to-end associations that could lead to genomic instability and gene amplification. The structure at the end of telomeres is such that its DNA differs from DNA double strand breaks (DSBs) to avoid nonhomologous end-joining (NHEJ), which is accomplished by forming a unique higher order nucleoprotein structure. Telomeres are attached to the nuclear matrix and have a unique chromatin structure. Whether this special structure is maintained by specific chromatin changes is yet to be thoroughly investigated. Chromatin modifications implicated in transcriptional regulation are thought to be the result of a code on the histone proteins (histone code). This code, involving phosphorylation, acetylation, methylation, ubiquitylation, and sumoylation of histones, is believed to regulate chromatin accessibility either by disrupting chromatin contacts or by recruiting non-histone proteins to chromatin. The histone code in which distinct histone tail-protein interactions promote engagement may be the deciding factor for choosing specific DSB repair pathways. Recent evidence suggests that such mechanisms are involved in DNA damage detection and repair. Altered telomere chromatin structure has been linked to defective DNA damage response (DDR), and eukaryotic cells have evolved DDR mechanisms utilizing proficient DNA repair and cell cycle checkpoints in order to maintain genomic stability. Recent studies suggest that chromatin modifying factors play a critical role in the maintenance of genomic stability. This review will summarize the role of DNA damage repair proteins specifically ataxia-telangiectasia mutated (ATM) and its effectors and the telomere complex in maintaining genome stability.
DOI: 10.17632/29b5dzk6tf
title: Effects of Defects on Laminate Quality and Mechanical Performance in Thermoplastic Automated Fiber Placement-based Process Chains

description: The corresponding paper (open-access gold) investigates the effects of process specific defects on the laminate quality and mechanical performance for the Thermoplastic Automated Fiber Placement (TAFP) process. The coupon panels were made of polyphenylene sulfide with 60 %wt. continous carbon fiber reinforcment. Subsequent to TAFP layup, three different consolidation processes were applied. Furthermore, stacking sequence, defect type and defect size were varied. Tensile testing of the specimens was conducted according to DIN ISO 527. A GOM Aramis digital extensiometer was used for strain recording. Compression testing was conducted in reference to ASTM-6484. The data provided contains the raw data from the testing machine for both compression and tensile testing. For the latter, the export of the ARAMIS strain concantration measurements is provided as well. Within all data sets, the specimens are refered to with the same nomenclature that is used in the paper. Each parameter set is addressed by XX-Y-Z-S, where XX is the consolidation process, Y is the stacking sequence, Z is the type of defect and S is the defects size. Each testing machine data file contains all five specimen tested as seperate tab. The tabe are named with an internal testing number followed by the specimen index. The ARAMIS strain data is only provieded for the specimen that was considered for the plot and image generation. The authors did ensure that the selected specimen is representative for the corresponding group by subjective comparison of the strain measurements and plots.
DOI: 10.6084/m9.figshare.19837936.v1
title: Zhang et al. 2022

description: Wetlands are an important natural source of methane (CH4), so it is important to quantify how their emissions may vary under future climate change conditions. The Qinghai–Tibet Plateau contains more than a third of China’s wetlands. Here, we simulated temporal and spatial variation in CH4 emissions from natural wetlands on the Qinghai–Tibet Plateau from 2008 to 2100 by TRIPLEX-GHG model under Representative Concentration Pathways (RCP) 2.6, 4.5, and 8.5.
DOI: 10.6084/m9.figshare.24112548.v4
title: DATA from: Historical dynamics of marginal populations at the leading edge of a temperate species in the boreal-temperate ecotone

description: Data from: Historical dynamics of marginal populations at the leading edge of a temperate species in the boreal-temperate ecotone.A MSExcel spreadsheet including data used to estimate minimal stand age and tree size structure, as well as the identification and radiocarbon dating of wood remains and charcoal particles from 8 marginal red maple stands at the leading edge of the species' range in eastern Canada.## Description of the Data and file structureSheet 1 - Metadata. Provides details about the study sites (Site name, Sampling date, Longitude [decimal degrees north], Latitude [decimal degrees east], and Altitude [m above sea level]), and a glossary for species codes.Sheet 2 - Stand-size structure. At each site, the diameter at breast height (DBH in cm) of each tree (&gt;2 cm DBH) inside a 400 square metre plot was measured with a tree caliper.Sheet 3 - Tree age. At each site, up to 10 of the largest Acer rubrum and Betula payrifera trees were cut down and disks were collected as close to the root collar as possible. Sampled disks were sanded and tree rings were counted. Trees were assigned to their emergence decade.Sheet 4 - Charcoal diversity. At each site, charcoal fragments extracted from 20 soil samples were identified to the highest taxonomic unit possible (TaxonID). For each TaxonID, data from the 20 sampling microsites were aggregated for each stand.Sheet 5 - Radiocarbon dates. Radiocarbon date of charcoal particles and wood remains extracted from forest soil or forest hollow sediments. For each datem, UCIrvine is the reference number at the Keck Carbon Cycle AMS Facility (University of California Irvine); ULaval is the refernce number at the Laboratoire de radiochronologie (Université Laval, Québec); F14C is the is percent modern carbon ± SD ; D14C is the per mille depletion in sample carbon 14 prior to isotopic fractionation correction ± SD ; 14C age is the non-calibrated radiocarbon carbon dates ± SD intervals.
DOI: 10.6084/m9.figshare.3084403.v1
title: Nanodrop vs Quant-iT concentrations for 644 M. tuberculosis genome extracts

description: This table compares the genomic DNA concentrations measured in-house by Nanodrop versus those measured by the BCGSC using Quant-iT for a set of 644 M. tuberculosis genomes from the BCCDC.
DOI: 10.6084/m9.figshare.8360414.v1
title: RhythmNames.xlsx

description: The newly inaugurated research database for Electrocardiogram (ECG) signals, which was created under the auspices of Chapman University and Shaoxing People's Hospital (Shaoxing Hospital Zhejiang University School of Medicine), aims to conduct the study of cardiovascular biomedical signals via extensive computer simulations. Certain types of cardiovascular conditions, such as atrial fibrillation, have wide and severe impact on public health, quality of life, and medical expenditures. The non-invasive test, the long term ECG monitor is a major and vital diagnosis tool for detecting such conditions. However, such practice generates considerable amount of data, and presents itself as very challenging since analyzing by experts in the field can be dramatic consumption of time and cost. As such, obtaining the correct and most efficient diagnosis algorithm is of great important to public health. Thanks to the development of modern machine learning and statistical analysis, the more data with creditable labels are available, the better algorithm will be achieved. Thus, we propose this dataset contains 10,646 patients 12-lead ECGs with 500 Hz sampling rate and including 11 common rhythms and 67 conditions, which are labeled by professional experts. The dataset can be widely applied for artificial intelligence or machine learning algorithm research, arrhythmia and other cardiovascular conditions analysis, biomedical signal study, and cluster or classification statistical study.
DOI: 10.17632/k9bspgwkrj
title: International Trade and the Risk in Bilateral Exchange Rates

description: This is the companion repository for publication of "International Trade and the Risk in Bilateral Exchange Rates" in the Journal of Financial Economics. 

Exchange rate volatility falls after a trade deal, driven by a decline in the systematic component of risk.  The average trade deal increases trade by 50 percent over five years, reducing systematic risk by a third of a standard deviation across countries.  We examine this connection in an Armington model where the structure of trade networks determines the risk in exchange rates.  We estimate our model to current data and find i) that countries at the periphery of the world trade network benefit the most from lower trade barriers and ii) that a counterfactual experiment of a trade war between the US and China shows a global increase in currency risk, with effects concentrated among peripheral countries.
DOI: 10.17632/mcgymdzs53
title: Data for: Fiscal policy shocks and stock prices in the United States.

description: The Cholesky VAR model for government spending is stored in VAR_GS\estimate.m (full sample and sub-sample) The Proxy VAR model for tax is stored in VAR_tax\estimate_var.m (full sample). Subsample estimates in Estimate_var_subsample1.m the code for the FAVAR models is in FAVAR_GS and FAVAR_tax respectively
DOI: 10.6084/m9.figshare.20044355.v3
title: File list and statistical properties

description: File list and statistical properties of this repository: means, standard deviation, geometric means, log-normal standard deviation.
DOI: 10.6084/m9.figshare.29128823.v1
title: Methylmercury in larval amphibians across the USA and correlations between tail and whole-body methylmercury

description: Based on previous studies, we know that methylmercury (MeHg) bioaccumulation is widespread in adult amphibians across the US. Bioaccumulation also varies by sex, size, species, and life histories and non-lethal sampling of toes and tails is an effective method for assessing bioaccumulation in adults. There is still limited information available on potential health effects of MeHg to both adults and larval amphibians, making it difficult to translate observed MeHg concentration into measures of risk, particularly under field conditions. We also know that dragonfly larvae are good indicators of MeHg in adult amphibians; however, there is no information on how dragonfly Hg concentrations relate to larval amphibian Hg bioaccumulation. Our study objectives are to (1) develop a non-lethal sampling method for larval amphibians by comparing MeHg in tail clips to whole body MeHg concentrations, (2) determine if dragonfly larvae are an acceptable indicator of MeHg bioaccumulation for larval amphibians and (3) document MeHg bioaccumulation in larval amphibians of multiple species.
DOI: 10.17632/9wknvx2486
title: Educational Innovation Research Dataset (1963-2020)

description: The Educational Innovation research and publication dataset, which was indexed by Scopus from 1963 to 2020. The dataset contains data authors, authors ID Scopus, title, year, source title, volume, issue, article number in Scopus, DOI, link, affiliation, abstract, index keywords, references, Correspondence Address, editors, publisher, conference name, conference date, conference code, ISSN, language, document type, access type, and EID.
DOI: 10.6084/m9.figshare.11955318.v1
title: Dataset

description: The alignments, best substitution model, phylogeny, r8s result, MAPS results of the MS "<b>The genome of a cave plant, <i>Primulina huaijiensis</i>, provides insights into adaptation to limestone karst habitats</b>".
DOI: 10.6084/m9.figshare.5127205.v1
title: Supplementary Material for: The Temporal Dynamics of Cognitive Reactivity and Their Association with the Depression Risk: An Exploratory Study

description: <b><i>Background:</i></b> Cognitive reactivity is the change in depressive thinking in response to negative mood. Previous research indicates that cognitive reactivity is an important variable in the etiology and course of depression. The present study tested which time interval after a negative mood induction is critical for the prediction of the depression risk. <b><i>Methods:</i></b> Participants suffering from a major depressive disorder were recruited when entering inpatient treatment. At the end of inpatient treatment they completed an experimental procedure to assess their depressive thinking once before and twice after a negative mood induction. Subsequently, patients were followed up for 26 weeks. <b><i>Results:</i></b> The immediate change in depressive thinking in response to the negative mood induction was negatively associated with future depression. The delayed change did not predict the depression risk. <b><i>Conclusion:</i></b> The negative association between the immediate change in depressive thinking and the depression risk is not in line with results from previous studies on cognitive reactivity. Previous research on emotion context insensitivity and the avoidance of negative thoughts offers hypotheses which could account for this result. Further research is needed to shed light on the processes underlying cognitive reactivity.
DOI: 10.6084/m9.figshare.12610034.v1
title: Additional file 1 of Mapping aboveground biomass and its prediction uncertainty using LiDAR and field data, accounting for tree-level allometric and LiDAR model errors

description: Additional file 1 Supplementary material.