cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.28539767.v1
title: Non-random tree species loss shifts soil fungal communities

description: Ongoing global changes speed up forest diversity loss, typically in a non-random manner, with potential consequences for soil fungal communities. However, it remains elusive how non-random tree species loss, based on distribution ranges or specific traits, impacts soil fungal communities. Here we employed a large-scale field experiment where random and non-random tree species losses were experimentally manipulated, to estimate soil fungal responses using high-throughput sequencing. Two non-random scenarios were studied: non-random loss of either rarer species (measured by regional frequency) or more acquisitive species (measured by specific leaf area, SLA). We found that soil fungal communities were more profoundly affected by the non-random rather than the random tree species loss. Preferential loss of higher-SLA species resulted in significant decreases in soil fungal diversity, shifts in community composition and simplifications in fungal co-occurrence network. Moreover, both the diversity and relative abundance of saprotrophic fungi decreased, whereas those of ectomycorrhizal (EcM) fungi increased with SLA-oriented tree species loss. With biased loss of rarer species, plant pathogenic fungi showed decreases in diversity and shifts in community composition. Compared with the random scenario, the significant effects of non-random tree species loss are closely related to the covaried trait dominance of plant communities, notably to the changes concerning community life-history traits and mycorrhizal associations. Our study provided novel evidence that the non-random, trait-oriented tree species loss exerted far-reaching effects on soil fungal community structures compared with the random species loss, highlighting the potential of trait-based predictions for understanding the dynamics of soil fungal communities. Modified ecosystem functioning under disturbances causing non-random tree species loss in the real-world can, therefore, be expected owing to the trait-based plant-soil fungal interactions.<br>
DOI: 10.6084/m9.figshare.22879364.v1
title: A Parallel Design of Frequent Item-sets Mining on CPU-MIC Heterogeneous Systems's dataset.

description: With the rapid growth of the text mining technology, knowledge discovery in text is appealing more and more to researchers. Furthermore, association rule mining (ARM), an essential issue in data mining, is widely used in the field of text information. However, due to the exploding amount of information in different fields, the serial ARM algorithm has left much to be desired. In this paper, we propose a new parallel ARM algorithm on corpus, using MPI programming interface. The algorithm mainly makes use of distributed inverted hash index, a communication pattern based on chessboard decomposition and a multi-thread candidate item-set filtering method running on MIC platform to accelerate the generation of frequent item sets.
DOI: 10.6084/m9.figshare.27215379.v1
title: Genomic data and annotation files of nine species of <i>Papilio</i>

description: Genomic data and annotation files of nine species of <i>Papilio</i>(Papilio_aristodemus, Papilio_dardanus_tibullus, Papilio_demoleus, Papilio_glaucus, Papilio_helenus, Papilio_memnon, Papilio_polyxenes, Papilio_protenor, Papilio_xuthus )
DOI: 10.6084/m9.figshare.27960030.v1
title: survey

description: description
DOI: 10.6084/m9.figshare.23608782.v1
title: 2023-06-14 - NCBI Viruses - Orthomyxoviridae

description: Orthomyxoviridae sequences from the NCBI FTP site (https://ftp.ncbi.nlm.nih.gov/genomes/Viruses/AllNucleotide/) (downloaded 2023-06-14). Metadata from AllNuclMetadata.csv.gz (https://ftp.ncbi.nlm.nih.gov/genomes/Viruses/AllNuclMetadata/) dropping certain unneeded columns (e.g. Submitter, USA, etc). Compressed with Zstandard.
DOI: 10.6084/m9.figshare.27859269.v1
title: .mat_files

description: This .zip file contains all relevant datasets. These include Surface Air Temperature (SAT) and Sea Level Pressure (SLP) data for 20CRv3, ERA20-C, CMIP5, and CMIP6. The contents of the .zip file includes:<b>Combine20CRv3SAT.mat</b>contains all estimates of 20CRv3 SAT data at each grid pointScript(s) where it is used: <i>GSW_CMIP5_20CRv3.m, GSW_CMIP6_20CRv3_nooutliers.m, </i><i>GSW_CMIP6_20CRv3_outliers.m</i>These data are used to estimate the observed SAT multidecadal signal at each grid point<b>Combine20CRv3SLP.mat</b>Same as <b>Combine20CRv3SAT.mat</b>, but for SLP<b>CombineHistoricalRuns.mat</b>contains CMIP5 SAT and SLP data for each index for all runs. The indices used are the AMO, PMO, NMO (for SAT) and NAO and ALPI (for SLP).Script(s) where it is used: <i>GSW_CMIP5_20CRv3.m</i> and <i>GSW_CMIP5_ERA20c.m</i>These data are used to estimate the simulated multidecadal signal in phase space<b>CombineHistoricalRunsGriddedSAT.mat</b>contains CMIP5 SAT data at each grid point for all runs.Script(s) where it is used: <i>GSW_CMIP5_20CRv3.m</i> and <i>GSW_CMIP5_ERA20c.m</i>These data are used to estimate the simulated SAT multidecadal signal at each grid point<b>CombineHistoricalRunsGriddedSLP.mat</b>Same as <b>CombineHistoricalRunsGriddedSAT.mat</b>, but for SLP<b>CombineIndices20CRv3.mat</b>Same as <b>CombineHistoricalRuns.mat</b>, but for 20CRv3.Script(s) where it is used: <i>GSW_CMIP5_20CRv3.m, GSW_CMIP6_20CRv3_nooutliers.m, </i><i>GSW_CMIP6_20CRv3_outliers.m</i><b>ERA20c_indices.mat</b>Same as <b>CombineHistoricalRuns.mat</b>, but for ERA20-C.Script(s) where it is used: <i>GSW_CMIP5_ERA20c.m, GSW_CMIP6_ERA20c_nooutliers.m, </i><i>GSW_ERA20c_20CRv3_outliers.m</i><b>SAT_patterns_20CRv3.mat</b>contains SAT multidecadal signal for 20CRv3 at every grid pointScript(s) where it is used: <i>GSW_CMIP5_20CRv3.m, GSW_CMIP6_20CRv3_nooutliers.m, </i><i>GSW_CMIP6_20CRv3_outliers.m</i>Used for plotting physical space signals<b>SAT_patterns_ERA20c.mat</b>contains SAT multidecadal signal for ERA20-C at every grid pointScript(s) where it is used: <i>GSW_CMIP5_ERA20-C.m, GSW_CMIP6_ERA20-C_nooutliers.m, </i><i>GSW_CMIP6_ERA20-C_outliers.m</i>Used for plotting physical space signals<b>SLP_patterns_20CRv3.mat</b>same as <b>SAT_patterns_20CRv3.mat</b>, but for SLP<b>SLP_patterns_ERA20c.mat</b>same as <b>SAT_patterns_ERA20c.mat</b>, but for SLP
DOI: 10.6084/m9.figshare.21081910.v1
title: Supplementary Table 11

description: <strong>Supplementary Table 11</strong>
DOI: 10.6084/m9.figshare.18131426.v1
title: ReFus GS vs. PS files

description: Fusarium verticillioides is a common maize (Zea mays L.) pathogen that causes Fusarium ear rot (FER) and produces the mycotoxin fumonisin (FUM). This study empirically compared phenotypic selection (PS) and genomic selection (GS) for improving FER and FUM resistance. Three intermating generations of recurrent GS were conducted in the same time frame and from a common base population as two generations of recurrent PS. Lines sampled from each PS and GS cycle were evaluated in three North Carolina environments in 2020. We observed similar cumulative responses to GS and PS, representing decreases of about 50% of mean FER and FUM compared to the base population. The first cycle of GS was more effective than later cycles. PS and GS both achieved about 70% of predicted total gain from selection for FER, but only about 26% of predicted gains for FUM, suggesting that heritability for FUM was overestimated. We observed a 20% decrease in genetic marker variation from PS and 30% decrease from GS. Our greatest challenge was our inability to quickly obtain dense and consistent set of marker genotypes across generations of GS. Practical implementation of GS in individual small-scale breeding programs will require cheaper and faster genotyping methods, and such technological advances will present opportunities to significantly optimize selection and mating schemes for future GS efforts beyond what we were able to achieve in this study.
DOI: 10.6084/m9.figshare.19336421.v1
title: Supplementary Material for: Neuroprotective and therapeutic effects of Tocovid and Twendee-X on Aβ oligomers-induced damage in the SH-SY5Y cell line

description: Background: Alzheimer’s disease (AD) is the most frequent cause of dementia among the elderly. The accumulation of amyloid beta (Aβ) and its downstream pathological events such as oxidative stress play central roles in AD. Recent studies revealed that Aβ oligomers (AβOs) induced strong neurotoxicity in SH-SY5Y cells via the induction of oxidative stress. Objective: In the present study, we investigated the effect of two antioxidants, Tocovid and Twendee-X, on AβO-induced SH-SY5Y cell damage. Methods: AβOs (2.5 μM) were applied to induce cellular damage in the SH-SY5Y cell line. Cell viability following AβO toxicity, Tau protein phosphorylation, cell morphology, and intracellular reactive oxygen species were assayed with or without different concentrations of Tocovid or Twendee-X. Results: Tocovid (60 μg/ml) and Twendee-X (150 μg/ml) significantly recovered cell viability from AβO toxicity (**p&lt;0.01, vs control), attenuated Tau protein phosphorylation (**p&lt;0.01, vs AβOs), improved cell morphology (**p&lt;0.01, vs AβOs), and suppressed intracellular ROS (**p&lt;0.01, vs AβOs) in SH-SY5Y cells. Conclusion: These findings suggest the neuroprotective and therapeutic potential of Tocovid and Twendee-X for AD treatment.
DOI: 10.6084/m9.figshare.24306538.v1
title: Distribution Path Dataset

description: ZIP archive containing the processed distribution path data derived from the raw transactions. File size when unzipped is 49.7 GiB.
DOI: 10.1184/r1/6682983.v1
title: Developmental trajectories in brain development

description: The dataset includes fMRI raw data related to the paper entitled Lerner, Scherf, Katkov, Hasson and Behrmann (2018). Age-related differences in reliability of cortical activity under naturalistic viewing conditions.
DOI: 10.6084/m9.figshare.14939298.v1
title: Phylogenetic position of Amphisbaena ridleyi - R script and input files used in BioGeoBEARS analyses

description: Phylogenetic position of Amphisbaena ridleyi - R script and input files used in BioGeoBEARS analyses
DOI: 10.6084/m9.figshare.25398415.v2
title: Training Wheels Effect on Learning Environments How using training wheels teaches the wrong lesson

description: Previous research suggests that learning contexts that combine desirable difficulties and systematic feedback improve learning. Such contexts allow for error to occur and to be corrected since immediate and accurate feedback is provided (i.e., the so-called kind learning environment, Hogarth, 2001). However, learners tend to resort to error-avoidance strategies and turn these contexts into suboptimal learning contexts, or (the so-called wicked learning environments). Two studies examined the impact of the availability of a “Training Wheel" (the option to avoid desirable difficulties and reduce the informativeness of feedback) in a kind environment. Participants learned Portuguese words with or without Training Wheels. While Training Wheels participants initially performed better, they were surpassed in a final test (without Training Wheels). They also displayed overconfidence in their final performance. Avoiding desirable difficulties and error is therefore detrimental to learning although seem to be oblivious to it.
DOI: 10.6084/m9.figshare.26972410.v1
title: Jurisprudência- intimação e citação - meio eletrônico.xlsx

description: Tabela com a base de dados utilizada para a elaboração do estudo "A citação por <i>whatsapp</i> no processo penal brasileiro e sua compatibilidade com o direito ao contraditório". Composta por decisões do STJ e do STF buscadas a partir do parâmetro “citação <i>Whatsapp</i>” (STF) e “citação <i>Whatsapp</i> nulidade" (STJ), com marco temporal delimitado até 18/03/2024.
DOI: 10.6084/m9.figshare.5849430.v1
title: Baozhen.dat

description: water level
DOI: 10.6084/m9.figshare.22269451.v1
title: agri_cotton.tif

description: cotton straw map
DOI: 10.6084/m9.figshare.7221971.v1
title: Table S1.xlsx; Appendix 1

description: Table S1: Range proportion of threatened plant species in protected areas and indigenous lands.<br>Appendix 1. The script used to do the analyses
DOI: 10.6084/m9.figshare.28328450.v1
title: Transposable elements annotation on HapB

description: Transposable elements annotation on HapB
DOI: 10.6084/m9.figshare.17430107.v1
title: Supplementary Material for: Upregulation of NADPH Oxidase 2 Contributes to Renal Fibrosis in <b><i>pcy</i></b> Mice: An Experimental Model of Nephronophthisis

description: <b><i>Background:</i></b> DBA/2FG-<i>pcy</i> (<i>pcy</i>) mice harbor a homozygous <i>Nphp3</i> missense mutation and develop nephronophthisis with renal interstitial fibrosis. Previous studies have shown that aberrant oxygen homeostasis contributes to the renal pathology in <i>pcy</i> mice, but the underlying molecular mechanism remains largely unknown. <b><i>Methods:</i></b> <i>pcy</i> mice and a control strain, DBA/2N (DBA) mice, were used. Renal levels of 62 mRNAs involved in oxygen homeostasis were investigated by real-time PCR, and the resulting data were used for extraction of pathological pathways. On the basis of the genes found to be upregulated and pathway analysis, further studies were performed using immunoblotting, immunohistochemistry, and pharmacological intervention. <b><i>Results:</i></b> In comparison with DBA mice, the levels of 18 mRNAs were altered by &gt;2-fold in <i>pcy</i> mice. Pathway analysis extracted molecular pathways related to oxidative stress, inflammation, and cell adhesion. As the levels of mRNAs relevant to the NADPH oxidase 2 (NOX2) pathway were prominently (4 genes &gt;5-fold) increased in <i>pcy</i> mice, we further analyzed the molecules related to this pathway. A time course study suggested that the pathway was gradually activated in <i>pcy</i> mice from at least 5 weeks of age. Immunohistochemistry study revealed that NOX2 protein was colocalized with a macrophage marker protein in the renal interstitium. Moreover, treatment of <i>pcy</i> mice with apocynin, an inhibitor of the NOX2 pathway, ameliorated the renal fibrosis. <b><i>Conclusion:</i></b> Our findings suggest that the activation of the NOX2 pathway, possibly mediated by macrophage infiltration, plays a pivotal role in progressive renal fibrosis in <i>pcy</i> mice.
DOI: 10.6084/m9.figshare.12307700.v2
title: Density Functional Theory-based Electric Field Gradient Database

description: The deviation of the electron density around the nuclei from spherical symmetry determines the electric field gradient (EFG), which can be measured by various types of spectroscopy. Nuclear Quadrupole Resonance (NQR) is particularly sensitive to the EFG. The EFGs, and by implication NQR frequencies, vary dramatically across materials. Consequently, searching for NQR spectral lines in previously uninvestigated materials represents a major challenge. Calculated EFGs can significantly aid at the search’s inception. To facilitate this task, we have applied high-throughput density functional theory calculations to predict EFGs for 15187 materials in the JARVIS-DFT database. This database, which will include EFG as a standard entry, is continuously increasing. Given the large scope of the database, it is impractical to verify each calculation. However, we assess accuracy by singling out cases for which reliable experimental information is readily available and compare them to the calculations. We further present a statistical analysis of the results. The database and tools associated with our work are made publicly available by JARVIS-DFT (https://www.ctcms.nist.gov/~knc6/JVASP.html) and NIST-JARVIS API (http://jarvis.nist.gov/).
DOI: 10.6084/m9.figshare.28736579.v1
title: 补充材料S14-S19

description: 补充材料S14-S19
DOI: 10.6084/m9.figshare.22581730.v1
title: Material stock and population 1978-2020

description: 57,964 records are total material stocks, per capita material stocks, urban populations, and household numbers of 337 cities from 1978 to 2020
DOI: 10.6084/m9.figshare.25101188.v1
title: Supplementary Material for: Technical Skills Curriculum in Neonatology: A Modified European Delphi Study

description: Introduction
Simulation-based training (SBT) aids healthcare providers in acquiring the technical skills necessary to improve patient outcomes and safety. However, since SBT may require significant resources, training all skills to a comparable extent is impractical. Hence, a strategic prioritization of technical skills is necessary. While the European Training Requirements in Neonatology provide guidance on necessary skills, they lack prioritization. We aimed to identify and prioritize technical skills for a SBT curriculum in neonatology.

Methods
A three-round modified Delphi process of expert neonatologists and neonatal trainees was performed. In round one, the participants listed all the technical skills newly trained neonatologists should master. The content analysis excluded duplicates and non-technical skills. In round two, the Copenhagen Academy for Medical Education and Simulation Needs Assessment Formula (CAMES-NAF) was used to preliminary prioritize the technical skills according to frequency, importance of competency, SBT impact on patient safety, and feasibility of SBT. In round three, the participants further refined and reprioritized the technical skills. Items achieving consensus (agreement of ≥75%) were included. 

Results
We included 168 participants from 10 European countries. The response rates in rounds two and three were 80% (135/168) and 87% (117/135), respectively. In round one, the participants suggested 1964 different items. Content analysis revealed 81 unique technical skills prioritized in round two. In round three, 39 technical skills achieved consensus and were included.

Conclusion 
We reached a European consensus on a prioritized list of 39 technical skills to be included in a SBT curriculum in neonatology.
DOI: 10.6084/m9.figshare.21357855.v1
title: AUD differential expression

description: Kapoor et al, 2019 <strong>Analysis of whole genome-transcriptomic organization in brain to identify genes associated with alcoholism</strong> Transl Psychiatry . 2019 Feb 14;9(1):89. doi: 10.1038/s41398-019-0384-y.
DOI: 10.6084/m9.figshare.28682663.v1
title: data.zip

description: Data of the research on “EexI Mutations Drive Sanguinarine Resistance by Activating Cryptic Multidrug Efflux Pumps in AcrB-Null <i>Escherichia coli</i>”
DOI: 10.6084/m9.figshare.24618369.v1
title: Supplementary Material for: Association between impaired renal function and subclinical myocardial dysfunction in patients with heart failure with preserved ejection fraction: assessment using noninvasive pressure-strain loop

description: Purpose: To evaluate the abnormal myocardial function in HFpEF patients with renal dysfunction and investigate the relationship between renal function and myocardial mechanical characteristics in patients with HFpEF. Methods:134 patients with HFpEF and 32 control subjects were enrolled in our study. Clinical and echocardiography data were collected for offline analysis. Global work index(GWI), global constructive work(GCW), global waste work(GWW), and global work efficiency(GWE) were measured after non-invasive pressure strain loop analysis. Univariate and multivariate analyses were used to determine the correlation between renal function and myocardial function in patients with HFpEF. Results: In comparison to control subjects, patients with HFpEF tend to have higher GWW(78[50-115] vs 108[65-160] mmHg%, P&lt;0.05) and lower GWE(96[95-97] vs 95[92-96] %, P&lt;0.05) while LVEF(65.5±3.3 vs 64.3±4.6 %, P&lt;0.05) were comparable between them. Besides, increased GWW(86[58-152] vs 125[94-187] mmHg%, P&lt;0.05) and decreased GWE(96[93-97] vs 94[92-96] %, P&lt;0.05) were detected in patients with renal dysfunction compared to those with normal renal function. An independent correlation was found between eGFR and GWW after multivariate analysis. Conclusions: The more severely impaired myocardial function was detected in HFpEF patients with renal dysfunction compared to those with normal renal function. eGFR was independently correlated to GWW in patients with HFpEF.
DOI: 10.60893/figshare.apl.28628882.v1
title: Supplemental Document

description: Supplementary material for additional details, divided into four sections: S1 covers the Material Properties,
S2 outlines the Resonator Fabrication Process, S3 describes
the Simulated Mode-Shapes,and S4 presents the Oscillator
Temperature-Calibration Procedure. Readers can refer to
these sections for further technical details and supporting data.
DOI: 10.6084/m9.figshare.3564993.v1
title: Appendix A. Additional details on data analysis.

description: Additional details on data analysis.
DOI: 10.6084/m9.figshare.16782553.v1
title: Data of Questioner and Interview-Rasmitadila.docx

description: The type of data is raw data from the results of online questionnaires through Google Forms conducted to 51 respondents (student teachers), as well as the results of interviews with 5 student teachers face-to-face. The topic of this data is about the form of collaborative relationships between universities and inclusive elementary schools
DOI: 10.6084/m9.figshare.12416264.v1
title: Supplementary Material for: Physical Activity and Outcomes in Colorectal Surgery: A Pilot Prospective Cohort Study

description: <b><i>Background:</i></b> Mobilization after surgery is recommended to reduce the risk of adverse effects and to improve recovery. The aim of this study was to examine the associations between perioperative physical activity and postoperative outcomes in colorectal surgery. <b><i>Methods:</i></b> The daily number of footsteps was recorded from preoperative day 5 to postoperative day 3 in a prospective cohort of patients using wrist accelerometers. Timed Up and Go Test (TUGT), 6 Min Walking Test (6MWT), and peak expiratory flow (PEF) were assessed preoperatively. ROC curves were used to assess the performance of physical activity as a diagnostic test of complications and prolonged length of stay (LOS) of more than 5 days. <b><i>Results:</i></b> A total of 50 patients were included. Patients with complications were significantly older (67 years) than those without complications (53 years, <i>p</i> = 0.020). PEF was significantly lower in the group with complications (mean flow 294.3 vs. 363.6 L/min, <i>p</i> = 0.038) while there was no difference between groups for the other two tests (TUGT and 6MWT). The tests had no capacity to discriminate the occurrence of complications and prolonged LOS, except the 6MWT for LOS (AUC = 0.746, <i>p</i> = 0.004, 95% CI: 0.604–0.889). There was no difference in the mean number of preoperative footsteps, but patients with complications walked significantly less postoperatively (mean daily footsteps 1,101 vs. 1,243, <i>p</i> = 0.018). <b><i>Conclusions:</i></b><i></i>Colorectal surgery patients with complications were elderly, had decreased PEF, and walked less postoperatively. The 6MWT could be used preoperatively to discriminate patients with potentially increased LOS and foster mobilisation strategies.
DOI: 10.6084/m9.figshare.16815295.v1
title: Data for Taumako sample: femur histology, femur morphometry, genetic sex

description: This dataset contains data for an archaeological human sample from the site of Taumako, Solomon Islands. The data include femoral cortical bone histology measurements as well as basic gross femoral measurements. Further, the dataset contains genetic sexing data based upon aDNA.
DOI: 10.6084/m9.figshare.9473852.v1
title: Data for second gyrofrequency power ramp and maximum available power

description: Dataset contains wavefiles for 2nd gyrofrequency power ramp and maximum available power experiments. All the wavefiles are sampled at 500 kHz