cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10654382
title: Unraveling the hydration shell structure and dynamics of group 10 aqua ions

description: 1. Input and part of the output file of the sDFT AIMD simulation. The MD simulation script files are provided. Input and output files of 2 subsystems are included. 

 

2. MD trajectory analysis input and output files are also provided. Including radial distribution function, structural function and angular distribution function.
DOI: 10.5281/zenodo.10654383
title: Unraveling the hydration shell structure and dynamics of group 10 aqua ions

description: 1. Input and part of the output file of the sDFT AIMD simulation. The MD simulation script files are provided. Input and output files of 2 subsystems are included. 

 

2. MD trajectory analysis input and output files are also provided. Including radial distribution function, structural function and angular distribution function.
DOI: 10.6084/m9.figshare.12262748
title: Additional file 3 of T1 mapping performance and measurement repeatability: results from the multi-national T1 mapping standardization phantom program (T1MES)

description: Additional file 3. Supplementary data file reporting all the center-, session- and sequence-specific T1 mapping contributions to the T1MES program.
DOI: 10.6084/m9.figshare.12262748.v1
title: Additional file 3 of T1 mapping performance and measurement repeatability: results from the multi-national T1 mapping standardization phantom program (T1MES)

description: Additional file 3. Supplementary data file reporting all the center-, session- and sequence-specific T1 mapping contributions to the T1MES program.
DOI: 10.6084/m9.figshare.21175666.v1
title: Additional file 3 of Incorporating kernelized multi-omics data improves the accuracy of genomic prediction

description: Additional file 3: Table S1. The details of 25 Pearson’s correlation coefficients of GBLUP, mssBLUP, and wmssBLUP for LDM, HWC, SF, and pH.
DOI: 10.6084/m9.figshare.21175669.v1
title: Additional file 4 of Incorporating kernelized multi-omics data improves the accuracy of genomic prediction

description: Additional file 4: Table S2. The summary of the accuracy of wmssBLUP and GBLUP for increasing population scale.
DOI: 10.6084/m9.figshare.19589037.v1
title: Additional file 2 of Genome-wide and transcriptome-wide association studies of mammographic density phenotypes reveal novel loci

description: Additional file 2. Supplementary Tables.
DOI: 10.6084/m9.figshare.21175669
title: Additional file 4 of Incorporating kernelized multi-omics data improves the accuracy of genomic prediction

description: Additional file 4: Table S2. The summary of the accuracy of wmssBLUP and GBLUP for increasing population scale.
DOI: 10.6084/m9.figshare.19589037
title: Additional file 2 of Genome-wide and transcriptome-wide association studies of mammographic density phenotypes reveal novel loci

description: Additional file 2. Supplementary Tables.
DOI: 10.6084/m9.figshare.7019909
title: Embryonic and larval development of the topmouth gudgeon, Pseudorasbora parva (Teleostei: Cyprinidae)

description: ABSTRACT The topmouth gudgeon, Pseudorasbora parva (Temminck & Schlegel, 1842), is a small cyprinid fish that inhabits the littoral zones of freshwater habitats throughout Asia and Europe. It is regarded as an invasive species in Europe, but in its native range, in China, as food and as an environmental bio-indicator. In this study, the embryonic and larval development of P. parva was investigated for the first time. The eggs of P. parva are transparent, adhesive and elliptical. The mean size of fertilized eggs was (1.63×1.31) ± 0.04 mm. From fertilization to hatching, embryonic development could be divided into eight stages and 34 phases, and the incubation period lasted for 109.25 hours at 24 ± 1 °C. Newly hatched larvae were 4.1 ± 3 mm in length, and the yolk absorption was completed within six days after hatching. The first and second swim bladders formed at the third and ninth day, respectively. The pectoral fin formed before the hatching stage, followed by the caudal, dorsal, anal and ventral fin formation after hatching. About 20 days after hatching, the morphology of the fry was similar to the adult fish. These findings provide a basis for determining the complete ontogeny of P. parva, as well as facilitate the management and utilization of this fish.
DOI: 10.6084/m9.figshare.13311379
title: Coronavirus-associated kidney outcomes in COVID-19, SARS, and MERS: a meta-analysis and systematic review

description: A meta-analysis and systematic review was conducted on kidney-related outcomes of three recent pandemics: SARS, MERS, and COVID-19, which were associated with potentially fatal acute respiratory distress syndrome (ARDS). A search of all published studies until 16 June 2020 was performed. The incidence/prevalence and mortality risk of acute and chronic renal events were evaluated, virus prevalence, and mortality in preexisting hemodialysis patients was investigated. A total of 58 eligible studies involving 13452 hospitalized patients with three types of coronavirus infection were included. The reported incidence of new-onset acute kidney injury (AKI) was 12.5% (95% CI: 7.6%–18.3%). AKI significantly increased the mortality risk (OR = 5.75, 95% CI 3.75–8.77, <i>p</i> &lt; 0.00001) in patients with coronavirus infection. The overall rate of urgent-start kidney replacement therapy (urgent-start KRT) use was 8.9% (95% CI: 5.0%–13.8%) and those who received urgent-start KRT had a higher risk of mortality (OR = 3.43, 95% CI 2.02–5.85, <i>p</i> &lt; 0.00001). Patients with known chronic kidney disease (CKD) had a higher mortality than those without CKD (OR = 1.97, 95% CI 1.56–2.49, <i>p</i> &lt; 0.00001). The incidence of coronavirus infection was 7.7% (95% CI: 4.9%–11.1%) in prevalent hemodialysis patients with an overall mortality rate of 26.2% (95% CI: 20.6%–32.6%). Primary kidney involvement is common with coronavirus infection and is associated with significantly increased mortality. The recognition of AKI, CKD, and urgent-start KRT as major risk factors for mortality in coronavirus-infected patients are important steps in reducing future mortality and long-term morbidity in hospitalized patients with coronavirus infection.
DOI: 10.34740/kaggle/dsv/7414048
title: In-line Image Characterization using EasyViewer
DOI: 10.6084/m9.figshare.25211540
title: Supporting Datasets for: Stable and Accurate Atomistic Simulations of Flexible Molecules using Conformationally Generalisable Machine Learned Potentials

description: Supporting datasets for: Stable and Accurate Atomistic Simulations of Flexible Molecules using Conformationally Generalisable Machine Learned Potentials.For each of aspirin, paracetamol and salicylic acid there are 5 datasets. Three of the datasets (MD-300K, MD-500K and Meta-300K) contain 10,000 structures; these were generated by sampling every 1 ps from 10 ns molecular dynamics simulations in the gas phase using GAFF. Two of the datasets (phi-scan and psi-scan) contain 72 structures; these were generated by rotating the dihedral angles defined by φ and ψ in the paper. All energies and forces were calculated at the B3LYP-D3/6-31G* level of theory. For each dataset, energies in energies.txt are given in units of kcal/mol, Cartesian atomic forces in forces.txt are given in units of kcal/mol/ångstrom and coordinates in coords.txt are given in units of ångstrom. Nuclear charges, which define the atom ordering, are provided in nuclear_charges.txt.
DOI: 10.60859/vf67-na44
title: NG00159
DOI: 10.5281/zenodo.10654144
title: Encuesta de Presupuestos Familiares (ES): Microdatos 2006-2021

description: Fuente: INE
DOI: 10.5281/zenodo.10636197
title: Encuesta de Presupuestos Familiares (ES): Microdatos 2006-2021

description: Fuente: INE
DOI: 10.5281/zenodo.10636198
title: Encuesta de Presupuestos Familiares (ES): Microdatos 2006-2021

description: Fuente: INE
DOI: 10.5281/zenodo.10654009
title: Encuesta de Presupuestos Familiares (ES): Microdatos 2006-2021

description: Fuente: INE
DOI: 10.6084/m9.figshare.23797295.v1
title: Additional file 1 of A quality-comprehensive-evaluation-index-based model for evaluating traditional Chinese medicine quality

description: Additional file 1. Figure S1: Box plot of total flavonoids in licorice with different growth years, origins, and harvesting seasons. Figure S2: Box plot of water-soluble extract and alcohol-soluble extract in licorice with different growth years, origins,and harvesting seasons. Figure S3: Scatter plot of determination results of 21 candidate indicators in three grades of licorice. Figure S4: Line chart of the weight contribution of 21 candidate indicators in the quality evaluation model. Table S1: 282 batches of licorice sample information table. Table S2: Scatter plot of the measurement results of licorice appearance traits indicators. Table S3: Statistical analysis results of appearance traits indicators of licorice. Table S4: Correlation analysis of diameter and weight of licorice with different growth years, production areas, andharvesting seasons. Table S5: Statistical analysis of similarity in fingerprint of licorice with different growth years, place of origin, andharvesting seasons. Table S6: Statistical analysis of total flavonoids of licorice with different growth years, place of origin, and harvestingseasons.Table S7: Statistical analysis of water-soluble extracts and alcohol-soluble extracts of licorice with different growthyears, place of origin, and harvesting seasons.
DOI: 10.6084/m9.figshare.23797289.v1
title: Additional file 1 of Risk factors for diabetic ketoacidosis in acute pancreatitis patients with type 2 diabetes

description: Supplementary Material 1
DOI: 10.5281/zenodo.10633674
title: Investigating the potential roles of intra-colonial genetic variability in Pocillopora corals using genomics

description: Intra-colonial genetic variability (IGV), the presence of more than one genotype in a single colony, has been increasingly studied in scleractinians, revealing its high prevalence. Several studies hypothesised that IGV brings benefits, but few have investigated its roles from a genetic perspective. Here, using genomic data (SNPs), we investigated these potential benefits in populations of the coral Pocillopora acuta from Reunion Island (southwestern Indian Ocean). Besides, as the detection of IGV depends on sequencing and bioinformatics errors, we first explored the impact of the bioinformatics pipeline on its detection. Then, SNPs and genes variable within colonies were characterised. While most of the tested bioinformatics parameters did not significantly impact the detection of IGV, filtering on genotype depth of coverage strongly improved its detection by reducing genotyping errors. Mosaicism and chimerism, the two processes leading to IGV (the first through somatic mutations, the second through fusion of distinct organisms), were found in 7 and 12% of the colonies, respectively. Both processes led to several intra-colonial allelic differences, but most were non-coding or silent. However, 7% of the differences were non-silent and found in genes involved in a high diversity of biological processes, some of which directly linked to responses to environmental stresses. IGV, therefore, appears as a source of genetic diversity and genetic plasticity, increasing the adaptive potential of colonies. Such benefits undoubtedly play an important role in the maintenance and the evolution of scleractinian populations and appear crucial for the future of coral reefs in the context of ongoing global changes.

 

This deposit contains the data related to Oury N, Magalon H (2024) Investigating the potential roles of intra-colonial genetic variability in Pocillopora corals using genomics.

See 0_README.txt for more content details.
DOI: 10.5281/zenodo.10633675
title: Investigating the potential roles of intra-colonial genetic variability in Pocillopora corals using genomics

description: Intra-colonial genetic variability (IGV), the presence of more than one genotype in a single colony, has been increasingly studied in scleractinians, revealing its high prevalence. Several studies hypothesised that IGV brings benefits, but few have investigated its roles from a genetic perspective. Here, using genomic data (SNPs), we investigated these potential benefits in populations of the coral Pocillopora acuta from Reunion Island (southwestern Indian Ocean). Besides, as the detection of IGV depends on sequencing and bioinformatics errors, we first explored the impact of the bioinformatics pipeline on its detection. Then, SNPs and genes variable within colonies were characterised. While most of the tested bioinformatics parameters did not significantly impact the detection of IGV, filtering on genotype depth of coverage strongly improved its detection by reducing genotyping errors. Mosaicism and chimerism, the two processes leading to IGV (the first through somatic mutations, the second through fusion of distinct organisms), were found in 7 and 12% of the colonies, respectively. Both processes led to several intra-colonial allelic differences, but most were non-coding or silent. However, 7% of the differences were non-silent and found in genes involved in a high diversity of biological processes, some of which directly linked to responses to environmental stresses. IGV, therefore, appears as a source of genetic diversity and genetic plasticity, increasing the adaptive potential of colonies. Such benefits undoubtedly play an important role in the maintenance and the evolution of scleractinian populations and appear crucial for the future of coral reefs in the context of ongoing global changes.

 

This deposit contains the data related to Oury N, Magalon H (2024) Investigating the potential roles of intra-colonial genetic variability in Pocillopora corals using genomics.

See 0_README.txt for more content details.
DOI: 10.13020/jsp0-d375
title: NMR Pulse Sequences and RF Shapes for RAPID-HMQC

description: The dataset includes RF shapes and pulse sequences for the RAPID-HMQC NMR experiment, which were developed using an evolutionary algorithm and artificial intelligence. These novel RF pulses significantly expand the bandwidths for 1H and 15N nuclei and enable the rapid acquisition of spectra.
description: Experimental Setup in a Bruker Spectrometer

1. Copy the pulse program rapidhmqc.mpp to any of the Bruker pulse program paths. Also, copy pulse shapes (*.mrf) to the Bruker wave directory.

2. Create a new 2D experiment.

3. Enter the following TopSpin commands (adjust the values if required):

rpar FHSQCF3GPPH all
pulprog rapidhmqc.mpp
o3p 118
1 sw 36
spnam25 z2iyAz2z120xA0.9cs_rf0.00_31.977p1_bw0.00p1.mrf
spnam26 BandSelRe4_rf0.00_28.400p1_bw0.00p1.mrf
p62 50
d1 0.2
ds 16
ns 2
rg 203
1 td 128
2 td 1024
cnst4 95
Note: p62 is a selectivity parameter. Increase the number to ~100 to observe peaks very close to water; however, this decreases the total bandwidth.

Copyright License Statement
RF pulse shapes are copyrighted by Regents of the University of Minnesota and the software for generating RF shapes covered by US patent 11,221,384. Regents of the University of Minnesota will license the use of RF shapes solely for educational and research purposes by non-profit institutions and US government agencies only. For other proposed uses, contact umotc@umn.edu. The software may not be sold or redistributed without prior approval. One may make copies of the software for their use provided that the copies, are not sold or distributed, are used under the same terms and conditions. As unestablished research software, this code is provided on an "as is'' basis without warranty of any kind, either expressed or implied. The downloading, or executing any part of this software constitutes an implicit agreement to these terms. These terms and conditions are subject to change at any time without prior notice.
DOI: 10.6084/m9.figshare.20651550
title: Dataset from The immune deficiency and c-Jun N-terminal kinase pathways drive the functional integration of the immune and circulatory systems of mosquitoes

description: Data collected in this study
DOI: 10.6084/m9.figshare.19589058
title: Additional file 1 of Whole blood transcriptome profiling identifies candidate genes associated with alopecia in male giant pandas (Ailuropoda melanoleuca)

description: Additional file 1: Table S1.
DOI: 10.6084/m9.figshare.19589076.v1
title: Additional file 4 of Whole blood transcriptome profiling identifies candidate genes associated with alopecia in male giant pandas (Ailuropoda melanoleuca)

description: Additional file 4: Table S4.
DOI: 10.6084/m9.figshare.20651550.v1
title: Dataset from The immune deficiency and c-Jun N-terminal kinase pathways drive the functional integration of the immune and circulatory systems of mosquitoes

description: Data collected in this study
DOI: 10.6084/m9.figshare.23797289
title: Additional file 1 of Risk factors for diabetic ketoacidosis in acute pancreatitis patients with type 2 diabetes

description: Supplementary Material 1
DOI: 10.6084/m9.figshare.7020161.v1
title: Mental health information online: what we have learned from social media metrics in BuzzFeed’s Mental Health Week

description: Abstract Introduction The Internet has seen rapid growth in the number of websites focusing on mental health content. Considering the increased need for access to accurate information about mental health treatment, it is important to understand the promotion of this information online. Objective To analyze BuzzFeed’s Mental Health Week (BFMHW) interactions on its own website and in related social media platforms (Facebook, Twitter and YouTube) using metrics of information delivery in mental health topics. Methods We extracted social media metrics from the 20 posts with the highest number of BuzzFeed interactions on the BFMHW website and from 41 videos available on the BFMHW playlist created by the BuzzFeed Video profile on YouTube. We analyzed the format and content used in BuzzFeed’s publishing methods as well as the following social media metrics: exposure (presence online, views and time online), influence (likes) and engagement (comments, shares, replies and BuzzFeed interactions). Results Analysis of the variables revealed that audience engagement is associated with the number of medias in which the content is published: views on YouTube and shares on Facebook (0.71, p&lt;0.001), total interactions on Facebook (0.66, p&lt;0.001) and BuzzFeed number of total interactions (0.56, p&lt;0.001). Conclusions Our results suggest that videos on YouTube may be an important information channel, including activity and engagement on other medias such as Facebook. Information may be more effective in reaching the audience if it is delivered in more than one media and includes personal experiences, some humor in content and detailed information about treatment.
DOI: 10.6084/m9.figshare.12263033.v1
title: New and advanced features of fetal intelligent navigation echocardiography (FINE) or 5D heart

description: Congenital heart disease (CHD) is the leading organ-specific birth defect, as well as the leading cause of infant morbidity and mortality from congenital malformations. Therefore, a comprehensive screening examination of the fetal heart should be performed in all women to maximize the detection of CHD. Four-dimensional sonography with spatiotemporal image correlation (STIC) technology displays a cine loop of a complete single cardiac cycle in motion. A novel method known as Fetal Intelligent Navigation Echocardiography (or FINE) was previously developed to interrogate STIC volume datasets using “intelligent navigation” technology. Such method allows the automatic display of nine standard fetal echocardiography views required to diagnose most cardiac defects. FINE considerably simplifies fetal cardiac examinations and reduces operator dependency. It has both high sensitivity and specificity for the detection of CHD. Indeed, FINE has been integrated into several commercially available ultrasound platforms. Recently, eight novel and advanced features have been developed for the FINE method and they will be described herein. Such features can be categorized based upon their broad goals. The first goal is to simplify FINE further, and consists of the following features: (1) <i>Auto fetal positioning</i> (or <i>FINE align</i>); (2) <i>Skip points</i>; (3) <i>Predictive cursor</i>; (4) <i>Static mode</i> volume; and (5) <i>Breech sweep.</i> The second goal is to allow quantitative measurements to be performed on the cardiac views generated by FINE: (6) <i>Automatic cardiac axis;</i> and (7) <i>Cardiac biometry.</i> Finally, the last goal is to improve the success of obtaining fetal echocardiography view(s); and consists of (8) <i>Maestro planar navigation</i>.
DOI: 10.6084/m9.figshare.19589058.v1
title: Additional file 1 of Whole blood transcriptome profiling identifies candidate genes associated with alopecia in male giant pandas (Ailuropoda melanoleuca)

description: Additional file 1: Table S1.
DOI: 10.6084/m9.figshare.19589064
title: Additional file 2 of Whole blood transcriptome profiling identifies candidate genes associated with alopecia in male giant pandas (Ailuropoda melanoleuca)

description: Additional file 2: Table S2.
DOI: 10.6084/m9.figshare.7020161
title: Mental health information online: what we have learned from social media metrics in BuzzFeed’s Mental Health Week

description: Abstract Introduction The Internet has seen rapid growth in the number of websites focusing on mental health content. Considering the increased need for access to accurate information about mental health treatment, it is important to understand the promotion of this information online. Objective To analyze BuzzFeed’s Mental Health Week (BFMHW) interactions on its own website and in related social media platforms (Facebook, Twitter and YouTube) using metrics of information delivery in mental health topics. Methods We extracted social media metrics from the 20 posts with the highest number of BuzzFeed interactions on the BFMHW website and from 41 videos available on the BFMHW playlist created by the BuzzFeed Video profile on YouTube. We analyzed the format and content used in BuzzFeed’s publishing methods as well as the following social media metrics: exposure (presence online, views and time online), influence (likes) and engagement (comments, shares, replies and BuzzFeed interactions). Results Analysis of the variables revealed that audience engagement is associated with the number of medias in which the content is published: views on YouTube and shares on Facebook (0.71, p&lt;0.001), total interactions on Facebook (0.66, p&lt;0.001) and BuzzFeed number of total interactions (0.56, p&lt;0.001). Conclusions Our results suggest that videos on YouTube may be an important information channel, including activity and engagement on other medias such as Facebook. Information may be more effective in reaching the audience if it is delivered in more than one media and includes personal experiences, some humor in content and detailed information about treatment.
DOI: 10.6084/m9.figshare.21175822.v1
title: Additional file 4 of Genome wide association analysis for yield related traits in maize

description: Additional file 4.
DOI: 10.6084/m9.figshare.19589145
title: Additional file 1 of Prediction of programmed cell death protein 1 in hepatocellular carcinoma patients using radiomics analysis with radiofrequency-based ultrasound multifeature maps

description: Additional file 1. Radiomics scores of the patients in all models.
DOI: 10.6084/m9.figshare.19589145.v1
title: Additional file 1 of Prediction of programmed cell death protein 1 in hepatocellular carcinoma patients using radiomics analysis with radiofrequency-based ultrasound multifeature maps

description: Additional file 1. Radiomics scores of the patients in all models.
DOI: 10.6084/m9.figshare.21175822
title: Additional file 4 of Genome wide association analysis for yield related traits in maize

description: Additional file 4.