cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19121747.v1
title: Supplementary Material for: Early Mental Trajectories Predict Different Cognitive Levels at School Age in Very Preterm Children

description: <b><i>Introduction:</i></b> Early identification of preterm children at high risk of intellectual disability (intelligence quotient [IQ] &lt;70) or borderline intelligence (IQ = 70–84) is critical for different early intervention. We investigated whether early-life mental trajectories predict intellectual disability and borderline intelligence, respectively, among school-age preterm children. <b><i>Methods:</i></b> A multicenter study recruited preterm infants born at &lt;32 weeks’ gestation between 2001 and 2014 in Taiwan who underwent mental assessments (Bayley Scales of Infant Development) at corrected ages 6, 12, and 24 months and IQs at age 5.5 years. Mental trajectories from ages 6 to 24 months determined using group-based trajectory modeling were employed to predict intellectual disability and borderline intelligence, respectively. Model fit was assessed using the area under the receiver operating characteristic curve (AUROC) and Akaike information criterion (AIC). <b><i>Results:</i></b> Among the 1,680 children enrolled, three mental trajectories were identified: high-stable (59.7%), high-declining (35.3%), and low-declining (5.0%), in which the borderline-intelligence/intellectual-disability rate was 14.1%/1.5%, 36.1%/13.7%, and 10.7%/82.1%, respectively. Compared with children with normal intelligence, the low-declining trajectory had 37.7-fold higher odds (95% confidence interval [CI], 26.3–48.1) for intellectual disability, and the high-declining trajectory had 4.4-fold higher odds (95% CI, 3.1–6.1) for borderline intelligence. Compared to the models with risk factors alone (AIC 1,791.2), the models that included both risk factors and trajectory groups had better overall performance (AIC 1,419.8) and increased prediction power for intelligence outcomes: low-declining trajectory for intellectual disability (AUROC increased from 0.81 to 0.92) and high-declining trajectory for borderline intelligence (AUROC increased from 0.68 to 0.75). <b><i>Conclusions:</i></b> Early-life mental trajectories help identify preterm children at risk of intellectual disability and borderline intelligence, respectively, at school age for timely intervention.
DOI: 10.6084/m9.figshare.20109377.v2
title: Petri dishes digital images dataset of e.coli, s.aureus and p.aeruginosa.

description: Database of Petri plates with <em>e.coli</em>,<em>p.aeruginosa and s.aureus </em>cataloged in this way: attributing number, bacterial species and total manual count to each image, e.g., CEMTimages_0278_EC_C76, where 0278, EC and C76 meaning the image number, bacterial species and total count, respectively. The built dataset consisted of about 1150 labeled images with approximately the same number of images for each bacterial species to attain a balanced database. More info check: <strong>https://doi.org/10.3390/bioengineering9070271</strong>
DOI: 10.6084/m9.figshare.21405051.v2
title: Replication data for Zhang et al. 2022 Arctic ARs

description: Dec.26 2022 updates: update the script for Fig.5e with a file name 'plot_5ev2.ncl'. There is no change in the result data. We just slightly change the way to present the vertical bars in FIg.5e for the final artwork. See details in the article. ----------------- The package file contains the data and NCL scripts used to produce the original figures of Fig.1-6 in Zhang et al. 2022 Arctic AR. Data files are in NetCDF format. The script files are supposed to be conducted using the analysis tool NCL (https://www.ncl.ucar.edu/) on a Linux cluster/environment or Mac terminal platform. Download the zip file and unpackage it (unzip data.zip). Note that 400mb space is needed. Keep the data files and scripts in the same folder. The figures in data/orignalFig/ were produced using these NCL scripts on Cheyenne, NCAR's HPC cluster. 1. get the NCL installed. On an HPC cluster with NCL installed, one may use "module load ncl" to load the ncl. Version 6.5.0 or later is needed. 2. go to the unpackaged file folder and then run scripts using a command like: ncl plot_1c.ncl to produce the figure1c in eps format in the current folder. Other figures can be reproduced similarly. <br> Some analysis information can be found in ncl scripts. Open ncl scripts using "vim" command (e.g., "vim plot_1c.ncl"). <br>
DOI: 10.6084/m9.figshare.29136983.v1
title: Rainrates derived from X-band phase array radar and Bi-Directional Optical Flow method[Dataset]

description: The uploaded data are rain rates derived from X-band phase array radar and Bi-Directional Optical Flow method used for plotting in the article, along with the evaluation dataset.
DOI: 10.17632/45v8xcb5mp
title: Local and global changes in cell density induce reorganisation of 3D packing in a proliferating epithelium.

description: In this repository, it is published all the data used across the "Local and global changes in cell density induce reorganisation of 3D packing in a proliferating epithelium" article.

The necessary code to reproduce this study is available at: https://github.com/ComplexOrganizationOfLivingMatter/seaStarProcessingSegmentation/releases/tag/scutoidsProliferation2024
DOI: 10.6084/m9.figshare.15050163.v1
title: Dados - Aspidosperma polyneuron.xlsx

description: These dataset was produced to test de effect of mother plants and distance of seed harvest on the physical and physiological quality.
DOI: 10.6084/m9.figshare.23909853.v1
title: Complete mitochondrial genome of the <i>Themus foveicollis</i> (Coleoptera: Cantharidae)

description: The genus <i>Themus</i> Motschulsky, 1858 is one of the largest genera of beetle family Cantharidae, however, no complete mitochondrial genome is available in the public database so far. Here, we sequenced and analyzed the first complete mitochondrial genome of <i>Themus</i>, with <i>T. foveicollis</i> as the representative species. The mitochondrial genome was 16,469 bp in size with 37 genes including 13 protein-coding genes (PCGs), 22 transfer <i>RNA</i> genes, and two ribosomal <i>RNA</i> genes, as well as a non-coding region, which are arranged in the same way as the hypothetical ancestral insect. It exhibited a typical high A + T bias and a higher proportion of bases A and C than T and G (A: 41.1%, T: 37.5%, G: 8.6%, C: 12.9%). The phylogenetic trees of Elateroidea were reconstructed based on 13 PCGs sequences using the Bayesian inference (BI) and maximum-likelihood (ML) analyses to investigate its phylogenetic position. The results showed that <i>Themus</i> was consistently grouped with the remaining genera of Cantharidae and placed in a monophyletic clade of Cantharinae in high supporting values, which are congruent with the morphological classification. The newly sequenced mitochondrial genome in this study constitutes important reference data for reconstructing phylogeny of the family Cantharidae or the superfamily Elateroidea.
DOI: 10.6084/m9.figshare.25750923.v1
title: pnas.2319880121 Dataset

description: Interstitial fluid pressure, extravasation, penetration, curvature, nanoparticles
DOI: 10.17632/dnk3d4n8ws
title: MPFI-24 SPANISH

description: Databases of Spanish MPFI-24 studies.
DOI: 10.25573/serc.11421063.v1
title: Dataset: Carbon accumulation rates in a salt marsh over the past two millennia

description: High rates of carbon burial observed in wetland sediments have garnered attention as a potential “natural fix” to reduce the concentration of carbon dioxide (CO2) in Earth’s atmosphere. A carbon accumulation rate (CAR) can be determined through various methods that integrate a carbon stock over different time periods, ranging from decades to millennia. Our goal was to assess how CAR changed over the lifespan of a salt marsh. We applied a geochronology to a series of salt marsh cores using both 14C and 210Pb markers to calculate CARs that were integrated between 35 to 2,460 years before present. CAR was 39 g C m<sup>-2</sup> y<sup>-1</sup> when integrated over millennia, but was upwards of 148 g C m<sup>-2</sup> y<sup>-1</sup> for the past century. We present additional evidence to account for this variability by linking it to changes in relative sea-level rise (RSLR), where higher rates of RSLR were associated with higher CARs. Thus, the true CAR calculated for a wetland should integrate recent timescales that capture the influence of contemporary RSLR, but must also omit recently deposited labile organic carbon that will ultimately decompose. Therefore, caution should be exercised not to utilize a CAR calculated over inappropriate time scales as a current assessment or forecasting tool for the climate change mitigation potential of a wetland.
DOI: 10.6084/m9.figshare.24920226.v1
title: Data for "Disentangling how urbanisation influences moth diversity in grasslands"

description: This dataset contains the raw data for the article "Disentangling how urbanisation influences moth diversity in grasslands".There are two data files, one with species data (species_list.xlsx), one with the data (including meta data) per study plot (data_per_plot.xlsx). Each file contains a spreadsheet with 'Column explanation' to specify all entries in the data.<br>
DOI: 10.6084/m9.figshare.27239148.v1
title: Experimental data-driven efficient exploration of the composition and process conditions of Li-rich NASICON-type solid electrolytes

description: These are the supporting materials for<br>"Experimental data-driven efficient exploration of the composition and process conditions of Li-rich NASICON-type solid electrolytes", https://doi.org/10.1016/j.nxmate.2025.100574<br><br>Data_collected_in_previous_studies: Li-ion conductivities at 30 °C of LCZSP obtained in the previous study [1,2]<br>[1] H. Fukuda<i> et al.,</i> <i>RSC Adv</i>, 2022, <b>12</b>, 30696–30703.<br>[2] 1 H. Takeda<i> et al.,</i> <i>Mater. Adv.</i>,.2022, <b>3</b>, 8141-8148.<br><br>20241010_bayesian_optimization : files for Bayesian optimization<br>20250204_regression_analysis : files for regression analysis<br>Supplementary_Data_1: After 12<sup>th</sup> iteration Conductivity of the unsynthesised sample estimated by Bayesian optimisation (Gaussian process) afterwards and measured conductivity of the synthesised sample.Supplementry_Data_2: Estimated conductivity from eight different regression analysis models
DOI: 10.6084/m9.figshare.28805867.v1
title: Tourmaline and muscovite boron isotopes for high-silica granitic rocks record melt formation, fluid metasomatism, and rare metal enrichment

description: Supplementary text, figures, and geochemical data
DOI: 10.6084/m9.figshare.13073051.v1
title: CANOPUS evaluation data

description: We evaluated CANOPUS on two MS/MS reference datasets: The SVM training dataset, which was also used for training CSI:FingerID (in 10-fold cross-validation), and the Agilent MassHunter library, used as indepenent dataset.<br>The SVM training dataset contains spectra from GNPS, MassBank, and NIST17. As NIST17 is a commercial library, we can only provide the spectra from GNPS and MassBank. Here, we provide the public part of the SVM training dataset (svm_training_data.zip).<br><br>For training the deep neural network we used a subset of PubChem with 1,106,938 structures for which we downloaded ClassyFire annotations (Feunang et al 2016) and another set of 2,997,933 compounds from the ClassyFire database. The PubChem structures, together with ClassyFire annotations for the evaluation data are available as "structures.csv.gz".<br>With CANOPUS, we analyzed data from two biological studies; the mzML and mzXML files are available at MassIVE (https://massive.ucsd.edu/) with the accession numbers MSV000079949 (mice data, Quinn et al 2020) and MSV000081082 (Euphorbia plant data, Ernst et al 2019).The network visualization of the mice data was done using Cytoscape (Shannon et al 2003). Here, we provide the Cytoscape file (mice_multiple_classes.cys).The source code of CANOPUS is part of the SIRIUS GitHub repository (https://github.com/boecker-lab/sirius-libs). The scripts we used for analyzing and visualizing the data are available at the GitHub repository (https://github.com/kaibioinfo/canopus_treemap).<br><br>See the LICENSE.txt for further licensing information on Classyfire annotations and mass spectra.
DOI: 10.6084/m9.figshare.22213819.v1
title: HLT data with CNs from Tissue Schematics paper

description: The HLT data with Cellular Neighborhoods added, as used in the Tissue Schematics paper (Bhate, Barlow et al. paper, Cell Systems 2021, https://www.sciencedirect.com/science/article/pii/S240547122100380X) <br>
DOI: 10.6084/m9.figshare.28887596.v1
title: Dataset

description: Dataset.
DOI: 10.17632/hg46dkxvd7
title: Maize Ecophysiology and Yield Following Cover Crops and Imposed Drought

description: Briefly, this dataset includes ecophysiological and yield measurements from a two-site-year study of maize grown following five functionally diverse cover crop treatments under imposed drought conditions. The experiment is described in detail in the following publications: - Hunter, M., A. Kemanian, D. Mortensen. 2021. Cover Crops and Drought: Maize Ecophysiology and Yield Dataset. Data in Brief 35:106856. - Hunter, M., A. Kemanian, D. Mortensen. 2021. Cover crop effects on maize drought stress and yield. Agriculture, Ecosystems, and the Environment 311:107294. - Hunter M. 2018. Sustainable intensification and climate resilience: Cover crops, soil improvement, and drought. Ph.D. dissertation, The Pennsylvania State University.
DOI: 10.17632/k4r8ynxyz9
title: RNA profiling data of IL13Ra2 CAR-T cells

description: This study was designed to evaluate differences in gene expression in between different CAR-T cell constructs directed against interleukin 13 receptor alpha-2 (IL13Rα2). CAR-T cells were isolated by flow sorting and subjected to targeted bulk-RNA profiling using Nanostring nCounter CAR-T Characterization panel followed by downstream analysis. Data consists of the CAR[B]-, CAR[E]- and Mock-T cell constructs generated from 4 healthy donors.
1. 12 individual RCC files contanig the raw gene expression data for the 3 constructs x 4 donors
2. rlf annotation file
3. QC and Normalized data as a txt file
DOI: 10.6084/m9.figshare.23578044.v6
title: Data of the contribution of denitrification and anammox to nitrogen loss

description: This dataset is about the relative contribution of denitrification and anammox to nitrogen loss, and contains two sheets: "data" and "annotation".
DOI: 10.6084/m9.figshare.25749378.v5
title: EyeTrackingVRDataset

description: A multimodal dataset of paired head and eye movements acquired in controlled virtual reality environments. Our<br>data includes head and eye movement for 20 volunteers that interacted with four different virtual reality environments that required coordinated head and eye behaviors. Our data collection involved two visual pursuit tasks and two visual searching tasks. Each participant performed each task three times, resulting in approximately 1080 seconds of paired head and eye movement per participant. This dataset enables research into predictive models of intended head movement conditioned on gaze for augmented and virtual reality experiences, as well as assistive devices like powered exoskeletons for individuals with head-neck mobility limitations. This dataset also allows biobehavioral and mechanism studies of the variability in head and eye movement across different participants and tasks.
DOI: 10.6084/m9.figshare.28139807.v4
title: Dataset of filamentous cyanobacteria density and N<sub>2</sub> fixation rates on the ECS shelf during spring and autumn in 2021

description: The filamentous cyanobacteria density and N<sub>2</sub> fixation rates in the ECS during Spring and Autumn of 2021.
DOI: 10.6084/m9.figshare.28409797.v1
title: Clinical manifestations and pathogenicity of Clade IIb monkeypox virus in rabbits

description: The 2022 monkeypox outbreak involved rapid global dissemination, prompting research into animal models for the monkeypox virus (MPXV), including non-human primates and mice. However, studies utilizing rabbits as models remain limited. In this study, we established three rabbit models using the current epidemic MPXV strain. Following intravenous MPXV injection, adult rabbits exhibited characteristic clinical manifestations, including widespread rash and fever, with viral replication in the skin, lungs, and testes, resulting in severe pathological damage by 6 days post-infection (dpi). Intradermal injection of MPXV into the dorsal skin of adult rabbits produced red lesions with central necrosis and hemorrhage accompanied by dense inflammatory infiltrates. Abundant viral particles were observed in epidermal cells at 6 dpi. Additionally, a fatal MPXV model was developed in 10-day-old rabbits using intranasal virus administration. These young rabbits exhibited lethargy and diarrhea beginning at 2 dpi, significant weight loss, and a 50% mortality rate by 15 dpi. Viral dissemination was detected in multiple organs, leading to extensive multi-organ damage. This study highlights the utility of rabbit models for MPXV, displaying typical clinical features and pathogenic mechanisms.
DOI: 10.6084/m9.figshare.14622759.v1
title: Western Australia Benthic Type Reference Sample

description: This benthic reference data is intended for use as a calibration and/or validation data for global scale remote sensing image based classification of coral reef areas. The data is in a vector shapefile format consisting of polygons labelled with one of seven coral reef benthic classes that include Microalgal Mats, Coral/Algae, Rubble, Rock, Seagrass Dense, Seagrass Sparse, Sand. <b>Please cite data as:</b> Borrego-Acevedo, R., Roelfsema, C., Canto, R., Harris, D., Kennedy, E., Kovacs, E., Lyons, M., Markey, K., Murray, N., Ordonez Alvarez, A., Phinn, S., Roe, M., Say, C., Tudman, P., C., Wolff, J., Yuwono, D., Bambric, B., Fox, H., Lieb, Z., Asner , G., Knapp , D., Li, J., Harris, B., Larsen, K. & Rice, K. 2021. Western Australia Benthic Type Reference Sample. University of Queensland. DOI: https://doi.org/10.6084/m9.figshare.14622759 <b>Links to supplementary information:</b> Mapping methods overview (https://allencoralatlas.org/methods/) UQ mapping team web site (https://www.rsrc.org.au/globalreef) Detailed mapping methods description by Lyons et al. (https://doi.org/10.1002/rse2.157) Detailed classification scheme description by Kennedy et al. (https://doi.org/10.1038/s41597-021-00958-z) Detailed reference creation description workflow by Roelfsema et al. (https://doi.org/10.3389/fmars.2021.643381) <b>Funding:</b> Vulcan Inc., (https://vulcan.com) Great Barrier Reef Foundation (https://www.barrierreef.org/) <b>Acknowledgement:</b> This work was initiated and funded primarily through Paul Allen Philanthropies and Vulcan Inc. as part of the Allen Coral Atlas. We acknowledge the late Paul Allen and Ruth Gates for their fundamental vision and drive to enable us to work together on this critical reef mapping problem. Project partners providing financial, service and personnel include: Planet Inc., National Geographic, University of Queensland, Arizona State University, and University of Hawai'i. Significant support has also been provided by Google Inc., Great Barrier Reef Foundation, and Trimble (Ecognition). Contributors to establishing and running the project include: Vulcan Inc. [James Deutsch, Lauren Kickam, Paulina Gerstner, Charlie Whiton, Kirk Larsen, Sarah Frias Torres, Kyle Rice, Eldan Goldenberg, Janet Greenlee]; Planet Inc. [Andrew Zolli, Trevor McDonald, Joe Mascaro, Joe Kington]; University of Queensland [Chris Roelfsema, Stuart Phinn, Emma Kennedy, Mitch Lyons, Nicholas Murray, Doddy Yuwono, Dan Harris, Eva Kovacs, Rodney Borrego, Meredith Roe, Jeremy Wolff, Kathryn Markey, Alexandra Ordonez, Chantal Say, Paul Tudman]; Arizona State University [Greg Asner, Dave Knapp, Jiwei Li, Yaping Xu, Nick Fabina, Heather D'Angelo]; and National Geographic [Helen Fox, Brianna Bambic, Brian Free, Zoe Lieb] and Great Barrier Reef Foundation [Petra Lundgren, Kirsty Bevan, Sarah Castine]. Attributions of contributed field data or maps for the reference sample creation are available at: https://allencoralatlas.org/attribution/
DOI: 10.6084/m9.figshare.24274840.v2
title: Appendices_Marjanovic review.docx

description: A systematic review of community-based food access strategies in high-income countries was undertaking, including studies of randomised controlled trial design. These appendices include a full search strategy for one of the included electronic databases within this review (appendix 1), a flow diagram of the selection of studies in the review (appendix 2), a summary table of the studies included in the review (appendix 3), and a risk of bias rating scoring table of the studies included in the review (appendix 4)
DOI: 10.17632/9gtr2j38j7
title: Data for: Seasonal and event-based concentration-discharge relationships to identify catchment controls on nutrient export regimes

description: The water quality parameters included in this database were nitrate (NO3-), total phosphorus (TP) and soluble reactive phosphorus (SRP). From approximately 10 000 water quality stations present in the French national public database (http://www.naiades.eaufrance.fr/), we selected the stations meeting all the following criteria: i) C station can be paired with a Q station (data from http://www.hydro.eaufrance.fr/) when their catchments share at least 90% surface area; ii) all C catchments are independent; iii) C data contains at least 50 observations after outliers removal (i.e. values over 200 mgN L-1 and 5 gP L-1) over the period 2008-2015; iv) at least 30% of C observations occurred during “major” hydrological events (defined here as Q(t) &gt; 1.5 x Q_baseflow); v) trends on C are non-significant over the period (p-value of Sen’s Slope test &gt; 0.05, following Hipel and McLeod (2005)). Finally, stations where a single concentration value was observed more than 15% of the time were removed from the selection, a situation often seen in P surveys when concentrations are below quantification limits. This resulted in 219 unique catchments with respectively 179, 138 and 107 individual time series for NO3-, TP and SRP.
DOI: 10.6084/m9.figshare.13308428.v1
title: Emergence and evolution of social networks through exploration of the Adjacent Possible

description: The APS, APS_subsamples, MPC and TWT folders in the out directory contain the aggregated data used to produce all the figures of the paper. The TMN_data_01_09 and APS_aff_data_ISI_original contain the raw data of the interactions on the two platforms.<br><br><br>The other_measures contains the pickles and data used to produce the topology and community figures. <br>To find the code and the notebooks used to generate the figures please refer to https://github.com/ubi15/pyUrns