cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.57935/agr.24069489.v1
title: Natural enemies associated with <i>Silybum marianum</i> (variegated thistle) and the potential for biocontrol

description: This dataset is provided as a supplementary material for the paper (entitled: Potential for biocontrol of <i>Silybum marianum</i> (variegated thistle): 1. Survey of natural enemies in New Zealand) published in New Zealand Entomologist, February 2024.<i>Silybum marianum</i> (L.) Gaertner (variegated thistle, milk thistle) is one of the worst weeds of hill country pasture in the east coast regions of New Zealand. As part of an initial investigation into the potential for biocontrol, a survey of the phytophagous insects associated with <i>S. marianum</i> in New Zealand was carried out at 16 populations from 29 November to 16 December 2021. Phytophagous associations were determined by collecting insects on the plant and by seedhead dissections. The species collected were grouped into three categories: ‘specialists’, ‘generalists’, and ‘tourists’ that comprised 27.4%, 66.3%, and 6.3% of the total number of specimens collected, respectively. The specialist group was almost entirely comprised of the seedhead weevil, <i>Rhinocyllus conicus</i> (Frölich). While adults of <i>R. conicus</i> were commonly collected on variegated thistle, only 6.5% of seedheads contained larvae of the weevil, indicating that <i>S. marianum</i> is not a common developmental host. Generalist species commonly collected on <i>S. marianum</i> included: <i>Nysius caledoniae</i> Distant, <i>Rhypodes clavicornis</i> (F.), <i>Closterotomus norwegicus</i> (Gmelin) and <i>Nezara virdula</i> (L.). Overall, the field surveys document low levels of attack from generalist herbivores and minimal attack by the specialist weevil, <i>R. conicus</i>. In the native range of Europe there are at least 41 insects and 12 fungi sufficiently specialised to be considered for biocontrol. Vacant niches are present on the weed in New Zealand, providing a strong case for introducing specialised biocontrol agents.
DOI: 10.6084/m9.figshare.5718421.v1
title: Scale insects (Hemiptera: Coccoidea) associated with arabica coffee and geographical distribution in the neotropical region

description: ABSTRACT Coffee is one of the most important Brazilian agricultural commodities exported, and Minas Gerais and Espírito Santo States are the main coffee producers. Scale insects are important coffee pests, and 73 species of Cerococcidae (3), Coccidae (18), Diaspididae (6), Eriococcidae (1), Ortheziidae (3), Pseudococcidae (21), Putoidae (2) and Rhizoecidae (19) have been associated with roots, branches, leaves, flowers and fruits of Arabica coffee in the Neotropics. Eight species were found associated with Arabica coffee in Minas Gerais and Espírito Santo States in this study, and Coccidae was the most frequent family. Coccus alpinus, Cc. celatus, Cc. lizeri, Cc. viridis, and Saissetia coffeae (Coccidae) were found in both states; Alecanochiton marquesi, Pseudaonidia trilobitiformis (Diaspididae), and Dysmicoccus texensis (Pseudococcidae) were only found in Minas Gerais. Alecanochiton marquesi and P. trilobitiformis are first reported in Minas Gerais, and Cc. alpinus in Espírito Santo, on Arabica coffee. All scale insect species were associated with coffee leaves and branches, except D. texensis, associated with coffee roots. Fourty seven scale insect species have been found occurring in Brazilian Arabica coffee, and in Espírito Santo (28) and Minas Gerais (23). Widespread and geographical distribution of each species found are discussed.
DOI: 10.6084/m9.figshare.28195430.v1
title: Dataset

description: This study aims to confirm the validity and reliability of the Turkish version of the 10-Item Duke Social Support Index (DSSI-10) in a general adult Turkish population using the gathered data. A total of 732 respondents who were above 18 years old in the general population.
DOI: 10.6084/m9.figshare.951967.v9
title: The dataset of six open source Java projects

description: This dataset contains bug reports, commit history, and API descriptions of six open source Java projects including Eclipse Platform UI, SWT, JDT, AspectJ, Birt, and Tomcat. This dataset was used to evaluate a learning to rank approach that recommends relevant files for bug reports.
DOI: 10.17632/2r9h9xzwm3
title: Universal cancer tasks, evolutionary tradeoffs, and the functions of driver mutations

description: Input data files as well as scripts to reproduce the analyses. To use, download all the files into a single directory, unzip all the zip files, and check the README.TXT file.
DOI: 10.6084/m9.figshare.14405894.v1
title: Data underlying genome-wide association study for bone traits in commercial layer hens in two different housing systems

description: 01_genotypes.txt -- SNP chip genotypes in tab separated text.02_phenotypes.txt -- trait values and covariates, including body mass, bone strength, QCT and thermogravimetric phenotypes in tab separated text.03_phenotype_names.txt -- Associates column names in phenotype file with trait names used in paper.04_map.map -- Position of markers on (GRCg6a) in a Plink-style map file.<br>
DOI: 10.6084/m9.figshare.7605425.v1
title: panel.CP3.json

description: JSON file for candidate panel 3, mapping variant to list of resistant drugs, in the format required when running mykrobe.
DOI: 10.17632/73xj2dx44k
title: Coherent Maps Data

description: All data is in either MATLAB .mat format or images in .TIF format. Data includes processed neuronal activity derived from single-photon calcium imaging in mice, as well as positional information while mice explore one of two arenas. Folder names indicate the name of the arena, their chronological order within a day, and the arena rotation (or not) from the standard configuration on the first session of day 1 and day 2 (e.g. "2 - octagon 90CW" indicates that folder contains data from the second session recorded in the octagon arena and that the arena was rotated 90 degrees clockwise). NeuronROIs.mat: contains neuron ROIs for a given session recorded using calcium imaging. Pos_align.mat: position data (x_adj_cm and y_adj_cm) in centimeters aligned to imaging data. PSAbool = putative spiking activity (rows = neurons, columns = timestamps), RawTrace and LPtrace are the same as PSAbool but for full calcium traces and low-pass filtered calcium traces. ICmovie_min_proj.tif: minimum projection of imaging movie for a given session, used for image/neuron registration between sessions.
DOI: 10.6084/m9.figshare.14060501.v1
title: PRISMA checklist for ‘‘The effects of lactic acid bacteria and yeasts as probiotics on the growth performance, relative organ weight, blood parameters, and immune responses of broiler: A meta-analysis

description: PRISMA checklist for ‘‘The effects of lactic acid bacteria and yeasts as probiotics on the growth performance, relative organ weight, blood parameters, and immune responses of broiler: A meta-analysis.
DOI: 10.17632/tddz9xcsyn
title: Raman Spectra for precursor GO material and rGO aerogels

description: This repository shows the full set of Micro-Raman spectroscopy readings gathered for dried Graphene Oxide (GO) films, and reduced Graphene Oxide (rGO) aerogels. This repository is being made for reference in a publication. The data in the repository includes the raw raman spectra gathered, the background subtracted spectra, the curve fittings, and comparison of the readings gathered with one another to show their consistency. The file type used is .opju, for use in OriginPro graphing software.
DOI: 10.6084/m9.figshare.22273504.v1
title: Psychosocial factors-Academic achievement-demographics.sav

description: With the objective of determining the impact that academic anxiety, self-concept, academic social skills, academic skills practice and motivation have on first-year university students' academic achievement, data were collected using adapted instruments. Anxiety measure started out as a forty-piece complete instrument, but after pilot testing, it was cut down to twenty-one. Then, one comprehensive anxiety instrument that covered all these bases was created. The other instruments have undergone similar validation procedures. The results led to the reduction of items based on their factor loading coefficients, which were.3. In this regard, academic self-concept was reduced from an 18-piece complete instrument to 13 after pilot testing, as were motivation (i.e., a mix of items from intrinsic and extrinsic motivation), academic skills practice (i.e., a mix of items from conventional learning kills and advanced study skills), and academic social skills (i.e., a mix of items from social initiation and cooperation). The internal consistency of each item was investigated using the inter-item to total correlation and Cronbach alpha approaches. On the other hand, the academic achievement results of students throughout the course of the previous two semesters were taken into consideration. The registrars and the students themselves provided data for the study. Along with receiving training on the tools used to collect data, research assistants also received information on how to approach individuals and obtain their informed consent. When they were gathering the data, they each made an effort to address questions and confusions. Every participant was completely free to choose whether to take part in the study or not. It was a thoroughly administered self-report given face-to-face and spent over the course of 20 to 30 minutes with each participant completing the response.
DOI: 10.6084/m9.figshare.28608497.v1
title: Prevalence of Influenza A and B and Respiratory Syncytial Virus Infections Before and After COVID-19 Pandemic in the Pediatric Population in Lebanon- A Retrospective Study

description: Seasonal influenza and RSV outbreaks cause considerable morbidity and mortality in the pediatric population worldwide. The COVID-19 pandemic has changed virus epidemiology. Until today, it is still unclear how this pandemic affected the transmission of common respiratory viruses. The present study aimed at comparing the prevalence of RSV and influenza A/B infection before and after the COVID-19 pandemic in the Lebanese pediatric population.
DOI: 10.6084/m9.figshare.3556905.v1
title: Appendix D. Recapture rates and distances moved for 41 recaptured species.

description: Recapture rates and distances moved for 41 recaptured species.
DOI: 10.17632/f2jt9sfxmf
title: 3D Printed Polylactic Acid - Hemp Fiber Composites: Mechanical, Thermal, and Microcomputed Tomography Data

description: Hemp fiber was used untreated and treated with sodium hydroxide or (3-aminopropyl)triethoxysilane (APTES) as an additive in polylactic acid (PLA) for fused filament fabrication (FFF) of tensile test specimens. Composites granules were produced by solvent processing with 10 wt. % of hemp fiber to use as feedstock for the extrusion of filaments compatible with commercial FFF printers. The dataset shows the thermal properties of the various composites, which were used to determine the appropriate temperatures required for extrusion of filaments and FFF printer settings. Microcomputed tomography imaging was performed and tensile mechanical properties of FFF-printed tensile test specimens were determined as a function of hemp fiber surface treatment. The data provides an assessment of the use of minimally processed hemp fiber as a filler or mechanical enhancer of thermoplastic materials for additive manufacturing. The database is organized into five folders. The folder "Digital Camera Images" contains a JPEG image of the hemp fiber used for this dataset. "DSC" contains a .xlsx file containing the DSC data for each granule produced. "Microcomputed Tomography" contains two zip files containing .tiff files of the tomography images of a FFF printed APTES-treated hemp - PLA tensile specimen in 8bit and 16bit formats. A .mp4 movie of the 3D volume is also included in this folder. Six optical microscope images taken at 40X magnification in .jpg format and a .xlsx file of 100 hemp diameter measurements are within the folder "Optical Microscopy". The folder "Tensile Mechanical Data" contains a .xlsx file with the tensile mechanical data for each of the FFF-printed tensile test specimens produced.
DOI: 10.17632/w2ccbkdwtk
title: Data for: A distributed-consensus mechanism of decision making explains economically irrational behaviours

description: I use the IPython Notebook to illustrate interactively the 'distributed-consensus' mechanism of decision making, which I present theoretically in the submitted paper
DOI: 10.6084/m9.figshare.14922984.v1
title: Supplementary Material for: Comparison of Associations between One-Carbon Metabolism, Lipid Metabolism, and Fatty Liver Markers in Normal-Weight and Overweight People Aged 20–40 Years

description: The aim of the present study was to compare biomarkers of one-carbon metabolism (OCM), lipid metabolism, and fatty liver in people with normal and increased body weight. The study was performed on 421 participants, aged 20–40 years, enrolled in Poznan, Poland, in 2016–2018. Choline and betaine intakes were assessed. DNA samples were genotyped for polymorphisms of phosphatidylethanolamine N-methyltransferase (<i>PEMT</i>; rs7946 and rs12325817), methylene tetrahydrofolate reductase (<i>MTHFR</i>; rs180113), methylenetetrahydrofolate dehydrogenase (<i>MTHFD1</i>; rs2236225), and dihydrofolate reductase (<i>DHFR</i>; rs70991108). To assess the associations between blood metabolites (choline, betaine, folate, L-carnitine, o-acetyl-L-carnitine, and trimethylamine N-oxide]), circulating lipids, and fatty liver indices, multiple logistic regression analyses were performed. Overweight/obese participants had 5.8% higher choline (<i>p</i> &lt; 0.05) and 10% higher L-carnitine (<i>p</i> &lt; 0.001) levels than normal-weight subjects. Serum folate and betaine levels were associated with lower total cholesterol (<i>p</i> &lt; 0.001 and <i>p</i> &lt; 0.05), low-density lipoprotein (LDL) cholesterol (<i>p</i> &lt; 0.001 and <i>p</i> &lt; 0.05, respectively), triacylglycerols (<i>p</i> &lt; 0.01 and <i>p</i> &lt; 0.001), and triglyceride glucose index (<i>p</i> &lt; 0.001 and <i>p</i> &lt; 0.01, respectively), though only in overweight/obese people. The <i>PEMT</i> rs12325817 CC genotype was associated with higher levels of high-density lipoprotein (HDL) cholesterol (<i>p</i> &lt; 0.01) in overweight/obese people. The associations between OCM markers, fatty liver indices, and blood lipids differ in subjects with normal and excessive body weight.
DOI: 10.17632/v2cxt5nm9f
title: Part 11 of data for Elizondo et al Adipose Tissue Macrophage Transglutaminase 2 and the Inflammation of Diet-Induced Obese Male Mice

description: Part 11 of data for Elizondo et al Adipose Tissue Macrophage Transglutaminase 2 and the Inflammation of Diet-Induced Obese Male Mice. RNAseq analysis data, continued
DOI: 10.6084/m9.figshare.16777963.v2
title: SuppFigure6_ephys_data.mat

description: Ephys data shown in supp figure 6
DOI: 10.6084/m9.figshare.5632633.v1
title: Fungal Infections in Acute Myeloid Leukemia

description: 在接受誘導化療的患者中，我們建議確定發生IFI的高風險人群，這將導致有針對性的預防。<br>
DOI: 10.6084/m9.figshare.12513986.v1
title: Supplementary Material for: Investigation of the Relationship between MR-Based Supraclavicular Fat Fraction and Thyroid Hormones

description: <b><i>Purpose:</i></b> Brown adipose tissue (BAT) plays a potential role in energy and glucose metabolism in humans. Thyroid hormones (TH) are main regulators of BAT development and function. However, it remains unknown how the magnetic resonance (MR)-based proton density fat fraction (PDFF) of supraclavicular adipose tissue used as a surrogate marker for BAT presence relates to TH. Therefore, the purpose of this analysis was to investigate the relationship between supraclavicular PDFF and serum levels of TH. <b><i>Methods:</i></b> In total, 96 adult volunteers from a large cross-sectional study who underwent additional MR examination of the neck and pelvis were included in this analysis. Segmented PDFF maps of the supraclavicular and gluteal subcutaneous adipose tissue were generated. Delta PDFF was calculated as the difference between gluteal and supraclavicular PDFF and grouped as high (≥12%) or low (&lt;12%) based on the median and the clinical rationale of a high versus low probability of BAT being present. Thyroid-stimulating hormone (mIU/L), free triiodothyronine (FT3, pg/mL) and free thyroxine (FT4, ng/dL) levels were determined in blood samples. Body mass index (BMI) was calculated as weight (kg)/height (m)<sup>2</sup>. Statistical analyses included the use of paired samples <i>t</i>test, simple linear regression analysis and a multivariable linear regression analysis. <b><i>Results:</i></b> The median age of the subjects (77% female) was 33 years, BMI ranged from 17.2 to 43.1 kg/m<sup>2</sup>. Supraclavicular and gluteal PDFF differed significantly (76.5 ± 4.8 vs. 89.4 ± 3.5 %, <i>p</i> &lt; 0.01). Supraclavicular PDFF was associated with FT3 in subjects with high delta PDFF (<i>R</i><sup>2</sup> = 0.17, <i>p</i> &lt; 0.01), with higher FT3 being associated with lower supraclavicular PDFF (<i>y</i> = 85.2 + –3.6 <i>x</i>). In a multivariable linear regression analysis considering further potential prognostic factors, the interaction between the delta PDFF group and FT3 remained a predictor for supraclavicular PDFF (B = –4.65, <i>p</i> &lt; 0.01). <b><i>Discussion/Conclusions:</i></b> Supraclavicular PDFF corresponds to the presence of BAT. In the present analysis, supraclavicular PDFF is correlated with FT3 in subjects with high delta PDFF. Therefore, the present findings suggest that biologically active T3 may be involved in the development of supraclavicular BAT.
DOI: 10.17632/3hvttt7rgy
title: Related data and codes for: Subslab ultra low velocity anomaly uncovered by and facilitating the largest deep earthquake

description: Broadband seismic data , synthetic data and related codes used for analysis of 2013 Sea of Okhotsk Mw8.3 deep earthquake
DOI: 10.17632/sc9ftvtcxn
title: Photochemistry after fire: Structural transformations of pyrogenic dissolved organic matter elucidated by advanced analytical techniques

description: Nuclear Magnetic Resonance (1D 1H and 2D 1H-1H TOCSY) and ultrahigh resolution mass spectrometry (FT-ICR-MS) data for pyrogenic dissolved organic matter before and after photo-irradiation. Full materials and methods, as well as interpretations, can be found in the corresponding manuscript (citation and DOI below). 

Goranov, A.I., Wozniak, A.S., Bostick, K.W., Zimmerman, A.R., Mitra, S. and Hatcher, P.G. (2020) Photochemistry after fire: Structural transformations of pyrogenic dissolved organic matter elucidated by advanced analytical techniques. Geochim Cosmochim Ac 290, 271-292. doi: 10.1016/j.gca.2020.08.030
DOI: 10.6084/m9.figshare.21400044.v1
title: Raw data excel and report

description: Lyophilised GFP exosome reference standard provided by ISEVxTech from Merck (Exosome standards, fluorescent recombinant, expressed in human cells | Sigma-Aldrich (sigmaaldrich.com)). <br> Unless otherwise mentioned all samples and standards had data acquired over one minute and where water is used as a diluent it is HPLC grade water. Lyophilized Merck rEV’s resuspended in 100µl of water then placed on ice (all subsequent sample handling performed on ice as per manufacturer instruction). 2.17E+10 particles per ml (P/ml) QC beads diluted 1 in 100 with water to a volume of 100µl. Used to align Nanoanalyzer and create the concentration standard used to assess the samples. Size bead cocktail (68nm, 91nm, 113nm and 155nm) of silica nanospheres diluted 1 in 100 to a volume of 100µl with water then analysed to create the size standard (figure 1). 100µl TE buffer was analysed in order to provide a blank for the samples. Samples were serially diluted 1 in 25, 1 in 50 and 1 in 100 dilutions with TE buffer then immediately analysed in triplicate. Data analysis performed using the nFCM professional software, files saved in FCS. format with associated PDF reports found on Figshare.
DOI: 10.6084/m9.figshare.25260109.v1
title: Supplementary Material for: Gestational Age-Related Urinary Peptidome Changes in Preterm and Term Born Infants

description: <b><i>Introduction:</i></b> Preterm infants are at risk for a variety of somatic and neurological disorders. In recent years, biofluid proteomics has emerged as a potential diagnostic tool for biomarker analysis. The aim of this study was to determine gestational age (GA)-related patterns of the urinary peptidome in preterm infants for researching potential novel prognostic biomarkers. <b><i>Methods:</i></b> We performed urinary peptidomics in longitudinal samples of 24 preterm (mean GA weeks 28 + 1 [24+1–31 + 6]) and 27 term born controls (mean GA weeks 39 + 2 [37+0–41 + 1]) using capillary electrophoresis combined with mass spectrometry (CE-MS). Peptides were sequenced using CE-MS/MS or LC-MS/MS analysis and were deposited, matched, and annotated in a Microsoft SQL database for statistical analysis. We compared their abundance in urine of preterm and term born infants and performed a validation analysis as well as correlations to GA and clinical risk scores. <b><i>Results:</i></b> Our results confirmed significant differences in the abundance of peptides and the hypothesis of age-dependent urinary peptidome changes in preterm and term infants. In preterm infants, <i>SLC38A10 (solute carrier family 38 member 10)</i> is one of the most abundant peptides. Combined urinary peptides correlated with clinical risk scores (<i>p</i> &lt; 0.05). <b><i>Conclusion:</i></b> This is the first study reporting GA-related urinary peptidome changes of preterm infants detected by CE-MS and a modulation of the peptidome with GA. Further research is required to locate peptidome clusters correlated with specific clinical complications and long-term outcome. This may identify preterm infants at higher risk for adverse outcome who would benefit from early intervention.
DOI: 10.17632/p5b45mx4c4
title: 3D LiDAR and Photogrammetry Scans of a Stilt House in Tai O Village - 2022 - Case 539775

description: This data includes a point cloud file from a combined photogrammetric and LiDAR scan of a stilt house in Tai O Village. The house is designated "Case 539775" in the research project record. Researchers collected the scan using a single, approximately 10 minute walk-through of the house with the Leica-brand BLK2Go model 3D environment scanner. The scan describes the interior and partial exterior of a stilt house in high detail and color. The scan has been decimated to a voxel size of 5 mm to reduce file size. The data provides clear enough rendering of the physical conditions of the house to allow interpretation of the scan into description of the house's construction, contents, and spatial use. The data is available under embargo of one year to protect the personal information of residents of the house, provided for purposes of digital conservation of the building, and for interpretation of the house's physical conditions and interior contents through further research. More detailed information on the dataset, including the date the scan was conducted, the location of the house, and related interview and survey datasets are available upon reviewed request.
DOI: 10.17632/f8gvnh6d63
title: Paclitaxel mice models raw data

description: Data refer to the behavioral and neurophysiological assessments performed in 2 different mice models obtained with the administration of 70 mg/kg i.v. weekly for 4 times (Study 1) vs. 10 mg/kg every 2 days for 7 times (Study 2).