cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14055413.v1
title: Source data for "Observation of superdiffusive phonon transport in aligned atomic chains" (https://doi.org/10.1038/s41565-021-00884-6)

description: Data for Fig.2 and Fig.3 of the paper "Evidences of superdiffusive phonon transport in aligned atomic chains". <br>Fig 2.(a) Measured room temperature k versus Dh. (b) Normalized room temperature k versus the normalized suspended length. (c) Measured k versus suspended length at different temperatures (30, 100 and 300 K). (d) Temperature dependence of k for different diameter wires (the suspended lengths are ~15 μm for all samples).<br>Fig 3. (a) Force-deflection curves in the bending test, together with the fitting curve. (b) Measured E versus Dh. (c) The modeled kl and the experimental data show the same trend as E increases. (d) Comparing the phonon-phonon scattering rate at different E ratio. (e) Calculated phonon mode dependent ratio of Umklapp/Normal scattering rate with E/Ebulk =1 and 6.<br>
DOI: 10.6084/m9.figshare.28560005.v1
title: CBSV Study Data_25.02.24- to Dr Hormenu.xlsx

description: Data is about the surveillance and the knowledge level of community based surveillance volunteers on priority diseases
DOI: 10.6084/m9.figshare.21498198.v1
title: Megahit co-assembled final contigs

description: Megahit co-assembled contigs from SRA archelogical datasets predicted to contain Clostridium tetani DNA based on SRA STAT analysis
DOI: 10.17608/k6.auckland.28801265.v1
title: <b>Using a ‘one strain-many compounds’ (OSMAC) approach to screen a collection of diverse fungi from Aotearoa New Zealand for antibacterial activity against </b><b><i>Escherichia coli</i></b>

description: This dataset comprises information on the anti-<i>E. coli</i> activity (measured as zones of inhibition) of 32 fungal isolates grown on seven different media. Fungi were provided by Manaaki Whenua—Landcare Research from the International Collection of Microorganisms from Plants (ICMP) (https://www.landcareresearch.co.nz/tools-and-resources/collections/icmp-culture-collection/). A detailed protocol is available on protocols.io (1). Briefly, we grew each fungal isolate on either Potato Dextrose Agar (PDA), Czapek Solution Agar (CSA), Czapek Yeast Extract Agar (CYA), Malt Extract Agar (MEA), Oatmeal Agar (OA), Rice Extract Agar (REA), and Water Agar (WA) at room temperature until they had grown to cover 20, 50, and 100% of a 90 mm Petri dish (where possible). At each coverage, we used a 6 mm punch biopsy tool (Paramount, Capes Medical, New Zealand) to remove plugs from the growing edge of each fungus. These were placed fungus side down onto Petri dishes of the corresponding media inoculated with a lawn of overnight-grown <i>E. coli</i> ATCC 25922 lux (2) diluted in Mueller Hinton broth to an optical density at 600 nm of 0.01. Plates were incubated at 37 °C overnight, after which we measured the diameter of any zones of inhibition in mm. We also converted the measured diameter into an activity score (0 = 6 mm [the diameter of the fungal plug]; 1 = 7-10 mm; 2 = 11-15 mm; 3 = &gt;15 mm). Data is provided as the zone of inhibition in mm alongside the activity score. References:<b>van de Pas S, Wiles S</b>. Measuring fungal anti-E. coli activity using the zone of inhibition (ZOI) assay. <i>protocols.io</i>. https://www.protocols.io/view/measuring-fungal-anti-e-coli-activity-using-the-zo-ccwwsxfe<b>Robertson J, Gizdavic-Nikolaidis M, Swift S</b>. Investigation of Polyaniline and a Functionalised Derivative as Antimicrobial Additives to Create Contamination Resistant Surfaces. <i>Materials</i> 2018;11:436.
DOI: 10.6084/m9.figshare.19722427.v1
title: Supplementary Material for: M1 Macrophages Increase Endothelial Permeability and Enhance p38 Phosphorylation via PPAR-γ/CXCL13-CXCR5 in Sepsis

description: <b><i>Purpose:</i></b> Vascular endothelial hyperpermeability and barrier disruption are involved in the initiation and development of sepsis. M1 macrophages promote inflammation in sepsis by releasing pro-inflammatory cytokines and chemokines. This study was designed to investigate the functional relationships between M1 macrophages and human umbilical vein endothelial cells (HUVECs), as well as the underlying molecular mechanisms. <b><i>Methods:</i></b> HUVECs were co-cultured with THP-1-derived M1 macrophages pretreated with or without rosiglitazone (RSG), a peroxisome proliferator-activated receptor (PPAR)-γ agonist. C-X-C chemokine receptor type (CXCR)5 was knocked down by short hairpin RNA lentivirus. Cecal ligation and puncture were used to induce sepsis in a mouse model. Endothelial permeability was evaluated using transendothelial electrical resistance and fluorescein isothiocyanate (FITC)-dextran assays. <b><i>Results:</i></b> Chemokine ligand (CXCL)13 was upregulated in M1 macrophages than M0 macrophages, as well as in the culture medium. In HUVECs co-cultured with M1 macrophages, transendothelial electrical resistance decreased, FITC-dextran flux increased, p38 phosphorylation was strengthened, and the expression of tight junction proteins (zonula occludens protein-1, occludin, and claudin-4) decreased. CXCR5 RNA interference or RSG pretreatment partially reversed these effects. A luciferase reporter assay revealed that CXCL13 was a direct target of PPAR-γ. RSG treatment decreased serum levels of creatinine, blood urea nitrogen, CXCL13, tumor necrosis factor-α, and interleukin-6, downregulated CXCL13 in peritoneal macrophages, and enhanced the survival rate of sepsis mice. <b><i>Conclusion:</i></b> M1 macrophages induced endothelial hyperpermeability and promoted p38 phosphorylation in sepsis by inhibiting PPAR-γ to increase CXCL13 production. PPAR-γ/CXCL13-CXCR5 signaling could be a promising novel therapeutic target for sepsis.
DOI: 10.6084/m9.figshare.28667399.v1
title: Supplementary Material for: Transition between pediatric and adult diabetes healthcare services: an online global survey of experiences and perceptions of young people with diabetes and their carers

description: Introduction
Young adults with diabetes face many challenges during emerging adulthood. Our study aimed to identify the experiences and perceptions of people with diabetes (PwD) (aged 14-25 years) and their carers around transition planning and the actual transfer from pediatric to adult diabetes healthcare services.
Methods
Data were collected via an online global survey (seven language options), broadly advertised by the scientific societies ISPAD, EASD, patient advocates, team members and partners, via newsletters, websites, e-mails and social media.
Results
There were 146 respondents from 29 countries. Of these, 90(61.6%) were PwD age 18.5(±3.6 years), diagnosed at 9.0(±4.4 years) and 56 (38.3%) carers. Respondents receiving care in pediatric units (vs. adult) (58.2%) had higher care satisfaction and more frequent appointments (p&lt;0.05); 65.1% of respondents reported a fixed transfer age ( ≥18 years). Overall, 45.2% detailed transfer-related concerns; 44.3% felt their psychosocial needs were adequately addressed, 24.7% felt unprepared for areas of self-management. Combined pediatric and adult diabetes clinics (56.2%), and psychologist support (50.7%) were most desired.
Conclusion 
Findings highlight the urgent need to improve the transition process. A joint ISPAD, EASD, and ADA consensus report is in preparation.
DOI: 10.6084/m9.figshare.3811251.v2
title: Differential abundance analysis workflow (16S rRNA gene profiling data) - Example

description: In order to test for the differential abundance of taxa that may drive the differences observed between inferred microbial communities derived from the different DNA isolation procedures, we performed DESeq2 analyses. Here we provide an example for such an analysis from human fecal specimen, examined using 16S rRNA gene profiling. This workflow relates to the article: <br>Berith E. Knudsen, Lasse Bergmark, Patrick Munk, Oksana Lukjancenko, Anders Priemé, Frank M. Aarestrup, Sünje J. Pamp (2016) Impact of Sample Type and DNA Isolation Procedure on Genomic Inference of Microbiome Composition. <b><i>mSystems</i></b> Oct 2016, 1 (5) e00095-16; DOI: 10.1128/mSystems.00095-16 http://msystems.asm.org/content/1/5/e00095-16
DOI: 10.17632/9hnjw77mf2
title: Comparative genetic analysis of durum wheat landraces and cultivars widespread in Tunisia

description: A collection of 43 durum wheat accessions including 28 Tunisian landraces, 9 Tunisian cultivars, and 6 international cultivars (Simeto, Mexicali-75, Creso, Iride, Polesine, Lyodl), provided by the National Gene Bank of Tunisia (NGBT), the Research Centre for Cereal and Industrial Crops (CREA-CI), Foggia,  , and Gene Bank of Prague (Czechia) were analysed.
DOI: 10.6084/m9.figshare.26536648.v2
title: Integrating drought warning water level with analytical hedging for reservoir water supply operation

description: Title: Integrating drought warning water level with analytical hedging for reservoir water supply operation (under review)Draft authors: Wenhua Wan, Zongzhi Wang, Liang Cheng, Ying Bai, Wenqi Wang, and Kun Wang<br>Attached files include:1. The long-term operation process of the Danjiangkou Reservoir optimized using the HR-based DP algorithm. Note: The inflow data has been omitted due to confidentiality regulations regarding streamflow observations.2. R codes for the HR-based DP algorithm, the processes deriving seasonal DWWL, and the statistical performance of HR with DWWL during typical drought years.3.R codes for synthetic streamflow and MCI sequence generation.
DOI: 10.6084/m9.figshare.27367917.v1
title: Syn-D-CNN Dataset

description: Text summarization condenses extensive content into concise summaries; however, current approaches often rely on large language models (LLMs), which can lack interpretability and are susceptible to generating hallucinated content. To address these issues, we propose Docusage, an interpretable framework that replicates human summaries through a hierarchical clustering approach combined with extractive summarization, augmented by selective, LLM-based abstraction. Docusage minimizes the risk of hallucinations, ensures contextual relevance, and mitigates the computational costs inherent in leveraging an LLM.<br>Our results show that Docusage aligns closely with journalist-generated summaries, outperforming foundational and specialized models. Additionally, Docusage offers an interpretable framework that is not constrained by context size, ensures transparency regarding the role of extracted sentences within the narrative, and adapts to the style of the training data.
DOI: 10.6084/m9.figshare.5124931.v1
title: Supplementary Material for: Knockdown of PSMB7 Induces Autophagy in Cardiomyocyte Cultures: Possible Role in Endoplasmic Reticulum Stress

description: Proteasomal and autophagic pathways of protein degradation are two essential, endoplasmic reticulum (ER)-associated proteolytic systems involved in the ER stress response. The functional interaction between them has been shown by proteasome pharmacological inhibition. However, little data have been found concerning autophagy induction using an RNA interference approach due to the multisubunit composition of proteolytic systems. We suggested that silencing of single proteasome subunits can induce massive autophagy. <i>Psmb7</i>-specific small interference RNA added to isolated cardiomyocytes significantly affected mRNA expression of essential ER stress marker proteins, including DDIT3/CHOP and HSPA5/GRP78. mRNA expression of the key autophagy regulator MTOR was also increased. These findings were confirmed by single-cell reverse transcription real-time PCR on individual monodansylcadaverine (MDC)-labeled cardiomyocytes. RNA interference that decreased the levels of non-catalytic PSMB7 subunits of the proteasome had no influence on chymotrypsin- and trypsin-like activities, but significantly decreased peptidyl-glutamyl peptide-hydrolyzing activity. Immunohistochemical analysis showed increased levels of LC3-marked vacuoles in the cytoplasm of <i>Psmb7</i>-knockdown cells, and MDC staining showed significantly increased numbers of neonatal cardiomyocytes with autophagic vacuoles. After anoxia-reoxygenation, the number of cells with signs of autophagy after <i>Psmb7</i> gene silencing was higher. Our results indicate that <i>Psmb7</i> knockdown induces ER stress and autophagy in cardiomyocytes, which may be a useful approach to activate specific autophagy.
DOI: 10.17632/tms93yvpjd
title: Efficient hybrid-symbolic methods for quantum mechanical calculations

description: Abstract We present hybrid symbolic–numerical tools to generate optimized numerical code for rapid prototyping and fast numerical computation starting from a computer algebra system (CAS) and tailored to any given quantum mechanical problem. Although a major focus concerns the quantum chemistry methods of H. Nakatsuji which has yielded successful and very accurate eigensolutions for small atoms and molecules, the tools are general and may be applied to any basis set calculation with a variational prin... Title of program: EVAN Catalogue Id: AEVU_v1_0 Nature of problem Develop and showcase general tools for analyzing and solving ab initio quantum chemistry problems, in particular an efficient means of generating an accurate and high performance optimized program for any specific problem. Versions of this program held in the CPC repository in Mendeley Data AEVU_v1_0; EVAN; 10.1016/j.cpc.2015.02.009 This program has been imported from the CPC Program Library held at Queen's University Belfast (1969-2018)
DOI: 10.4121/14237678.v1
title: STORM Climate Change synthetic tropical cyclone tracks

description: Datasets consisting of 10,000 years of synthetic tropical cyclone tracks, generated using the Synthetic Tropical cyclOne geneRation Model (STORM) algorithm (see Bloemendaal et al (2020)). The dataset is generated by extracting the climate change signal from each of the four general circulation models listed below, and adding this signal to the historical data from IBTrACS. This new dataset is then used as input for STORM, and resembles future-climate (2015-2050; RCP8.5/SSP5) conditions. The data can be used to calculate tropical cyclone risk in all (coastal) regions prone to tropical cyclones.<br>Climate change information from the following models is used in this study (each model has its own 10.000 years of STORM data):1) CMCC-CM2-VHR42) CNRM-CM6-1-HR3) EC-Earth3P-HR4) HAdGEM3-GC31-HM<br>See Roberts et al (2020) for more information on these models.
DOI: 10.17632/jwgy8g7xxk
title: Exploring Pre-Service Teachers competencies: Integrating ChatGPT into E-Learning Platforms for Enhanced Professional Development

description: This is the data that contains the post-experiment results of the study. It contains data from control as well experimental groups.
DOI: 10.17632/9x9kf9vwph
title: A dataset of Yellow Disease in Horticultural Plant

description: Yellow disease dataset on red chili, eggplant, and long bean plants offers a collection of leaf images collected in farmers' fields in Bogor Regency, Bogor City, Cianjur Regency, West Java, Indonesia. This data was collected from July 22 to August 9, 2023. This dataset consists of 5,095 leaf images. This dataset consists of plant leaves showing symptoms of yellow disease and healthy plant leaves. This dataset consists of two classes, namely Begomovirus positive and Begomovirus negative. The photos were taken in different fields in the morning with sunny weather conditions, so these images were taken with natural lighting. The ambient temperature when the dataset was collected ranged from 29-31°C. The photos were taken using a cellphone camera with a 13 MP camera specification. The original images were taken in JPG format with varying sizes. The data was converted to 640 * 640 pixels. In addition, the images were annotated based on their class which had been adjusted to the molecular testing results using the polymerase chain reaction (PCR) technique.
DOI: 10.6084/m9.figshare.12985271.v1
title: mRNA sequencing data for skin sample from wounded area taken from PlgRkt-/- mice

description: Burn wounds were introduced to dorsal skin of four PlgRkt-/- mice. Skin samples from the wounded area were collected at day 11 after wounding, RNA was purified and mRNA was sequenced.
DOI: 10.17632/ftt4gppbvv
title: APÊNDICE RAC - Controles informais e cooperação desencadeiam resiliência na dependência de papel em startups?

description: Apêndice - Questionário
DOI: 10.6084/m9.figshare.25066376.v1
title: Data for the submitted manuscript ""Exploring honey bee toxicological data as a proxy for assessing dimethoate sensitivity in stingless bees"

description: The provided data pertains to our study, which focuses on assessing the vulnerability of 15 species of stingless bees (10 genera) and the honey bee<i> Apis mellifera</i> to oral and contact exposure of the organophosphate dimethoate within the context of a 10x safety factor. Adhering to the risk analysis protocols of the Organization for Economic Cooperation and Development (OECD), our research involved bees with diverse biological characteristics inhabiting various geographic distributions, including those of endangered species. Our study also encompasses the development of Species Sensitivity Distribution (SSD) curves, refined through correlations between body weight and dimethoate response. To the best of our knowledge, this research represents the most extensive work in terms of the number of bee species in the field of bee ecotoxicology, covering the largest variety of species and both exposure routes.
DOI: 10.6084/m9.figshare.12673415.v1
title: Cryptocotyle lingua raw transcriptome assembly

description: The paired-end (100bp) Illumina read data from six <i>Cryptocotyle lingua</i> cercaria and rediae libraries (Bio-Project: PRJNA646866; BioSample: SAMN15567434, SAMN15567352; SRA accession: SRR12246812 - SRR12246817) were pooled together and used in the <i>de novo</i> assembly of a reference transcriptome using Trinity (v2.8.6) with strand-specific read orientation and a minimum contig length of 200 bp.<br>
DOI: 10.6084/m9.figshare.4537922.v2
title: A global assessment of climatic niche shifts, and human influence, in insect invasions

description: This file contains descriptions of all the distribution data we used in our study. It includes sources for the distribution data, and maps of the geographic extents employed in the study.<br>See the supplementary 1 PDF file for details.<br>Will add link to paper upon publication.
DOI: 10.6084/m9.figshare.7040171.v1
title: 2014_Woo_DPSP_Pain_Rejection

description: Finished product with complete results and scripts folders pertaining to previously published dataset. This folder acts to supplement 2014_Woo_DPSP_Pain_Rejection_contrast_images by providing an example of a complete analysis pipeline and by demonstrating what contents should be present in the results directory following analysis.<br>The primary paper on this dataset is:<br>Woo, C. W., Koban, L., Kross, E., Lindquist, M. A., Banich, M. T., Ruzic, L., . . . Wager, T. D. (2014). Separate neural representations for physical pain and social rejection. <i>Nature communications, 5</i>, 5380. doi:10.1038/ncomms6380<br>All output were generated with the CANlab help examples second-level batch scripts. See canlab.github.io for more information.<br>
DOI: 10.6084/m9.figshare.14896503.v1
title: Conidial germination and mycelial growth datasets for six entomopathogenic fungi under different temperature

description: Datasets are conidial germination and mycelial growth of six entomopathogenic fungi incubated at 7 different temperatures (degrees Celsius). The conidial germination (percentage) was collected after 18 hours of incubation while mycelial growth (mm/day) was recorded daily for 15 days in laboratory. These dataset are the averages of the five experimental replicates of entomopathogenic fungus and temperature combination.
DOI: 10.6084/m9.figshare.28685309.v1
title: Supplementary Material for: Randomised Trial of Pharmacist Integration in Haemodialysis Teams: Effects on Phosphorus Control and Patient Outcomes

description: Background:
Despite the limited historical engagement of hospital pharmacists in managing blood phosphorus levels, their involvement in this aspect of care for hemodialysis patients remains an underexplored yet potentially promising and effective approach that warrants further investigation. 
Methods:
A prospective, randomized controlled clinical trial was conducted to compare a control group receiving standard care from doctors and nurses with a test group that, in addition to standard care, received medication education and health promotion interventions from pharmacists. This trial is registered at chictr.org.cn, ChiCTR2100044887 and is complete.
Results:
The test group demonstrated a significant reduction in blood phosphorus levels (P = 0.0056) and an improvement in blood calcium levels (P = 0.0238), whereas the control group showed no significant changes. The study also identified several potential high-risk factors for chronic kidney disease, including rural residence (72% of the patients), hypertension (84%), low educational attainment (84%), occupation as farmers or laborers (92%), and low to middle income levels (52%). Conversely, factors such as smoking, alcohol consumption, and marital status were not found to be significant risk factors. The impact of varying health promotion methodologies on biochemical indicators and blood pressure was minimal.
Conclusions:
The integration of pharmacists into the clinical team appeared to contribute to the reduction of blood phosphorus levels and healthcare expenditures, highlighting their pivotal role in the cost-effective, multidisciplinary management of hemodialysis patients. This finding underscores the significant economic and clinical importance of considering pharmacists as valuable members of the healthcare team in efforts to optimize patient outcomes.
DOI: 10.6084/m9.figshare.6854258.v1
title: Supplementary Material for: Internet-Based Cognitive Behavioral Therapy for Chronic Stress: A Randomized Controlled Trial

description: <b><i>Background:</i></b> Prolonged exposure to stress can lead to substantial suffering, impairment and societal costs. However, access to psychological treatment is limited. Internet-based cognitive behavioral therapy (ICBT) can be effective in reducing symptoms of stress, but little is known of its effects in clinical samples. The aim of this study was to investigate the efficacy of ICBT for patients suffering from chronic stress, operationalized as adjustment disorder (AD) and exhaustion disorder (ED). <b><i>Methods:</i></b> A total of 100 adults diagnosed with AD or ED were randomly assigned to a 12-week ICBT (<i>n =</i> 50) or waitlist control condition (<i>n =</i> 50). Primary outcome was the level of perceived stress (PSS). Secondary outcomes included several mental health symptom domains as well as functional impairment and work ability. All outcomes were assessed at baseline, after treatment and at the 6-month follow-up. The study was preregistered at Clinicaltrials.gov: NCT02540317. <b><i>Results:</i></b> Compared to the control condition, patients in the ICBT group made large and significant improvements on the PSS (<i>d =</i> 1.09) and moderate to large improvements in secondary symptom domains. Effects were maintained at the 6-month follow-up. There was no significant between-group effect on functional impairment or work ability. <b><i>Conclusions:</i></b> A relatively short ICBT is indicated to be effective in reducing stress-related symptoms in a clinical sample of patients with AD and ED, and has the potential to substantially increase treatment accessibility. Results must be replicated, and further research is needed to understand the relationship between symptom reduction, functional impairment and work ability.