cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1154006.v3
title: Rat CNS Interactome (Signalling Molecules)

description: To construct the CNS Signaling Molecule Interactome, ARACNe was applied to the Cleaner-normalized expression profile obtained from 8 brain regions believed to be relevant in alcohol’s reinforcing properties using the Affymetrix RN230.2 platform. Specifically, the following brain regions were microdissected and analyzed from nondependent and dependent alcohol self-administering rats as well as age-matched alcohol naive rats: (a) medial prefrontal cortex (MPF), (b) shell and (c) core NAc sub-regions, (d) central nucleus (CeA) and (e) basolateral nucleus of the amygdala (BLA), (f) dorsolateral and (g) ventral bed nucleus of the stria terminalis (BNST), and (h) ventral tegmental area (VTA). Signaling Molecules (Sigs), were defined as rat genes annotated in the GO Biological Process database as: ‘signal transduction’ and in the GO Cellular Component database as GO:0005622 – ‘intracellular’ or GO:0005886 – ‘plasma membrane’. This produced a final list of 2,842 genes from which 1,101 were present on the Cleaner-mapped expression profile. ARACNe was run using the adaptive partitioning algorithm, which selects the optimal kernel width for calculating the MI threshold of a specified p-value. The MI threshold used by the adaptive partitioning algorithm (MI ≥ 0.43795) corresponded to the p-value threshold of 10-8 after 100 bootstrap runs, and the resulting CNS signaling molecule interactome contained 154,785 statistically significant MIs between 7,018 genes.
DOI: 10.6084/m9.figshare.1600984.v2
title: Ranking de confianza en las encuestas electorales

description: Propuesta de debate para establecer un ranking de confianza en las encuestas electorales.
DOI: 10.6084/m9.figshare.3512681.v1
title: Appendix A. An overview of species and their frequency of occurrence in pooled transects and centers of organic and conventional fields.

description: An overview of species and their frequency of occurrence in pooled transects and centers of organic and conventional fields.
DOI: 10.6084/m9.figshare.1488680.v1
title: Directions to Quin

description: These are directions to the play Quin; a commentry, or footnote, to Beckett's play Quad, written as part of a lecture / performance of Quad staged by Pan Pan Theatre Company at the Edinburgh Festival in 2013 and the Dublin Dance Festival in 2014.
DOI: 10.6084/m9.figshare.21624162.v1
title: Drillhole SR13/2 in-situ Rb–Sr shale geochronology (Sturt Formation)

description: This dataset contains 'normal' and 'inverse' isochron Rb/Sr & Sr/Sr ratio data for the investigation of geochronolgy on shale/silt units of the Sturt Formation in SA drillhole SR13/2. Trace element and standards data is provided as well.
DOI: 10.6084/m9.figshare.5122477.v1
title: Supplementary Material for: Progesterone Level Predicts Serotonin-1A Receptor Binding in the Male Human Brain

description: <i>Background:</i> Progesterone (P) is thought to influence mood and affective states. Alterations of the inhibitory serotonin-1A (5-HT<sub>1A</sub>) receptor distribution are associated with depression and anxiety. This study evaluates the influence of plasma P levels on the 5-HT<sub>1A</sub> receptor binding in healthy male subjects. <i>Methods:</i> Molecular neuroimaging of the 5-HT<sub>1A</sub> receptor distribution using positron emission tomography and hormone assays for total plasma P and cortisol were done in a sample of 18 healthy men. <i>Results:</i> Plasma P levels explained up to 65% of the variability in 5-HT<sub>1A</sub> receptor binding in limbic regions including the amygdala, orbitofrontal cortex and retrosplenial cortex. When controlling for cortisol in the model, there was an expected decline in explained variances of 5-HT<sub>1A</sub> binding attributed to P. <i>Conclusions:</i> The results of this study provide further support for the effect of P on 5-HT<sub>1A</sub> receptor expression and raise the possibility that P mediates the vulnerability to mood disorders by affecting the serotonergic system.
DOI: 10.6084/m9.figshare.24993570.v2
title: Table S1.docx

description: <b>Table S1. Primers used for PCR.</b>
DOI: 10.6084/m9.figshare.28387712.v1
title: Genomic analysis of <i>Legionella pneumophila</i> in the drinking water system of a large building over 25 years

description: Supplementary material for 'Genomic analysis of <i>Legionella pneumophila</i> in the drinking water system of a large building over 25 years', as described in Microbial Genomics.<b>Annotation (.gff) of 150kb plasmid identified in nine isolates to match supplementary file 1. </b>Data from isolate ZIB9046 assembled with unicycler v0.4.8 and annotated with Bakta v1.9.3.<b>Nucleotide sequence (.fna) of 150kb plasmid identified in nine isolates. </b>Data from isolate ZIB9046 assembled with unicycler v0.4.8 and annotated with Bakta v1.9.3.<b>Accessions of samples from study</b>. Table S1.<b>Recombinations identified within the ZIB cluster. </b>Gubbins identified recombinations are shown aligned with the phylogeny rooted as in Figure 2. Genome annotation above the recombinations shows the coding sequences (CDSs) in blue along the chromosome. Below the recombination tracks, where recombination loci in single isolates are shown in blue, and those identified in more than one isolate are shown in red, is a graph of frequency with key locations annotated. Figure generated using Phandango (ref 15).
DOI: 10.6084/m9.figshare.14333960.v1
title: DATA Mytilus genotypic and phenotypic variability_EVA 2021

description: Datasets underlying the analyses reported in Michalek et al. (2021) <i>Mytilus trossulus</i> introgression and consequences for shell traits in longline cultivated mussels. <i>Evolutionary Applications</i>. Mussel samples were collected between 2015 and 2016 at a longline mussel farm on the Scottish West coast, from different depth of cultivation. These were assessed for morphological traits, including shell strength and shall shape, and genotyped using both a single nuclear marker (Me15/16) as well as newly developed <i>M. trossulus</i> diagnostic SNP panel.
DOI: 10.6084/m9.figshare.19673634.v1
title: Annotation file of MAKER-annotated protein-coding genes

description: Annotation file of MAKER-annotated protein-coding genes
DOI: 10.6084/m9.figshare.23988774.v2
title: Untitled Item

description: The genome annotation of cattle and yak
DOI: 10.6084/m9.figshare.25577259.v1
title: Graph_data.xlsx

description: This data was used to create graphs for the systematic review
DOI: 10.6084/m9.figshare.13727815.v4
title: Spatiotemporal patterns in the woodiness of flowering plants

description: Data for analysis
DOI: 10.6084/m9.figshare.29105477.v1
title: Supplementary Data

description: Supplementary Data
DOI: 10.6084/m9.figshare.24501505.v2
title: Human Health Risk Attributed to Consumption of Seafood and Recreation Swimming in Negombo Lagoon, Sri Lanka - Datasheet

description: The provided Excel spreadsheet contains physico-micro data, organized with parameters measured at sampling sites in rows and weeks (Week 1 - 4) with their respective sites arranged in columns. The data can be converted into a CSV file for analysis in R.<br>Certain parameters have been abbreviated, including Total Coliform Count (TCC), Biological Oxygen Demand (BOD5), Dissolved Oxygen (DO), Total Dissolved Solids (TDS), and Electrical Conductivity (EC). TCC and BOD5 were transformed to meet parametric assumptions required for specific analyses.<br>Oyster data is available only for the fourth week, as oysters were collected during this period. Data for stations 4 and 5 is absent, as oysters were not found at those sites. Therefore, the analysis is based on data from sites 1, 2, 3, 6, and 7.<br>Water Quality Index (WQI) data has been organized by sampling sites, aligning with our objective of assessing water quality across different sites.
DOI: 10.6084/m9.figshare.28559375.v1
title: DADOS DA VIGILÂNCIA CIRÚRGICA PÓS-ALTA DE CESARIANAS E DADOS ESTATÍSTICOS DOS CRITÉRIOS RETROSPECTIVOS E CONCORRENTES AVALIADOS E REAVALIADOS NO CICLO DE MELHORIA PARA REDUÇÃO DE INFECÇÃO DE SÍTIO CIRÚRGICO PÓS-CESARIANAS.

description: AVALIAÇÃO DE UMA ESTRATÉGIA MULTIFACETADA DE MELHORIA DA QUALIDADE PARA REDUZIR INFECÇÃO DE SÍTIO CIRÚRGICO PÓS-CESARIANAS RESUMO. Objetivo: Analisar o efeito de uma estratégia para melhorar a prevenção de infecção de sítio cirúrgico (ISC) pós-cesariana em um hospital do Sistema Único de Saúde (SUS). Método: Estudo quase-experimental misto, incluindo análises antes e depois e séries temporais de pacientes submetidas a cesarianas entre janeiro de 2022 e agosto de 2023, em um hospital universitário de Vitória, Espírito Santo, utilizando oito critérios de processo e um de resultado. A intervenção multifacetada compreendeu desenvolvimento de liderança, ações regulatórias, sistemas de informação e capacidade organizacional. Foram estimadas as melhorias absoluta e relativa dos critérios, com significância estatística (p&lt;0,05). Para análise contextual utilizou-se o Model for Understanding Success in Quality (MUSIQ). Resultados: A análise contextual indicou razoável chance de sucesso (MUSIQ = 128 pontos). As principais fragilidades foram: maturidade organizacional em melhoria da qualidade, capacitação do microssistema, experiência da equipe e engajamento médico. Como ponto forte, destacou-se a coordenação da equipe por um gestor de qualidade. Após a intervenção, seis dos oito processos avaliados melhoraram significativamente, com destaque para curativo, antissepsia cirúrgica da pele e tricotomia (p&lt;0,001). A antibioticoprofilaxia avançou menos (38% versus 54%). A ampliação da vigilância pós-alta resultou em maior detecção de ISC, aumentando a notificação e a precisão da taxa de incidência. Quanto aos desfechos clínicos, os casos de ISC incisional superficial aumentaram 39%, enquanto ISC em órgão ou cavidade reduziram 83%. Conclusões: A estratégia foi eficaz na melhoria da prevenção de ISC após cesarianas e pode ser considerada para implementação em outras maternidades do SUS.
DOI: 10.6084/m9.figshare.29105300.v1
title: Genome assembly and annotation of Y52

description: We collected leaves of bitter gourd Y52 material and performed HIFI, HIC, and ONT sequencing respectively, assembled a nearly complete Y52 genome, and annotated the genome.
DOI: 10.6084/m9.figshare.92442.v1
title: Zoloft dose response of a laboratory yeast strain

description: Kinetic dose response data (graphs and raw data) for the wildtype yeast strain BY4716 over a 100-fold concentration range of the SSRI antidepressant sertraline/Zoloft.
DOI: 10.6084/m9.figshare.14357297.v1
title: Coulson-et-al-JEB 2021

description: Data for Coulson-et al., 2021, J. Exp. Biol. JEB242279Plasticity of non-shivering thermogenesis and brown adipose tissue in high-altitude deer mice<b></b>
DOI: 10.6084/m9.figshare.24517705.v1
title: Language model-based B cell receptor sequence embeddings can effectively encode receptor specificity

description: High throughput sequencing of B cell receptors (BCRs) is increasingly applied to study the immense diversity of antibodies. Learning biologically meaningful embeddings of BCR sequences is beneficial for predictive modeling. Several embedding methods have been developed for BCRs, but no direct performance benchmarking exists. Moreover, the impact of the input sequence length and paired-chain information on the prediction remains to be explored. We evaluated the performance of multiple embedding models to predict BCR sequence properties and receptor specificity. Despite the differences in model architectures, most embeddings effectively capture BCR sequence properties and specificity. BCR-specific embeddings slightly outperform general protein language models in predicting specificity. In addition, incorporating full-length heavy chains and paired light chain sequences improve the prediction performance of all embeddings. This study provides insights into the properties of BCR embeddings to improve downstream prediction applications for antibody analysis and discovery.
DOI: 10.6084/m9.figshare.28654505.v1
title: Saguaro survey data

description: The full data set of establishment saguaros and random microsites
DOI: 10.17632/r3nkxtpdkn
title: [Dataset] Triple Mediation of Attitude to Bridge Transformational Leadership on Organizational Citizenship Behavior

description: This dataset is the result of a survey of 224 guard officers at Nusakambangan Prison, Indonesia. This dataset includes five research variables consisting of Transformational Leadership, Affective Organizational Commitment, Job Self Efficacy, Job Satisfaction, and Organizational Citizenship Behavior.
DOI: 10.6084/m9.figshare.14618004.v1
title: Supplementary Material for: More than Nail Deep: The Effect of Efinaconazole 10% Treatment on the Quality of Life in Patients with Onychomycosis: A post hoc Study

description: <b><i>Introduction:</i></b> Onychomycosis is a common, difficult-to-treat fungal nail infection. Clinical signs include nail discoloration and thickening, which patients often find embarrassing, causing a negative impact on their quality of life (QOL). <b><i>Methods:</i></b> In this post hoc study, we analyze the effect of efinaconazole 10% solution on a patient’s QOL using patient-reported scores from the OnyCOE-t™ questionnaire (appearance, stigma, physical problems, symptom frequency, symptom bothersomeness, treatment satisfaction, and overall problem). Higher scores corresponded to better functioning, thus higher QOL. <b><i>Results:</i></b> Efinaconazole 10% treatment and clinical efficacy were positively correlated with improved QOL in all domains for all groups, except with symptom bothersomeness (how much the onychomycosis symptoms worried or concerned the patient) for female patients &lt;40 years. While still showing improvement in most domains during efficacious treatment, female and younger patients reported lower QOL scores than their male and older counterparts, despite having better clinical outcomes at follow-ups. <b><i>Discussion:</i></b> Female and younger patients appear to be more emotionally bothered by their symptoms, regardless of treatment success or improvement of their nail’s appearance, suggesting that onychomycosis is more than nail deep and has a greater psychological effect on these patients. Therefore, younger female patients may require more assurance and mental support.
DOI: 10.6084/m9.figshare.18400844.v1
title: Supplementary Material for: Meta-analysis of the efficacy and safety of finerenone in diabetic kidney disease

description: Background: The Phase III clinical trial of the non-steroidal mineralocorticoid receptor antagonist finerenone (BAY 94-8862) has been completed, aiming to investigate renal and cardiovascular (CV) outcomes in type 2 diabetes (T2D) with chronic kidney disease (CKD). However, the efficacy and safety of finerenone in renal function remain controversial. The purpose of this study was to explore the efficacy and safety of finerenone in treating the patients with diabetic kidney disease (DKD). Methods: Databases of PubMed, Cochrane Library, Embase, and Web of Science were searched for randomized controlled trials (RCTs) on patients with DKD receiving finerenone treatment from inception to September 2021. Data including patient characteristics and interested outcomes were extracted, and the dichotomous data and continuous variables were evaluated using risk ratio (RR) with 95% confidence intervals (CIs) and mean differences (MD) with 95% CIs, respectively. Results: A total of 4 RCTs involving 13945 patients were included in this meta-analysis. Analysis results demonstrated that patients receiving finerenone showed a significant decrease in changing urinary albumin-to-creatinine ratio (UACR) from baseline (MD: ﹣0.30; 95%CI [﹣0.33, ﹣0.27] P=0.46, I2=0%) (P＜0.05). The number of patients with ≥40% reduction in estimated glomerular filtration rate (eGFR) from baseline in the finerenone group was significantly smaller than that in the placebo group (RR: 0.85; 95%CI [0.78, 0.93] P=0.60, I2=0%) (P＜0.05). No difference was found in adverse events between the finerenone and placebo groups (RR: 1.00; 95%CI [0.98, 1.01] P = 0.94, I2=0%) (P=0.65). The incidence of hyperkalemia was higher in the finerenone group than that in the placebo group (RR: 2.03; 95%CI [1.83, 2.26] P = 0.95, I2=0%) (P＜0.05). Conclusion: Finerenone contributes to the reduction of UACR and can ameliorate the deterioration of renal function in patients with T2D and CKD. The higher risk of hyperkalemia was found in the finerenone group compared with placebo, however, there was no difference in the risk of overall adverse events.
DOI: 10.6084/m9.figshare.23995941.v2
title: Behavioral and fNIRS results

description: The behavioral and fNIRS data for the parental feedback study
DOI: 10.6084/m9.figshare.24636168.v1
title: obesity

description: obesity
DOI: 10.6084/m9.figshare.27177912.v4
title: Australian Camera Trap Data (ACTD)

description: The dataset comprises images from camera traps deployed across various sites in Victoria, Australia, regions to monitor biodiversity and conservation. The ecological experts manually sort and review the camera trap data based on the species class. The reviewed camera trap data is processed through the mega detector model to collect the bounding box coordinates of the species. The proposed dataset consists of three variants to address data imbalance issues in species classification by grouping species into higher-level categories (e.g., birds and small animals) called terrestrial grouped species data, region-specific species data and feral animal data. Each dataset has cropped animal images, YOLO annotated files and COCO formatted JSON files to train efficient deep learning models. All scripts used for data processing, annotation and validation are publicly available in the GitHub repository: GitHub - sameeruddin/ACTD_scripts.
DOI: 10.6084/m9.figshare.7604660.v2
title: DATA of "crystallographic preferred orientations of ice deformed in direct-shear experiments at low temperatures"

description: This repository contains orientation data obtained by cryo-electron backscatter diffraction (EBSD) on synthetic polycrystalline ice samples sheared at temperatures of -5, -20 and -30 °C, to different shear strains, up to γ = 2.6. The corresponding research has been published as Qi et al., 2019, Crystallographic preferred orientations of ice deformed in direct-shear experiments at low temperatures. The Cryosphere, 13, 1-21. https://doi.org/10.5194/tc-13-1-2019
DOI: 10.17632/97f3yffwz9
title: Multi-behavioral fingerprints can identify the mode of action for neuroactive environmental chemicals _ VAMR2

description: Data and Code Description
This dataset contains zebrafish behavior metrics and R scripts for analysis and visualization. The data includes 26 metrics, such as baseline activity (BSL1-4), visual (VSR, VMR) and acoustic startle responses (ASR), habituation (ASH), interstimulus intervals (ISI, IEI), inter-bout intervals (IBI), and memory retention (ASR2/3), measured in pixels per second.
Nonparametric bootstrapping was used for statistical analyses, along with Kruskal-Wallis tests and Benjamini-Hochberg corrections for multiple comparisons. Effect sizes were calculated using Strictly Standardized Median Differences (SSMD).
R scripts are provided to generate cloud plots, SSMD heatmaps, and multidimensional scaling (MDS) plots. KNIME was used for data processing, while all visualizations were created in R Studio.
(Quantified using custom KNIME workflows (version 4.6.3) in combination with R scripts (R Core Team 2023) for statistical analysis and visualization. Statistical Analysis and Visualization Tools: Employed R add-on packages ggplot2 and RColorBrewer).
DOI: 10.6084/m9.figshare.19426244.v1
title: Adult train

description: The train adult dataset
DOI: 10.6084/m9.figshare.19747495.v2
title: Rock n’ Seeds: a database of seed functional traits and germination experiments from Brazilian rock outcrop vegetation

description: The present dataset includes information for 16 seed traits from 383 taxa in 148 genera, 50 families and 25 orders from Brazilian rock outcrop vegetation. Data was collected in several study sites across Brazil, including locations from all six Brazilian biomes, namely Atlantic Forest, Amazon, Caatinga, Cerrado, Pampa and Pantanal. The most represented families in the database are Melastomataceae (67 taxa), Fabaceae (38) and Velloziaceae (36), with ~37% of all reported species. The 16 seed traits include two dispersal, six production, four morphological, two biophysical and two germination traits. The traits with the highest number of records are the presence/absence of primary dormancy (499 records), dispersal syndrome (497) and dormancy class (353). Additionally, Rock n' Seeds compiles the primary data of 48 germination experiments for a total of 10,187 records. Experiments available in this database include tests that assessed the effect of different dormancy-breaking treatments (e.g., scarification and hormone application) and germination responses to various abiotic (e.g., temperature, photoperiod, and fire-related cues) and biotic (e.g., intraspecific variability, gut passage, and reproductive systems) factors.
DOI: 10.6084/m9.figshare.21299121.v1
title: Figure S2. Three-dimensional surface model from An early nimravid from California and the rise of hypercarnivorous mammals after the middle Eocene climatic optimum

description: Data file for three-dimensional surface model of of SDSNH 60554.
DOI: 10.6084/m9.figshare.6844484.v1
title: Supplementary Material for: The Italian Version of the Brief 21-Item Prodromal Questionnaire: Field Test, Psychometric Properties and Age-Sensitive Cut-Offs

description: <b><i>Background:</i></b> The Brief, 21-item version of the Prodromal Questionnaire (PQ-B) is a promising screener for psychosis-risk states that could be implemented in routine clinical practice. In this study, we assessed psychometric properties of the Italian version of the PQ-B (iPQ-B) in a sample of 243 help-seekers, aged 13–35 years. <b><i>Sampling and Methods:</i></b> After completing the iPQ-B, participants were assessed with the Comprehensive Assessment of At-Risk Mental States (CAARMS). Diagnostic accuracy (sensitivity, specificity, positive and negative predictive values [PPV and NPV], positive and negative likelihood ratios) and concurrent validity between PQ-B and CAARMS were determined using Cronbach’s alpha and Cohen’s kappa. We also tested the validity of the adopted PQ-B cut-offs through Receiver Operating Characteristic (ROC) curves plotted against CAARMS diagnoses and the predictive validity of the iPQ-B at 1-year follow-up. <b><i>Results:</i></b> The iPQ-B showed high internal consistency (Cronbach’s alpha = 0.868), acceptable diagnostic accuracy and concurrent validity (70% sensitivity, 67% specificity, 81% PPV, Cohen’s kappa = 0.335). ROC analyses pointed to threshold of ≥20 on the PQ-B total distress score as best cut-off. After 12 months of follow-up, 11% of participants who scored ≥4 on the PQ-B distressing item total score and did not meet CAARMS psychosis criteria at baseline, developed a psychotic disorder. Interestingly, age had significant negative correlations with iPQ-B scores and adolescents (aged &lt; 18 years) showed higher iPQ-B scores than young adults. <b><i>Conclusions:</i></b> Overall, the psychometric properties of the iPQ-B were satisfactory. As iPQ-B scores appeared inversely associated to age, age-tailored cut-off scores are recommended for screening purposes in child-adolescent cohorts.
DOI: 10.6084/m9.figshare.20343903.v4
title: Finger tapping data for Plos

description: This exploratory, cross-sectional study was conducted at the National Center for Geriatrics and Gerontology. This study included patients diagnosed with AD at the Center for Comprehensive Care and Research on Memory Disorders.
DOI: 10.6084/m9.figshare.24310699.v1
title: Reversed asymmetric warming of sub-diurnal temperature over land during recent decades

description: Source data and specific code for the analysis and mapping presented in the paper "Reversed Asymmetric Warming of Sub-diurnal Temperatures over Land in Recent Decades."