Data in Brief最新文献

{"title":"CircPac: A web-based analysis toolset for exploring circular RNA data","authors":"Amir Hossein Foroutan ,&nbsp;Sadra Salehi-Mazandarani ,&nbsp;Maryam Lotfi-Shahreza ,&nbsp;Parvaneh Nikpour","doi":"10.1016/j.dib.2025.111724","DOIUrl":"10.1016/j.dib.2025.111724","url":null,"abstract":"<div><div>Circular RNAs (circRNAs) are a type of RNAs that play crucial roles in various biological processes. Their outstanding properties such as tissue-specific expression and high resistance to exonuclease degradation make them attractive for research. However, a comprehensive analysis tool for analyzing circRNA data is still required. Here, we present CircPac, a newly developed web-based toolset that searches databases like circBase, circBank, and circRNADisease and organizes data to provide and visualize circRNAs information. Our toolset was created using the Python programming language and its libraries, such as pandas, seaborn, and the Django framework. CircPac enables users to unify the circRNA IDs and subsequently perform various bioinformatic analyses. These analyses include retrieving basic circRNA information, identifying target miRNAs, and analyzing circRNA expression changes in various diseases. Additionally, this toolset generates ready-to-publish figures of circRNA-miRNA interactions and circRNAs expression changes in diseases. CircPac is freely accessible (at <span><span>https://www.circpac.ir</span><svg><path></path></svg></span>) and offers a user-friendly platform for biologists to efficiently conduct and visualize circRNA data analyses in an appropriate format.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"61 ","pages":"Article 111724"},"PeriodicalIF":1.0,"publicationDate":"2025-06-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144279246","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Data on the nutritional and fatty acid composition, bioactive compounds, in vitro antioxidant activity and techno-functional properties of a collection of pea (Pisum sativum L.)","authors":"Francesca Vurro,&nbsp;Davide De Angelis,&nbsp;Giacomo Squeo,&nbsp;Stefano Pavan,&nbsp;Antonella Pasqualone,&nbsp;Carmine Summo","doi":"10.1016/j.dib.2025.111709","DOIUrl":"10.1016/j.dib.2025.111709","url":null,"abstract":"<div><div>This dataset refers to a collection of 81 pea (<em>Pisum sativum</em> L.) genotypes grown at the experimental farm “P. Martucci” of the University of Bari “Aldo Moro” sited in Valenzano, Italy (41°01 22.1’’ N 16°54 21.0’’ E) during the 2022–2023 growing season. The dataset reports the nutritional and fatty acid composition, bioactive compounds, <em>in vitro</em> antioxidant activity and techno-functional properties determined on the flour obtained by milling the seeds of each pea genotype. The aim of this study was to assess the potential and the variations of these pea genotypes and provide useful information to food companies and research institutions. In addition to the study of suitable food applications, these data can be used in genetic research to identify specific genomic regions associated with key nutritional and techno-functional traits, thereby improving understanding of the underlying genetic mechanisms.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"61 ","pages":"Article 111709"},"PeriodicalIF":1.0,"publicationDate":"2025-06-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144312816","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Impact of extreme wildfires on the geotechnical properties of volcanic soils: A specific dataset from Central-Southern Chile","authors":"Eduardo Javier Paredes-Delgado ,&nbsp;Ignacio Pérez-Rey ,&nbsp;Juan López-Vinielles ,&nbsp;Roberto Tomás ,&nbsp;Mauro Muñiz-Menéndez ,&nbsp;Pablo Miranda ,&nbsp;Roberto Sarro","doi":"10.1016/j.dib.2025.111749","DOIUrl":"10.1016/j.dib.2025.111749","url":null,"abstract":"<div><div>The increasing occurrence of wildfires, driven by climate change and environmental degradation, highlights the importance of studying their effects from the perspective of geotechnics and soil mechanics. During a wildfire in 2023 in Central-Southern Chile, temperatures in eucalyptus forests reached up to 600 °C, resulting in significant physical and chemical alterations in the soil. This dataset focuses on the impact of wildfires on the geomechanical properties of volcanic soils in central Chile, providing data collected through laboratory tests and <em>in-situ</em> survey techniques. The methods employed include: (i) delineation of areas severely affected by the 2023 wildfires in the Biobío region of Chile; (ii) measurement of soil geomechanical parameters in affected areas and comparison with pre-fire values; and (iii) compilation of a dataset to facilitate the evaluation of post-fire changes in soil geomechanical properties. This dataset can serve as a reference for assessing the impacts of wildfire-induced changes in soils, providing valuable insights for identifying areas prone to ground instability and informing civil engineering projects.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"61 ","pages":"Article 111749"},"PeriodicalIF":1.0,"publicationDate":"2025-06-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144271223","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"IDEA: Image database for earthquake damage annotation","authors":"Ilaria Senaldi,&nbsp;Chiara Casarotti,&nbsp;Martina Mandirola,&nbsp;Alessio Cantoni","doi":"10.1016/j.dib.2025.111733","DOIUrl":"10.1016/j.dib.2025.111733","url":null,"abstract":"<div><div>The data article presents the “Image Database for Earthquake damage Annotation (IDEA)”, an extended dataset of annotated real structural damage consisting of more than 5400 images, collected during post-event and ordinary field inspections. The dataset aims to fill the lack of annotated data necessary for the development of deep learning methodologies with structural damage detection and/or classification purposes. The dataset contains images annotated by structural engineers, covering different structural typologies, construction materials and damage typologies. The dataset is based on a comprehensive ontology defined by the authors, based on commonly agreed structural damage categories, which includes several types of structural and non-structural damage. Such onthology, can be used either to expand the presented dataset or to produce new ones, in order to increase the availability of data annotated according to a common standard, from the structural engineering point of view. Furthermore, the IDEA dataset is valuable as benchmark for enhancing the performance of damage classification/detection algorithms, encompassing some of the limits of currently available datasets, which cover only a few structural typologies or damage classes, or consist of classified rather than annotated images, or originate from limited laboratory experiments rather than post-event reconnaissance.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"61 ","pages":"Article 111733"},"PeriodicalIF":1.0,"publicationDate":"2025-05-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144298274","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Dataset from an experiment on transitivity","authors":"Jorge Guadalupe-Lanas ,&nbsp;Verónica Artola-Jarrín ,&nbsp;Jorge Cruz-Cárdenas","doi":"10.1016/j.dib.2025.111711","DOIUrl":"10.1016/j.dib.2025.111711","url":null,"abstract":"<div><div>Experimental economics, which applies laboratory methods to study the interactions of human beings in social contexts, makes it possible to evaluate the transitivity of consumer preferences. This data set presents the results of an experiment on preferences in three different situations: 1) individuals faced with goods choices without restrictions; 2) individuals facing budget restrictions and price changes; and 3) individuals faced with decreased disposable income. The experiment was conducted on subjects with different characteristics i.e., different genders, women and men, different work situations, employed and unemployed, different age ranges, and different economic positions, divided into low, medium and high. In addition, the experiment had two phases, the first one prior to the experiment as such, called pilot, which objective was to calibrate the consistency of the instrument (survey), not to measure transitivity itself. The second one, was conducted on 70 subjects some of which came from the central bank of Ecuador, and others came from the Catholic University.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"61 ","pages":"Article 111711"},"PeriodicalIF":1.0,"publicationDate":"2025-05-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144288988","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Draft genome sequence data of Klebsiella pneumoniae subsp. pneumoniae B36336, a multidrug-resistant strain isolated from a human bloodstream infection","authors":"Nur Husna Shahimi ,&nbsp;Zakuan Zaini Deris ,&nbsp;Zeti Norfidiyati Salmuna ,&nbsp;Shuhaila Mat-Sharani ,&nbsp;Nik Yusnoraini Yusof","doi":"10.1016/j.dib.2025.111744","DOIUrl":"10.1016/j.dib.2025.111744","url":null,"abstract":"<div><div><em>Klebsiella pneumoniae</em> B36336 strain was isolated from human blood and its draft genome sequence was obtained using a hybrid assembly approach that combined PacBioscience and Illumina sequencing technologies. Software such as TRIM GALORE, SPAdes, PILON and QUAST, were used to remove primer sequences, assemble, polish and evaluate the quality of the assembled genome respectively. The assembly resulted in 6 contigs with a total 5,750,896 reads, an N50 of 5,423,907, and a GC content of 57.13 %. According to COG annotation, the predominant functional categories were Carbohydrate Transport and Metabolism (Category G: 561), Amino Acid Transport and Metabolism (Category E: 461) and Transcription (Category K: 414). The present data can be used in identification of antimicrobial resistance genes and virulence factors that may be specifically present in multidrug-resistant <em>Klebsiella pneumoniae</em> (MDR-Kp) species. The raw genomic data was deposited in NCBI SRA database SRR32374857 for PacBioscience data and SRR32374856 for Illumina data under BioProject accession number PRJNA1215784.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"61 ","pages":"Article 111744"},"PeriodicalIF":1.0,"publicationDate":"2025-05-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144331354","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Dataset of Fourier transform infrared (FTIR) spectra of a primary amine, selected aldehydes, and their Schiff bases acquired using the Invenio-R spectrometer","authors":"Mohd Rashidi Abdull Manap ,&nbsp;Umar Sani ,&nbsp;Musbahu Yahaya ,&nbsp;Ahmad Zaidi Ismail ,&nbsp;Qhurratul Aina Kholili ,&nbsp;Fatin Abu Hasan ,&nbsp;Siti Nurul Ain Md Jamil ,&nbsp;Reda Dzingelevičienė ,&nbsp;Saiful Saiful ,&nbsp;Giorgio S. Senesi ,&nbsp;Herculano Martinho","doi":"10.1016/j.dib.2025.111741","DOIUrl":"10.1016/j.dib.2025.111741","url":null,"abstract":"<div><div>This dataset reports on the Fourier-transform infrared (FTIR) spectroscopic analysis of a primary amine and some aldehydes along their corresponding Schiff bases. The dataset presented in this work consists of spectral FTIR data acquired in the 80–6000 cm⁻¹ range, along with the corresponding relative IR intensities of the samples. The primary amine and aldehydes were of high purity and were used to synthesise the corresponding Schiff bases. The FTIR spectra were acquired for the vibrational assignment associated with the samples. The IR spectra were acquired using a Bruker Invenio-R (Universiti Putra Malaysia, Malaysia) spectrometer equipped with attenuated total reflection (ATR) diamond crystal with an accumulation of 64 scans at a spectral resolution of 4 cm⁻¹ and processed using OPUS 8.7.41 software. The data indicated that FTIR spectroscopy can be a powerful tool for analysing Schiff bases.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"61 ","pages":"Article 111741"},"PeriodicalIF":1.0,"publicationDate":"2025-05-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144271222","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Data series of hydrographic variables, potentially toxic phytoplankton and marine biotoxins in bivalves from open waters off the Basque coast (SE Bay of Biscay)","authors":"Oihana Solaun ,&nbsp;Izaskun Zorita ,&nbsp;Marta Revilla ,&nbsp;Manuel González ,&nbsp;Joana Larreta ,&nbsp;Luis Cuesta ,&nbsp;Almudena Fontán ,&nbsp;Luis Ferrer ,&nbsp;Yolanda Sagarminaga ,&nbsp;Aitor Laza-Martínez ,&nbsp;Carolina Assadi ,&nbsp;José Germán Rodríguez","doi":"10.1016/j.dib.2025.111736","DOIUrl":"10.1016/j.dib.2025.111736","url":null,"abstract":"<div><div>Marine biotoxins produced by some potentially toxic phytoplankton species can accumulate in shellfish, posing a threat to human health through consumption. This dataset was generated from monitoring the open waters of the shellfish production area off the Basque coast (southeastern Bay of Biscay) from December 2013 to December 2023. It includes data on the abundance of potentially toxic phytoplankton, the levels of marine biotoxins in bivalves, and various hydrographic variables. Not all the variables were measured throughout the whole monitoring period and the sampling frequency varied. Generally, surveys were conducted monthly or biweekly, with the exception of a seven-month gap between September 2015 and March 2016. Biotoxin analyses on bivalves involved Amnesic Shellfish Poisoning (ASP) and Paralytic Shellfish Poisoning (PSP) toxins, as well as, lipophilic toxins (Okadaic Acid (OA), Dinophysistoxins (DTXs), Pectenotoxins (PTXs), Yessotoxins (YTXs) and Azaspiracids (AZAs)). The identification and counting of potentially toxic algal cells were performed using the Utermöhl method with light microscopy. Continuous vertical profiles of hydrographic variables (temperature, salinity, light transmission, photosynthetically active radiation, chlorophyll “a” and dissolved oxygen) were measured in situ using Sea-Bird SBE-25 and 25plus CTD instruments. As a whole, this dataset may be useful for: (i) assessing temporal trends of hydrographic variables, potentially toxic phytoplankton, and marine biotoxins in bivalves from offshore waters of the Basque coast, (ii) comparing local marine biotoxin levels with established safety limits for human consumption, or levels found in other biogeographical areas, and (iii) supporting the management of shellfish production in the Basque coastal waters and similar biogeographic areas from an integrated perspective.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"61 ","pages":"Article 111736"},"PeriodicalIF":1.0,"publicationDate":"2025-05-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144263678","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Dataset and machine learning-based computer-aided tools for modeling working sorption isotherms in dried parchment and green coffee beans","authors":"Gentil A. Collazos-Escobar ,&nbsp;Andrés F. Bahamón-Monje ,&nbsp;Nelson Gutiérrez-Guzmán","doi":"10.1016/j.dib.2025.111738","DOIUrl":"10.1016/j.dib.2025.111738","url":null,"abstract":"<div><div>This work presents a comprehensive dataset on working sorption isotherms and mid-infrared spectra for parchment husk, parchment coffee, and green coffee beans (<em>Coffea arabica</em> L.). The working sorption isotherms were experimentally determined using the Dynamic Dewpoint Isotherm (DDI) method, covering typical storage conditions of dried coffee beans in warehouses. These conditions account for a water activity range (a_w) from 0.1 to 0.9 and temperatures of 25°C, 35°C, and 45°C. Furthermore, the mid-infrared spectra of parchment husk and green coffee were obtained using Attenuated Total Reflectance-Fourier Transform Infrared (ATR-FTIR) spectroscopy as a complementary tool to analyze the role of parchment covering in the water sorption behavior of parchment coffee beans. The dataset also provides computer-aided tools for the mathematical modeling of working sorption isotherms and infrared data of coffee. These tools were developed using MATLAB® R2023a (The MathWorks Inc., Natick, MA, USA) and offer users the ability to model sorption isotherms and analyze infrared spectral data using advanced machine learning techniques. Thereby, the MATLAB scripts implement an automated routine for the calibration and optimization of the Support Vector Machine (SVM) and Random Forest (RF) techniques, enabling the modeling of working sorption isotherms for each coffee type (considering only a_w and temperature) and in a multivariate approach (incorporating a_w, temperature, and coffee type) to predict the equilibrium moisture content (X_e). Additionally, the MATLAB script for Principal Component Analysis (PCA) enables users to perform advanced chemometric modeling of the coffee spectra. This script provides a latent-variable-based tool for analyzing spectral patterns associated with different coffee types, allowing for robust model-based differentiation of coffee samples using their infrared properties. These models are particularly valuable as digital representations of the coffee storage process and can be used to optimize storage conditions, understand hygroscopic behavior, and ensure moisture-based quality monitoring in parchment and green coffee beans. The experimental dataset, including working sorption isotherms and mid-infrared spectra, is organized into Excel sheets according to experimental conditions and replicates. The MATLAB scripts come with ready-to-use computational instructions for calibrating predictive models, ensuring precise fitting of isotherms and spectral properties. This dataset represents a valuable asset for researchers, coffee producers, and industry stakeholders, providing practical tools for storage optimization, shelf-life determination, and in-depth analysis of water sorption behavior across different coffee processing stages.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"61 ","pages":"Article 111738"},"PeriodicalIF":1.0,"publicationDate":"2025-05-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144331308","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Survey data of perception and evaluation of umami taste in Austria","authors":"Emilia Iannilli,&nbsp;Emilise Lucerne Pötz","doi":"10.1016/j.dib.2025.111734","DOIUrl":"10.1016/j.dib.2025.111734","url":null,"abstract":"<div><div>The data presented in this work was collected in Austria. We aimed to investigate the familiarity and perception of people in this region with the umami taste. Umami, one of the five primary tastes, plays a crucial role in reducing salt intake and influencing food preferences, as demonstrated by several studies. However, despite its presence in both natural and prepared foods, Europeans appear to be largely unfamiliar with this taste compared to people in Asia.</div><div>The main focus of our survey was the perception and hedonic evaluation of umami using an open-answer format. To achieve this, we collected a wide range of categorical descriptors related to the umami taste and its pleasantness compared to a simple cooking salt (NaCl) solution. We used unlabeled dark glass mist spray bottles to present the solutions on the tongues of the participants and asked for their descriptions. Additionally, we gathered information on taste preferences for the five basic tastes, preferences for spicy food, eating habits such as the addition of salt to meals, sweets consumed, travel habits, the size of participants' residential cities, and demographic information, resulting in a total of 38 variables.</div><div>Our sample consisted of 309 adult participants, with a mean age of 26.7 years, recruited from public centers in Graz and the surrounding areas. This dataset has practical implications and can be valuable for sensory scientists and consumer behavior researchers seeking better to understand umami perception and acceptance in Western culture.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"61 ","pages":"Article 111734"},"PeriodicalIF":1.0,"publicationDate":"2025-05-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144242660","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}