Data in Brief最新文献

{"title":"A national scale coastal change dataset for Aotearoa New Zealand.","authors":"Megan Tuck, Mark Dickson, Emma Ryan, Murray Ford, Teresa Konlechner","doi":"10.1016/j.dib.2024.111104","DOIUrl":"https://doi.org/10.1016/j.dib.2024.111104","url":null,"abstract":"<p><p>Comprehensive historical coastal change datasets are crucial resources for effective coastal management. In Aotearoa New Zealand, available coastal change data is outdated, or sporadic, hindering large-scale, long-term analysis of coastal change, and coastal planning nationwide. Here we introduce New Zealand's Coastal Change Dataset (NZCCD) a detailed record of coastal change around New Zealand from the early 1940's to 2023. NZCCD was generated through a nationally consistent, rigorous process in which five coastal scientists manually interpreted and digitized the position of the coastline along New Zealand's open and soft cliffed coasts, using historic aerial photographs and high-resolution satellite imagery. NZCCD provides two datasets i) <i>NZCCD Coastlines,</i> comprising manually mapped coastlines, and ii) <i>NZCCD Coastal Change Rates,</i> 228, 611 points where rates of coastal change were calculated. The dataset enables a significant advancement in coastal management enhancing our understanding of the patterns and drivers of coastal change around New Zealand.</p>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"57 ","pages":"111104"},"PeriodicalIF":1.0,"publicationDate":"2024-11-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11609698/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142767324","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Biodiversity and distribution of gelatinous macrozooplankton in the North Sea and adjacent waters - dataset from winter 2022.","authors":"Camilla Juul Dahl Jensen, Louise G Køhler, Bastian Huwer, Malin Werner, Leslie Cieters, Cornelia Jaspers","doi":"10.1016/j.dib.2024.111100","DOIUrl":"10.1016/j.dib.2024.111100","url":null,"abstract":"&lt;p&gt;&lt;p&gt;The diversity and distribution of gelatinous macrozooplankton is described by presenting qualitative and quantitative data of the jellyfish and comb jelly community encountered in the North Sea and Skagerrak/Kattegat during January/February 2022. Data were generated as part of the North Sea Midwater Ring Net (MIK) survey [1], an ichthyoplankton survey conducted at night-time during the quarter 1 (Q1) International Bottom Trawl Survey (IBTS), aboard the Danish R/V DANA (DTU Aqua) and the Swedish R/V Svea (SLU). A total of 100 stations were investigated using a 13 m long Midwater Ring Net (MIK net) with an opening diameter of 2 m and a mesh size of 1.6 mm, which is 0.5 mm meshed for the last meter of the net and the cod end [2]. Samples were collected by double oblique hauls from the surface to 5 m above the seafloor [2]. Twelve gelatinous macrozooplankton species were encountered during the Q1 2022 survey. Species encountered included the hydrozoan jellyfish i) &lt;i&gt;Aequorea vitrina&lt;/i&gt;, ii) &lt;i&gt;Aglantha digitale&lt;/i&gt;, iii) &lt;i&gt;Clytia&lt;/i&gt; spp., iv) &lt;i&gt;Leuckartiara octona&lt;/i&gt;, v) &lt;i&gt;Tima bairdii&lt;/i&gt;, vi) &lt;i&gt;Muggiaea atlantica&lt;/i&gt;; the two scyphozoan jellyfish i) &lt;i&gt;Cyanea capillata&lt;/i&gt; and ii) &lt;i&gt;Cyanea lamarckii&lt;/i&gt; as well as the comb jelly (ctenophora) species i) &lt;i&gt;Beroe&lt;/i&gt; spp., ii) &lt;i&gt;Bolinopsis infundibulum&lt;/i&gt;, iii) &lt;i&gt;Pleurobrachia pileus&lt;/i&gt; and iv) the non-indigenous &lt;i&gt;Mnemiopsis leidyi&lt;/i&gt;. In total 4882 individual specimens from samples and sub-samples were analyzed and extrapolated to 71,888 records of gelatinous macrozooplankton in the investigation area. For rare species, the entire sample was analyzed, while for abundant taxa, sub-samples were used to assess abundances. The raw counts were converted to volume-specific densities (individuals m&lt;sup&gt;-3&lt;/sup&gt;) and area-specific abundances (individuals m&lt;sup&gt;-2&lt;/sup&gt;), based on calibrated flow meter recordings and recorded maximum depth of the MIK net during each haul. Further, size data for the different species were obtained from a total of 4775 individual gelatinous macrozooplankton organisms. Size data are presented in the accompanying database and was used to calculate species-specific wet weights, using published size-weight regressions [3]. In addition, we present spatial distribution patterns of the weight specific biomass for the total gelatinous macrozooplankton community as well as the sub-groups i) hydrozoa, ii) scyphozoa and iii) ctenophora across the investigation area. The presented data contribute to a baseline describing the gelatinous macrozooplankton diversity and distribution in the extended North Sea area during winter [3,4] and summer [5]. The data can contribute to address the question if gelatinous macrozooplankton densities increase due to global change pressures and will help to understand their interaction with commercially important fish species, which are assessed during the same surveys. As such, this data paper presents a valuable resource on biodiversi","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"57 ","pages":"111100"},"PeriodicalIF":1.0,"publicationDate":"2024-11-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11617868/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142784445","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"UPbGeoChronSPZ2024: U-Pb data from the South Portuguese Zone, Iberian Massif.","authors":"João Lains Amaral, Ana Rita Solá, Telmo M Bento Dos Santos","doi":"10.1016/j.dib.2024.111089","DOIUrl":"https://doi.org/10.1016/j.dib.2024.111089","url":null,"abstract":"<p><p>Comprehensive isotopic databases of a particular geotectonic domain are valuable resources for geoscientists to develop geological models, such as paleogeographic and tectono-magmatic evolution models. The UPbGeoChronSPZ2024 is an open-access dataset of U-Pb isotopic analyses in minerals, primarily zircon, from igneous and siliciclastic rocks of the South Portuguese Zone, a Laurussian affinity terrain hosting a world-class metallogenic region, the Iberian Pyrite Belt. The dataset includes isotopic measurements and the location of the samples in WGS84 coordinates and it can be easily coupled with other regional or global datasets, making its value beyond its regional character. Furthermore, the dataset includes cutting-edge calculation methods for ages and discordances that allows geoscientists to test different outcomes.</p>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"57 ","pages":"111089"},"PeriodicalIF":1.0,"publicationDate":"2024-11-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11648201/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142834311","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Aspect based sentiment analysis datasets for Bangla text.","authors":"Mahmudul Hasan, Md Rashedul Ghani, K M Azharul Hasan","doi":"10.1016/j.dib.2024.111107","DOIUrl":"10.1016/j.dib.2024.111107","url":null,"abstract":"<p><p>Sentiment analysis is becoming rapidly important for exploring social media Bangla text. The lack of sufficient resources is considered to be an important challenge for Aspect Based Sentiment Analysis (ABSA) of the Bangla language. The ABSA is a technique that divides the text and defines its sentiment based on its aspects. In this paper, we developed a high-quality Bangla ABSA annotated dataset namely BANGLA_ABSA. The datasets are labelled with aspects category and their respective sentiment polarity to do the ABSA task in Bangla. Four open domains namely Restaurant, Movie, Mobile phone, and Car are considered to make the dataset. The datasets are called <i>Restaurant_ABSA, Movie_ABSA,</i> Mobile_phone_ABSA, and <i>Car_ABSA</i> respectively that contain 801, 800, 975, and 1149 comments. All the comments are either complex or compound sentences. We created the dataset manually and annotated the same by exerting opinions. We organized the dataset as three tuples in Excel format namely 〈<i>Id, Comment, {Aspect category, Sentiment Polarity}〉</i>. These data are very important that facilitate the efficient handling of sentiment for any machine learning and deep learning research, especially for Bangla text.</p>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"57 ","pages":"111107"},"PeriodicalIF":1.0,"publicationDate":"2024-11-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11617299/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142784443","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A dataset of 40 assembled and annotated transcriptomes from 34 species in <i>Silene</i> and related genera.","authors":"Patrik Cangren, Yann J K Bertrand, John M Braverman, Gregor Duncan Gilfillan, Matthew B Hamilton, Bengt Oxelman","doi":"10.1016/j.dib.2024.111094","DOIUrl":"10.1016/j.dib.2024.111094","url":null,"abstract":"<p><p>A dataset of 40 assembled and annotated transcriptomes from 34 different species sampled from phylogenetically diverse parts of the flowering plant genus <i>Silene</i> (Caryophyllaceae) and the related genera <i>Agrostemma, Atocion, Eudianthe, Heliosperma, Petrocoptis</i> and <i>Viscaria.</i> RNA extracted from roots, stems, leaves, buds and flowers were sequenced using paired end reads on the Illumina Hiseq platform. A total of 716 million raw reads were produced and assembled into 2.67 million isogroups (\"genes\"). Contigs from all samples were annotated using UniProt/SwissProt and assigned with GO-terms. A total of 974274 annotations were made (per sample average 24357, stdev 7034), giving an annotation proportion of 37% (per sample average 39%, stdev 9.75%). 741087 of the annotations had taxonomic identities within Magnoliopsida (per sample average 18527, stdev 3931), resulting in assignment of 4519488 GO-terms (per sample average 112987, stdev 22536). The data set can be further utilized for biological research and phylogenetic studies, evolutionary questions, functional analyses of genes, polyploidy as well as for marker development.</p>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"57 ","pages":"111094"},"PeriodicalIF":1.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11615531/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142779654","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A novel automated cloud-based image datasets for high throughput phenotyping in weed classification","authors":"Sunil G C ,&nbsp;Cengiz Koparan ,&nbsp;Arjun Upadhyay ,&nbsp;Mohammed Raju Ahmed ,&nbsp;Yu Zhang ,&nbsp;Kirk Howatt ,&nbsp;Xin Sun","doi":"10.1016/j.dib.2024.111097","DOIUrl":"10.1016/j.dib.2024.111097","url":null,"abstract":"<div><div>Deep learning-based weed detection data management involves data acquisition, data labeling, model development, and model evaluation phases. Out of these data management phases, data acquisition and data labeling are labor-intensive and time-consuming steps for building robust models. In addition, low temporal variation of crop and weed in the datasets is one of the limiting factors for effective weed detection model development. This article describes the cloud-based automatic data acquisition system (CADAS) to capture the weed and crop images in fixed time intervals to take plant growth stages into account for weed identification. The CADAS was developed by integrating fifteen digital cameras in the visible spectrum with gphoto2 libraries, external storage, cloud storage, and a computer with Linux operating system. Dataset from CADAS system contain six weed species and eight crop species for weed and crop detection. A dataset of 2000 images per weed and crop species was publicly released. Raw RGB images underwent a cropping process guided by bounding box annotations to generate individual JPG images for crop and weed instances. In addition to cropped image 200 raw images with label files were released publicly. This dataset hold potential for investigating challenges in deep learning-based weed and crop detection in agricultural settings. Additionally, this data could be used by researcher along with field data to boost the model performance by reducing data imbalance problem.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"57 ","pages":"Article 111097"},"PeriodicalIF":1.0,"publicationDate":"2024-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142650679","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Data set for estimating combining abilities for yield and quality attributes in summer tomato using line by tester analysis in Bangladesh","authors":"Mohammad Matin Akand ,&nbsp;Mohammed Abu Taher Masud ,&nbsp;Md. Azizul Hoque ,&nbsp;Mohammad Mostafa Kamal ,&nbsp;Mohammad Rezaul Karim ,&nbsp;Bahauddin Ahmed","doi":"10.1016/j.dib.2024.111063","DOIUrl":"10.1016/j.dib.2024.111063","url":null,"abstract":"<div><div>This article provides a dataset for line × tester analysis in the F1 generation of summer tomatoes using open-source R statistical software and the ‘agricolae’ package. The dataset includes seven inbred lines as female parents (L) and two testers as male parents (T) with diverse genetic bases and heat tolerance qualities. Fourteen cross combinations were produced through L × T (7 × 2) mating design, involving hybridization between lines (<em>f</em>) and testers (<em>m</em>) in a one-to-one fashion. To assess the heterosis of the crosses, all parents (both lines and testers) were included along with the crosses and evaluated in the same experimental field for 16 traits using a randomized complete block design (RCBD) with two replications. The line × tester analysis estimates the ANOVA, including parents, combining ability, genetic components, and the contribution of parental lines to genetic variation in the hybrids. This dataset is valuable for breeders in subtropical countries to develop efficient breeding strategies for hybrid summer tomato varieties.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"57 ","pages":"Article 111063"},"PeriodicalIF":1.0,"publicationDate":"2024-10-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142650675","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A dataset examining technical factors on fixed white blood cell single-cell RNA-seq","authors":"Daniel V Brown ,&nbsp;Agnieszka Swierczak ,&nbsp;Yue You ,&nbsp;Yupei You ,&nbsp;Daniela Amann-Zalcenstein ,&nbsp;Peter Hickey ,&nbsp;Arthur Hsu ,&nbsp;Matthew E. Ritchie ,&nbsp;Monther Alhamdoosh ,&nbsp;Judith Field ,&nbsp;Rory Bowden","doi":"10.1016/j.dib.2024.111096","DOIUrl":"10.1016/j.dib.2024.111096","url":null,"abstract":"<div><div>Single-cell RNA sequencing (scRNA-seq) is a powerful technology that enables the measurement of gene expression in individual cells. Such precision provides insights into cellular heterogeneity that bulk methods might overlook. Fragile cells, in particular neutrophils, have posed significant challenges for scRNA-Seq due to their <em>ex vivo</em> fragility, high RNase content and consequent loss during cryopreservation. The introduction of fixed scRNA-Seq methodology offers a promising solution to these challenges. We evaluated the performance of two different commercial platforms on red blood cell-depleted whole blood cells: 10x Genomics Flex v1 and Honeycomb HIVE v1.</div><div>These data are publicly available from the Gene Expression Omnibus database (accession number GSE266615).</div><div>Further insights could be gained by correcting batch and technical effects introduced by storage time after fixation and cell numbers fixed. These data may be used to examine how reflective the transcriptome of neutrophils are of the native environment.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"57 ","pages":"Article 111096"},"PeriodicalIF":1.0,"publicationDate":"2024-10-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142650671","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Ecosystems and ordering: A dataset.","authors":"Cristiana Maglia, Elana Wilson Rowe","doi":"10.1016/j.dib.2024.111085","DOIUrl":"https://doi.org/10.1016/j.dib.2024.111085","url":null,"abstract":"<p><p>The dataset presented here is connected to the article \"Ecosystems and Ordering: Exploring the Extent and Diversity of Ecosystem Governance,\" offering data about cooperation initiatives around 221 cross-bordered ecosystems. This sample of cases was selected from a list of 1525 \"meta-ecosystems\" catalogued by the World Wide Fund for Nature (WWF) and a team of scientists (terrestrial ecosystems, [6]; freshwater ecosystems, [2]; and marine ecosystems, [9]). The 221 ecosystems were selected because they are shared by four or more bordering countries. Departing from this unit of analysis, we researched the cooperative cross-border governance anchored in each ecosystem and categorized each of these based on the level and type of cooperation. In generating this dataset, our coding scheme was designed to also capture cases of non-cooperation: when our search protocol did not result in the identification of any initiative for an ecosystem, the ecosystem was coded as a \"zero case.\" When we found initiatives connected to the ecosystems, our coding typology specifically classified cooperation initiatives along two dimensions: cooperation geographical scope and cooperation scope (single or multi-issue). The dataset presents ecosystem-anchored cooperation initiatives, as well as wider initiatives that may address ecosystem issues, to systematically attend to the question of the extent to which and in which form ecosystems are addressed in transboundary governance efforts. The dataset allows for further study of ecosystemic governance patterns, enabling analysis of the causes and consequences of cooperation, since it can be easily integrated with both the ecosystem and state-level data. The dataset is presented in two .csv files and has been handled with R software in order to present the visualization.</p>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"57 ","pages":"111085"},"PeriodicalIF":1.0,"publicationDate":"2024-10-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11609675/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142767326","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Image dataset: Optimizing growth of nonembryogenic citrus tissue cultures using response surface methodology","authors":"Randall P. Niedz,&nbsp;Eldridge T. Wynn","doi":"10.1016/j.dib.2024.111091","DOIUrl":"10.1016/j.dib.2024.111091","url":null,"abstract":"<div><div>The data are images of Valencia sweet orange nonembryogenic tissue grown on different culture media that varied in the composition of the mineral nutrients from three experiments. Experiment 1 was a 5-factor d-optimal response surface design of five groupings of the component salts that make up Murashige and Skoog (MS) basal salt medium. Experiment 2 was a 3-factor d-optimal response surface design of extended ranges of factors 1, 2, and 3 from Experiment 1. Experiment 3 was thirteen formulations that were predicted using the prediction model generated from the 5-factor RSM from Experiment 1. The predictions were for two types of growth. One, points were predicted where growth was equal to MS medium (the standard), and two, points predicted with growth greater than MS medium by a minimum of 25%. An image representative of each formulation in each of the experiments makes up the dataset. The data will be useful for 1) visualizing the effects of the diverse mineral nutrient compositions, effects that may not be fully captured with single measure metrics; 2) development of image analysis applications via computer vision and segmentation algorithms for additional insight or for more rapid and possibly accurate assessment of tissue growth and quality; and 3) as an educational resource to learn how to use multifactor experimental designs to assess in vitro growth.</div></div>","PeriodicalId":10973,"journal":{"name":"Data in Brief","volume":"57 ","pages":"Article 111091"},"PeriodicalIF":1.0,"publicationDate":"2024-10-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142650677","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}