cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3562860.v1
title: Data Paper. Data Paper

description: File List FishMed.zip (MD5: e8b4e12226b84d0ee124c49b6cbf091d)<br>(all files at once) Presence_absence_data.zip (MD5: ba7feb1eb5b97f2fb4633bd7e0ad4443) Functional_data.zip (MD5: 9c4eab5d8c2d1e218ca55b09d800fb03) Phylogenetic_data.zip (MD5: 5d3518e5d29a6db9057ada7e991cc393) Climate_data.zip (MD5: 182b15240736d01457b34f80f135a10b) Description The FishMed database provides traits, phylogeny, current and projected species distribution of Mediterranean fishes, and associated SST from the regional oceanic model NEMOMED8. Data for the current geographical distributions of 635 Mediterranean fish species were compiled from a published expert knowledge atlas of fishes of the northern Atlantic and the Mediterranean (FNAM) edited between 1984 and 1986 and from an updated exotic fish species list. Two future sets of projected species distributions were obtained for the middle and end of the 21st century by using an ensemble forecasting approach for 288 coastal Mediterranean fish species based on SST according to the IPPC/SRES A2 scenario implemented with the Mediterranean climatic model NEMOMED8. The functional part of the database encompasses 12 biological and ecological traits (maximal and common lengths, vertical distribution, habitat, migration type, mode of reproduction, sex shift, semelparity, diet type (larvae and adults), social behavior, species origin and depth) for the 635 fish species. To build the phylogeny we inferred the timing and geographic origins of Mediterranean teleost species diversity using nucleotide sequences collected from GenBank including 62% of Mediterranean teleost species plus nine outgroups. Maximum likelihood Bayesian phylogenetic and dating analyses were calibrated using 20 fossil species. An additional 124 fish species were grafted onto the chronogram according to their taxonomic affinity to obtain a phylogenetic tree including 498 species. Finally we also present the associated SST data for the observed period (1961–1980) and for the middle (2040–2059) and the end of the 21st century (2080–2099) obtained from NEMOMED8 according to the IPCC A2 scenario. The FishMed database might be of interest in the context of global anthropogenic changes as coastal Mediterranean ecosystems are currently recognized as one of the most impacted ecosystems on earth. <i>Key words</i>: <i>climate change; coastal fishes; functional diversity; Mediterranean fish species; Mediterranean Sea; NEMOMED8, species distribution models; phylogenetic diversity; taxonomic diversity.</i>
DOI: 10.17632/rs8n356tpk
title: Data for: Wind Energy in the United Kingdom: Modelling the Effect of Increases in Installed Capacity on Generation Efficiency

description: Background data for analysis of wind fleet
DOI: 10.6084/m9.figshare.12713939.v1
title: Gene database of Clostridium ljungdahlii DSM 13528

description: <i>Clostridium ljungdahlii</i> is a Gram-positive, low GC bacterium that thrives under anaerobic conditions. Able to convert carbon monoxide into ethanol, the bacterium occupies a useful niche in biotechnology, particularly from the perspective of converting waste gases into useful products. Hence, <i>C. ljungdahlii</i> offers an interesting platform for developing into a future biotechnology workhorse in the area of refining C1 compounds into biofuels. This works aims to provide fundamental information of the genetic repertoire of <i>Clostridium ljungdahlii</i> DSM 13528 by parsing the annotated genome sequence of the bacterium downloaded from Genbank. Comprising gene name, gene function, and gene sequence, the resource should find use in a variety of biotechnology workflow aiming to understand functions of genes in the bacterium as well as developing loss-of-function mutants for probing underpinnings of bioprocess inefficiencies.
DOI: 10.6084/m9.figshare.26463268.v1
title: Supplementary Material for: microRNA-216a-5p alleviates acute kidney injury of mice via suppressing FASL expression

description: Introduction: The aim of this present work was to investigate the mechanism of the microRNA (miR)-216a-5p/FASL axis in mice with acute kidney injury (AKI).
Methods: Mice kidney ischemia/reperfusion (I/R) injury was used as AKI models in this study. I/R mice were injected with miR-216a-5p- and FASL-related constructs to investigate potential mechanisms of kidney protection. kidney function, inflammation, oxidative stress, and kidney cell apoptosis were assessed after 24 h of reperfusion. In vitro, the hypoxia-reoxygenation (H/R) model was used with kidney tubular epithelial cells (TECs) to mimic kidney I/R injury. H/R-treated TECs were transfected with miR-216a-5p- and FASL-related constructs to detect cell viability, inflammation, and oxidative stress. miR-216a-5p and FASL expression levels in mouse kidney tissues and in H/R-treated TECs were detected.
Results: miR-216a-5p was downregulated and FASL was upregulated in kidney tissues of I/R mice and H/R-treated TECs. Upregulating miR-216a-5p attenuated kidney cell apoptosis and the damage of kidney function, and reduced inflammatory factor levels and oxidative stress response in kidney tissues of I/R mice. Upregulating miR-216a-5p advanced cell viability and reduced inflammatory factor levels and oxidative stress response in H/R-treated TECs. Downregulation of FASL effectively reversed the influences of downregulation of miR-216a-5p on kidney injury in mice and kidney TEC survival.
Conclusion: Our study reveals that miR-216a-5p reduces I/R-induced pathological kidney damage in AKI via suppressing FASL.
DOI: 10.6084/m9.figshare.27261132.v1
title: GWAS summary statistics

description: Genome-wide association studies (GWASs) on plasma protein abundance, using protein level for individual proteins and module eigengene for protein networks, were conducted in Caucasian participants with QC-ed genotyping data from the UK Biobank. To avoid bias due to participant overlap, separate GWASs for social isolation (N = 297,396) and loneliness (N = 288,696) were performed using a distinct set of Caucasian participants, excluding those involved in the protein-related GWASs. Age, sex, and the first 20 genetic PCs were adjusted for in all GWASs, while protein technical factors were additionally accounted for in GWASs of proteins and protein modules.
DOI: 10.6084/m9.figshare.28776014.v1
title: RPA_Workflow

description: RPA_Workflow
DOI: 10.6084/m9.figshare.29181017.v1
title: Test.zip

description: This is a test file.
DOI: 10.6084/m9.figshare.7996328.v4
title: Sapling leaf and root traits from 6.6 km Jianfengling transect

description: These data were collected during the summer of 2017 in Jianfengling, Hainan Island, China. Juvenile tropical trees were sampled for leaves and root systems. Leaves and root systems were scanned, dried and weighed, and morphological traits were quantified with WinFolia (for leaves) and WinRhizo (for roots). About 1 kg of surface soil was collected from the area where root systems were excavated and collected. The soil samples (300 in total) were sieved and sent for laboratory analysis by the Guangzhou Xinhua Agricultural Limited Company in Guangzhou, China. <br>Plant functional trait and abiotiic soil chemistry data are provided in three separate files, one for leaf traits (CHINAROOTS_Leaf Traits.csv), one for root traits (CHINAROOTS_Root Traits.csv) and one including soils data (soil300.csv). Please see: Figshare_metadata.txt for complete variables descriptions for each datafile. <br>see www.experiment.com/chinaroots for a greater description of this research project. Address correspondence regarding these data to J. Aaron Hogan (jamesaaronhogan at gmail dot com). <br><br>This dataset is related to our article published in Annals of Forest Science (2020):<br>Hogan, J.A., Valverde-Barrantes, O.J., Ding, Q. et al. Morphological variation of fine root systems and leaves in primary and secondary tropical forests of Hainan Island, China. Annals of Forest Science 77, 79 (2020).<br><br>
DOI: 10.17632/98prxvbk8s
title: Antifungal activity of some Mentha species

description: Antifungal activity The bioassay was performed in Petri dishes (90x15 mm and 150x20 mm) with dissolving depending on mint 200, 300 and 400 µg/mL (Tween 20, 0.1%) of EO in previously sterilised Potato Dextrose Agar (PDA-Pronodisa) growth medium flasks at 45-50ºC, while the medium was still liquid to be distributed in Petri dishes. Petri dishes were inoculated with an 8 mm-diameter disk of a 7-day old colony on the PDA of each tested fungi. Plates were incubated in the dark at 25ºC for 7 days. Fungal growth was evaluated by measuring the colony diameter in two perpendicular directions daily. Five replicate dishes were used for each EO, dose and fungus, it was done 3 times. The control Petri dishes contained only PDA/Tween 20 (0.1%) and the analysed fungus. Mycelial growth was evaluated by measuring the perpendicular colony diameters after 7 days.
DOI: 10.48420/17112041.v1
title: Protein mass spec.csv

description: Mass change for QueF with preQ0/BnCN
DOI: 10.6084/m9.figshare.15124742.v2
title: The effectiveness of mass media campaigns in increasing the use of seat belts: A systematic review

description: This systematic review and meta-analysis was conducted to determine the effectiveness of mass media campaigns for increasing the use of seat belts among drivers and front seat passengers. We systematically searched the PubMed, EMBASE, Web of Science (WOS), and Scopus databases from November 1974 until June 2020 to identify before-after studies investigating the effect of mass media campaigns on seat belt use. The quality of all included studies was assessed using the National Institute of Health (NIH) tool. Chi-Squared tests and the I<sup>2</sup> statistic were used to evaluate inter-study heterogeneity, while the odds ratio (OR) was used as a measure of effect size. Of the 793 records initially identified, twenty articles were found to be appropriate for the current meta-analysis. Of these, 13, 5, and 2 studies were rated as good, fair, and poor quality, respectively. The meta-analysis finding using random effects model showed that mass media campaigns resulted in statistically significant increases in seat belt usage among drivers (OR= 1.40, 95% CI: 1.18- 1.68) and front seat passengers (OR= 1.54, 95% CI: 1.31- 1.82). Due to the presence of heterogeneity (I<sup>2</sup>: 99.7% for drivers; I<sup>2</sup>: 99.1% for front passengers), additional analyses were also undertaken. Sensitivity analyses showed that the pooled ORs remained consistent after removing each study one by one. Statistically significant increases in seat belt use among drivers were found in mass media campaigns which: had measurement periods longer than 12 months, were used in combination with enforcement activities, were published after 2000, and had good quality scores. The current meta-analysis found that mass media campaigns can lead to an increase in seat belt use among drivers and front passengers. However, these results should be interpreted with some degree of caution, due to the high degree of heterogeneity between studies and the fact that most of the studies were from high-income countries without control groups. Despite the apparent favorable impact of mass media campaigns, more robust long term studies are needed.
DOI: 10.6084/m9.figshare.17054564.v1
title: supplementary data for fineSTRUCTURE analysis of Vibrio fluvialis

description: these are supplementary data for fineSTRUCTURE analysis
DOI: 10.6084/m9.figshare.25241794.v3
title: Chromosome-level genome and annotation of the two-spotted spider mite <i>Tetranychus urticae</i>

description: We assembled chromosome-level genomes of <i>Tetranychus urticae</i> using Illumina, Nanopore, and Hi-C sequencing technologies. The assembled contigs had a total length of 103.94 Mb (N50 of 3.46 Mb), but this was reduced to 87.7 Mb following scaffolding to the chromosome level. This genome had BUSCO completeness of 94.8% and exhibited high synteny to previously published TSSM genome assemblies. We identified 15,604 protein-coding genes with a BUSCO completeness of 93.4%. The high-quality genome provides invaluable resources for the genetic and evolutionary study of TSSM.
DOI: 10.6084/m9.figshare.12906959.v2
title: Ext. F4 - device characterization

description: J-V curves and EQE spectra of DR3-, PBDB-T-2F-, PTB7-Th- and PBDB-T-SF-based devices, as presented in Extended Data Figure 4.<br>
DOI: 10.6084/m9.figshare.28532795.v1
title: 考虑三维加载约束的工作负载平衡和车辆路径联合优化

description: <b>标题</b><b>三维装载约束下车辆路径问题数据集（3D Loading Constrained Vehicle Routing Problem Dataset）</b><b>摘要</b>该数据集为研究三维装载约束下的车辆路径问题（3D L-CVRP）提供了全面的数据支持。数据包括来自 CVRPLIB 库中以 “E” 开头的基础数据集，以及真实案例数据（case_data）。案例数据包含站点编码、站点坐标、商品编码、站点货物需求量（单位：kg）等信息。此外，数据集还包含六个实验数据文件（experimental_data_1-6），其结构与案例数据一致。商品信息表（commodity_information）提供了商品的编码、长宽高（单位：毫米）和体积（单位：立方厘米）等详细信息。本数据集适用于三维装载优化、车辆路径规划及相关领域的研究。<b>数据描述</b><b>CVRPLIB 数据集</b>来源：CVRPLIB 库中以 “E” 开头的数据集，作为基准数据使用。<b>案例数据（case_data）</b><b>station_code</b>：站点编码，唯一标识每个站点。<b>X_coordinate</b>：站点的 X 坐标。<b>Y_coordinate</b>：站点的 Y 坐标。<b>commodity_code</b>：商品编码，唯一标识每个商品。<b>demand（kg）：</b>站点的货物需求量，单位为千克（kg）。<b>实验数据（experimental_data_1-6）</b>结构与案例数据（case_data）一致，用于不同实验场景下的验证和分析。<b>商品信息表（commodity_information）</b><b>commodity_code</b>：商品编码，与案例数据和实验数据中的商品编码对应。<b>length（mm）：</b>货物的长度，单位为毫米（mm）。<b>width（mm）：</b>货物的宽度，单位为毫米（mm）。<b>height（mm）：</b>货物的高度，单位为毫米（mm）。<b>volume（cm³）：</b>货物的体积，单位为立方厘米（cm³）。<b>单位说明</b>长度、宽度、高度：毫米（mm）需求量：千克（kg）体积：立方厘米（cm³）<br>
DOI: 10.6084/m9.figshare.28881314.v3
title: Comprehensive Climate, Soil, Agronomic, and Management Dataset for Data-Driven Cotton Irrigation in NW China

description: This unique dataset integrates climate data, real-time soil sensor data, agronomic data, and crop management data, specifically designed to enhance smart irrigation decision-making for cotton in the semi-arid climate of Northwest China. The dataset establishes correlations between cotton yields, soil conditions, and climatic factors, including detailed records of irrigation, fertilization, crop yields, and soil moisture. To demonstrate its utility, the dataset was validated through the application of advanced machine learning techniques, including reinforcement learning (RL) and algorithms such as DNN, XGBoost, MLP, and RF, to optimize irrigation strategies and simulate irrigation-yield relationships. These approaches effectively balanced crop yield maximization with water use efficiency, underscoring the dataset’s potential to advance sustainable agricultural practices. This dataset serves as a valuable resource for data-driven agricultural research, enabling smart decision-making, validating crop models, and improving agricultural sustainability.
DOI: 10.6084/m9.figshare.3555807.v1
title: Results.sav

description: These are the raw data used in our study.
DOI: 10.17632/4x27jjp9mv
title: Natural sleep electrophysiology: mPFC, thalamus, hippocampus

description: This data set includes local field potential recordings, obtained from the mPFC, midline thalamus and the hippocampus of head-fixed cats during natural sleep/wake cycles. Recordings were obtained using stainless-steel electrodes or high-impedance tetrodes constructed out of 12.5 micron wires. 
We observed high-amplitude bursts of gamma activity (~40 Hz), phase-locked to a 1-Hz respiration-related potential during wakefulness but not during NREM or REM sleep.  Gamma bursts were coherent across the mPFC-thal-hipp network.
DOI: 10.6084/m9.figshare.13440131.v1
title: 沙巴的故事19：点首情歌给你听Sabah's Stories 19: Let's Sing a Sabah's Song

description: The article talks about Sabah's songs, and translate the song's lyric into Chinese Language.
DOI: 10.6084/m9.figshare.21919338.v3
title: biopsy_spatial_CosMx.h5ad

description: CosMx 960-plex RNA-ISH dataset of formalin-fixed, paraffin-embedded (FFPE) colon biopsies from healthy controls and patients with ulcerative colitis on aminosalicylates or vedolizumab. Addendum 8/29/24: added expression matrix, metadata, and fov positions files
DOI: 10.6084/m9.figshare.24256069.v1
title: Dimorphos orbit solution JPL 547

description: Supplementary material for paper titled "Orbital and physical characterization of asteroid Dimorphos following the DART impact"
DOI: 10.6084/m9.figshare.3384802.v5
title: Multilabel classification with R package mlr

description: This is the code that is used for the benchmark study in the paper "Multilabel classification with R package mlr".<br>
DOI: 10.6084/m9.figshare.5121655.v1
title: Supplementary Material for: Tooth Size Variation Related to Age in Amboseli Baboons

description: We measured the molar size from a single population of wild baboons from Amboseli (Kenya), both females (n = 57) and males (n = 50). All the females were of known age; the males represented a mix of known-age individuals (n = 31) and individuals with ages estimated to within 2 years (n = 19). The results showed a significant reduction in the mesiodistal length of teeth in both sexes as a function of age. Overall patterns of age-related change in tooth size did not change whether we included or excluded the individuals of estimated age, but patterns of statistical significance changed as a result of changed sample sizes. Our results demonstrate that tooth length is directly related to age due to interproximal wearing caused by M2 and M3 compression loads. Dental studies in primates, including both fossil and extant species, are mostly based on specimens obtained from osteological collections of varying origins, for which the age at death of each individual in the sample is not known. Researchers should take into account the phenomenon of interproximal attrition leading to reduced tooth size when measuring tooth length for ondontometric purposes.
DOI: 10.17632/wdsfn8wczc
title: The Characterisation of Pulmonary Function in Patients with Mucopolysaccharidoses IVA: A Longitudinal Analysis.
DOI: 10.5281/zenodo.14808370
title: Annotation guidelines and data for complex known-item search requests for leisure domains

description: This dataset consists of the forum threads that have been annotated for known-item search. The post containing the search request and the post containing the correct answer have been marked, as well as the post where the original poster confirms the correct has been given. The guidelines explain the annotation process.

This dataset is used for and described in the ACM CHIIR 2025 paper entitled "Exploring the Zero-Shot Known-Item Retrieval\\ Capabilities of LLMs for Casual Leisure Information Needs".
DOI: 10.6084/m9.figshare.25911130.v1
title: Book1.xlsx

description: data pilot
DOI: 10.6084/m9.figshare.27087064.v1
title: Statistics of histological parameters of chemosensory system in lizards with different foraging modes

description: At least 20 sections were prepared for each lizard, with approximately four consecutive tissue samples per section to ensure that the NOS and VNS tissues were completely cut. Paraffin sections were stained using Hematoxylin-Eosin (H.E) staining. The NOS and VNS of each lizard were photographed using a Motic BA210 digital microscope (Motic Industrial Group Limited, China). The thickness of the sensory epithelium in the middle of the NOS and VNS of each lizard was measured under 100X magnification using a Motic Images Plus 3.0 micrometry system (Motic Industrial Group Limited, China), and each visual field was randomly measured three times. Three consecutive sections from the middle part of the NOS and VNS were selected from each lizard. The number of olfactory sensory cells and vomeronasal sensory cells in a 60×60 μm area in similar parts of each lizard was counted under 400 X magnification using the cell counting tool in Adobe Photoshop (24.0.0), one complete cell was counted when half of the cells fell inside the square.
DOI: 10.6084/m9.figshare.28082876.v1
title: Dataset

description: Dataset for the paper "Subordinate tree species diversity explains carbon stock better than dominant tree diversity after decades of forest rewilding"
DOI: 10.6084/m9.figshare.7843403.v1
title: MOESM3 of Phenotypic and genetic characterisation revealed the existence of several biotypes within the Neorautanenia brachypus (Harms) C.A. wild accessions in South East Lowveld, Zimbabwe

description: Additional file 3. Binary data presentation of the RAPD Polymorphic DNA fragments for the 14 morphologically distinguished biotypes. The file shows the binary score of each polymorphic DNA fragment produced by the RAPD banding pattern. The columns are the biotypes while the rows are the RAPD primers; indicating primer name and polymorphic DNA fragment size. The fragments are scored for each biotype as presence or absent; one and zero respectively.
DOI: 10.6084/m9.figshare.21500616.v1
title: personalized medicine

description: personalised medicine
DOI: 10.6084/m9.figshare.22255471.v1
title: Numerically Simulated Bulk Acoustic Modes of a Glycerol Droplet

description: The bulk acoustic modes of a glycerol droplet of a hemispherical-cap shape (130 um tall, 600 um in base diameter) up to 40 MHz.
DOI: 10.6084/m9.figshare.28468946.v1
title: bpRNA-NF-15.0: an RNA secondary structure dataset for family-wise evaluation

description: The bpRNA-NF-15.0 is an RNA sequence and secondary structure dataset that exclusively includes new families from the ones contained in bpRNA-1m.<br>Using bpRNA-1m as a training dataset and bpRNA-NF-15.0 as a test dataset, it is possible to check for generalization capabilities to unseen families.<br>bpRNA-new is, to our knowledge, the only current other dataset designed for this.<br>bpRNA-NF-15.0 is based on the latest Rfam version (15.0) and contains twice as many new families compared to bpRNA-new, as well as longer RNA sequences up to 951 nt, whereas bpRNA-new only contains RNA sequences shorter than 500 nt.<br>We also provide here the Train, Validation and Test datasets described in our study. All three are built from bpRNA-1m. The Test dataset is a sequence-wise dataset in regards to the Train dataset. It is ensured that sequence similarities cannot exceed 80% between the two datasets, using the tool CDHIT-EST, but there may be RNA families in common.<br><br>Each dataset contains 3 variables:<br>- rna_name: the name of this sequence, as taken from the source dataset (Rfam for bpRNA-NF-15.0, or bpRNA-1m for Train / Validation / Test).<br>- seq: the RNA sequence.<br>- struct: its secondary structure in dot-bracket notation.<br>The bpRNA-NF-15.0 dataset was extracted from Rfam 15.0, following a procedure similar to the one that was used to build bpRNA-new.<br>First, RNA sequences were selected from Rfam 15.0, but only from families that are not included in Rfam 12.2.<br>This is to ensure that no common families are found with bpRNA-1m, since bpRNA-1m was built from Rfam 12.2.<br>Utility functions were applied to clean potential discrepancies, like converting sequence characters to capital letters, or ensuring efficient bracket representation.<br>Non-canonical base pairs were removed.Then, the CDHIT-EST software was applied at an 80% similarity threshold to remove redundancies in the dataset.<br><br>To cite this dataset, please use:<br>Omnes L., Angel E., Bartet P., Tahi F. A divide-and-conquer approach based on deep learning for long RNA secondary structure prediction: focus on pseudoknots.