cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22124219.v6
title: Global Urban Network Dataset

description: The Global Urban Network (GUN) dataset provides pre-computed node and edge attribute features for various cities. Each layer is available in .geojson format and can easily be converted into NetworkX, igraph, PyG, and DGL graph formats. <br> For node attributes, we adopt a uniform Euclidean approach, as it provides a consistent, straightforward, and extensible basis for integrating heterogeneous data sources across different network locations. Accordingly, we construct 100 metres euclidean buffers for each network node and compute the spatial intersection with spatial targets (e.g., street view imagery points, points of interest, and building footprints). To ensure spatial consistency and accurate distance computation, we project spatial entities into local coordinate reference systems (CRS). Users can employ the Urbanity package to generate Euclidean buffers of arbitrary distance. <br> For edge attributes, we adopt a two-step approach: 1) compute the distance between each spatial point of interest and its proximate edges in the network, and 2) assign entities to the corresponding edge with lowest distance. To account for remote edges (e.g., peripheral routes that are not located close to any amenities), we specify a distance threshold of 50 metres. For buildings, we compute the distance between building centroids and their respective network edge. Accordingly, we compute spatial indicators based on the set of elements assigned to each network edge. <br> We also release aggregated subzone statistics for each city. Similarly, users can employ the Urbanity package to generate aggregate statistics for any arbitrary geographic boundary. <br> Urbanity Python package: https://github.com/winstonyym/urbanity. <br> <br> <br> <br> <br>
DOI: 10.6084/m9.figshare.28375862.v1
title: SLR_Conceptual Change 2021-2023.xlsx

description: Database for Systematic Literature Review
DOI: 10.6084/m9.figshare.6007232.v1
title: GEP-NET transcriptional regulatory network

description: Gastro-Entero-Pancreatic Neuroendocrine Tumors (GEP-NET) transcriptional regulatory network assembled by the ARACNe algorithm and formated to be used with the VIPER algorithm
DOI: 10.17632/xp277xg3t6
title: Supplementary Materials for "Reduction of masseter muscle prominence after treatment with onabotulinumtoxinA: primary results from a randomized phase 2 study"

description: Supplementary tables and figures for "Reduction of masseter muscle prominence after treatment with onabotulinumtoxinA: primary results from a randomized phase 2 study"
DOI: 10.6084/m9.figshare.22262404.v1
title: data 1. demographic and professional.xls

description: Demographic and professional attributes of teachers participating in the study
DOI: 10.6084/m9.figshare.28594493.v1
title: Stress resistance of entomogenous fungi

description: Resistance of <i>Beauveria bassiana</i> and <i>Metarhizium rileyi</i>
DOI: 10.6084/m9.figshare.28716461.v2
title: Supplementary Tables

description: This study reveals the pivotal role of GR-mediated transcriptional regulation in stress-induced FLS in chickens. Chronic stress modeled with CORT disrupted mitochondrial SC assembly, impairing electron transport, elevated ROS production, and liver steatosis. Notably, the downregulation of Complex I assembly factors (NDUFAF5, NDUFAF7, and TIMMDC1) and reduced GR binding to NDUFAF5 were key mechanisms. These findings provide new insights into stress-driven mitochondrial dysfunction in broiler FLS.
DOI: 10.6084/m9.figshare.28874213.v1
title: Supplementary Material for: Female Simplex Carriers of X-linked Retinal Dystrophies: A Case Series

description: Introduction: X-linked inherited retinal dystrophies (IRDs) lead to progressive vision loss in affected males and include Choroideremia (CHM), X-linked Retinitis Pigmentosa (XLRP), and X-linked Cone-Rod Dystrophy (XLCORD). Female carriers may be asymptomatic or manifest disease ranging from mild to severe. Due to the variable manifestation of disease in females, some pedigrees can appear autosomal dominant. However, female carriers presenting as simplex probands are rare and X-linked disease may not be suspected in these cases without genetic testing. 

Case Presentations: Three affected simplex CHM carriers and six affected simplex XLRP or XLCORD carriers due to variants in RPGR (n=5) or RP2 (n=1) were included. Best corrected visual acuity (BCVA), color fundus photos, fundus autofluorescence (FAF), optical coherence tomography (OCT), electroretinography (ERG) and Goldmann visual fields (GVF) were collected. X chromosome inactivation (XCI) ratios were determined for 4 cases. Age of onset ranged from infancy to 43 years, with nyctalopia as the most common presenting symptom. 4 out of 5 cases with RPGR variants presented with cone or cone-rod dystrophies while the remaining cases presented with rod-cone dystrophy. XCI analysis revealed extreme skewing in 2 cases who both presented with severe disease. 4 out of 7 cases with FAF demonstrated autofluorescence patterns classic for carrier status. The remaining 3 cases had severe disease and corresponding FAF patterns consistent with their severity. 

Conclusion: The absence of family history does not preclude X-linked inheritance in females with retinal dystrophies. Multimodal imaging such as FAF and red-free photos should be included in the work-up. As new therapeutic strategies are developed for choroideremia and RPGR-associated retinal degeneration, including gene therapy, it may become increasingly more important to diagnose symptomatic carriers, as it has been previously shown that earlier intervention is more effective in IRD populations.
DOI: 10.6084/m9.figshare.29146199.v1
title: protocolo

description: A revisão escopo proposta será conduzida de acordo com a metodologia JBI para revisões de escopo. Esse tipo de revisão busca identificar e mapear sistematicamente a amplitude das evidências disponíveis na literatura sobre um determinado tema, campo, conceito ou problema dentro contexto determinado, oferecendo uma visão mais abrangente.Para o cumprimento das etapas requeridas para a metodologia, utilizar-se-a as recomendações do <i>Preferred Reporting Items for Systematic reviews and Meta-Analyses extension for Scoping Reviews</i> (PRISMA-ScR).Essa revisão será desenvolvida seguindo seis etapas: elaboração da questão de pesquisa; identificação de estudos relevantes seleção dos estudos; mapeamento dos dados; coleta, resumo e descrição dos achados; e divulgação dos resultados.Utiliza-se-a, inicialmente, a estratégia denominada de População, Conceito e Contexto (PCC) para direcionar e delimitar o escopo do estudo, sendo P (população) = Pacientes adultos com qualquer tipo de reação transfusional imediata, C (Conceito) = assistência de enfermagem a pacientes com reação transfusional e C (contexto) = ambiente hospitalar. O uso do acrônimo contribuiu na formulação da pergunta de pesquisa “quais são os cuidados de enfermagem a pacientes com reações transfusionais imediata descritas na literatura?”<br>
DOI: 10.6084/m9.figshare.3822120.v1
title: Rio de Janeiro Botanical Garden Herbarium dataset - 2016-09-11

description: TEST VERSION - DO NOT USE IT - This archives follows the pattern of the Core Occurrence and Identification History Extension of the Darwin Core Archive data standard.
DOI: 10.17632/22p2vcbxfk
title: Dataset of groundnut plant leaf images for classification and detection

description: Data for publication in Data in Brief.
DOI: 10.17632/xjwm5ygymn
title: Plk1 gene regulatory network involved in genomic instability

description: Recently, the dynamics behind the events of genomic instability have gained relevance due to their association with specific genes and cellular mechanisms, which are presented as new and powerful therapeutic alternatives for the disease. Previous studies found the gene Plk1 as a candidate for genomic instability; however, the mechanisms by which the gene and its dysregulation could induce genomic instability events weren’t entirely clear. Therefore, to elucidate the mechanisms, gene circuits, and proteins involved in the genomic instability events promoted by Plk1, a novel approach that involved the reconstruction and modeling of the regulatory network of Plk1 was adopted. The network contains nine processes where Plk1 participates that are involved in maintaining the stability of the genome. Subsequently, mathematical modeling of the regulation network was carried out under a mass action law kinetic approximation to generate a model with 1030 reactions and 716 biological species. The simulations allowed the identification of three interaction circuits between proteins that can potentially induce a genomic instability event as a product of Plk1 dysregulation. Additionally, eight proteins previously associated with genomic instability were identified within the circuits and proposed to amplify the genome instability event. As a novelty, the proteins KIF2C and INCENP are postulated as candidates to participate in the genomic instability process. The information contained herein can be used to feed future models, which are built under similar approaches.
DOI: 10.6084/m9.figshare.14192933.v1
title: River herring culvert passage

description: Data used in analyses in the manuscript entitled: "Culverts delay upstream and downstream migrations of river herring (Alosa spp.)".<br>
DOI: 10.6084/m9.figshare.21082531.v1
title: No-ayahuasca

description: Pearson's connection matrix of the EEG experiments of subjects who ingested Ayahuasca at the time before the psychedelic activation time.
DOI: 10.6084/m9.figshare.25193852.v1
title: GPOC ROBINS-I Final.xlsx

description: This is the Bias ROBINS-I Final Excel file for the article:Lidströmer et al, Systematic review and meta-analysis for a Global Patient co-Owned Cloud (GPOC), Nature Communications, DOI: 10.1038/s41467-024-46503-5.<br>
DOI: 10.6084/m9.figshare.29070122.v1
title: Greening-cambridge-input-data

description: This data set contains the inputs as used for the research project gha26-greening-cambridge. This includes data gathered from online sources to represent the town of Pirmasens for the case study.
DOI: 10.6084/m9.figshare.29137328.v1
title: GIS files left side

description: GIS files left side
DOI: 10.6084/m9.figshare.29177555.v1
title: Supplementary Materials A and C

description: Supplementary Material A & C for Jas Singh's PhD Thesis.
DOI: 10.6084/m9.figshare.12520409.v1
title: GASVM and GA k-means

description: Unsupervised clustering (e.g., K-means) and supervised machine learning (e.g., support vector machines (SVMs)) methods can be used in data-driven classification and predictive mapping of mineral prospectivity.<br>
DOI: 10.6084/m9.figshare.12645713.v1
title: Data for the nonlinear composite Boussinesq equation for estimating baseflow recessions and storage-outflow relationships

description: A nonlinear composite Boussinesq equation for estimating baseflow recessions and storage-outflow relationships
DOI: 10.6084/m9.figshare.13297913.v1
title: DN-CSCs

description: Raw data for all graphs used in the manuscript.
DOI: 10.6084/m9.figshare.20538408.v1
title: Per2-luc phases and periods in 661W cells

description: The peak phases and circadian periods of Per2-luc biouminescence rhythms in 661W cells
DOI: 10.6084/m9.figshare.25827034.v1
title: Memo2496

description: Music emotion recognition delineates and categorises the spectrum of emotions expressed within musical compositions by conducting a comprehensive analysis of fundamental attributes, including melody, rhythm, and timbre. This task is pivotal for the tailoring of music recommendations, the enhancement of music production, the facilitation of psychotherapeutic interventions, and the execution of market analyses, among other applications. The cornerstone is the establishment of a music emotion recognition dataset annotated with reliable emotional labels, furnishing machine learning algorithms with essential training and validation tools, thereby underpinning the precision and dependability of emotion detection. The Music Emotion Dataset with 2496 Songs (Memo2496) dataset, comprising 2496 instrumental musical pieces annotated with valence-arousal (VA) labels and acoustic features, is introduced to advance music emotion recognition and affective computing. The dataset is meticulously annotated by 30 music experts proficient in music theory and devoid of cognitive impairments, ensuring an unbiased perspective. The annotation methodology and experimental paradigm are grounded in previously validated studies, guaranteeing the integrity and high calibre of the data annotations.
DOI: 10.6084/m9.figshare.4272818.v1
title: JGB Progensis QIP Diaphragm analysis.xlsx

description: Supplementary tables of proteomic analysis of rat diaphragm - either detergent soluble fraction or mitochondrial enriched fraction reported in Sollanek et al "Global Proteome Changes in the Rat Diaphragm Induced by Endurance Exercise Training"<br>
DOI: 10.17605/osf.io/juy3g
title: Relational Nature of Subjective Well-Being - database

description: The catalog contains data collected as part of a study on the relational nature of subjective well-being. It presents anonymized data from the preliminary study (descriptions of SWB components and self-assessment of life in the context of these components) as well as the categorization of phrases conducted in the second study, which attempted to link well-being components to various social relationships.
DOI: 10.17632/pfwyrmffdp
title: The Study of Epigenetic Memory of COVID-19 in Innate Immune Cells and Their Progenitors. Cheong et al 

description: Table S1. Demographic, Clinical and QC Data, Related to STAR Methods 
Table S2. Cell type-defining marker genes, Related to STAR Methods
Table S3. Time-series DAR clustering data, Related to Figure 1 and 4
Table S4. Differentially expressed genes across cohorts, Related to Figure 2, 5, and 6
Table S5. Differentially active DORC-associated genes across cohorts, Related to Figure 2, and 5
Table S6. Differential TF activity across cohorts, Related to Figure 2, 5, 6, and 7
Table S7. Legendplex data and normalized gene count matrix of select DEG from monocyte stimulation experiment, Related to Figure 2
DOI: 10.25452/figshare.plus.20338177.v2
title: Dataset supporting "Functional antibodies exhibit light chain coherence"

description: The vertebrate adaptive immune system modifies the genome of individual B cells to encode antibodies binding particular antigens. In most mammals, antibodies are composed of a heavy and a light chain which are sequentially generated by recombination of V, D (for heavy chains), J, and C gene segments. Each chain contains three complementarity-determining regions (CDR1-3), contributing to antigen specificity. Certain heavy and light chains are preferred for particular antigens. We considered pairs of B cells sharing the same heavy chain V gene and CDRH3 amino acid sequence and isolated from different donors, also known as public clonotypes. We show that for naive antibodies (not yet adapted to antigens), the probability that they use the same light chain V gene is ~10%, whereas for memory (functional) antibodies it is ~80%. This property of functional antibodies is a phenomenon we call <em>light chain coherence</em>. We also observe it when similar heavy chains recur <em>within</em> a donor. Thus, though naive antibodies appear to recur by chance, the recurrence of functional antibodies reveals surprising constraint and determinism in the processes of V(D)J recombination and immune selection. For most functional antibodies, the heavy chain determines the light chain.
DOI: 10.6084/m9.figshare.12638513.v1
title: Gene database of Vibrio cholerae

description: Comma-shaped under a microscope, <i>Vibrio cholerae</i> is the aetiological agent for cholera that continues to plague the population in areas with poor sanitation. The bacterium is Gram-negative and facultative anaerobic, which provided it with a range of metabolic options that could be supported by either aerobic respiration or fermentation. Armed with a polar flagellum as well as pili, <i>V. cholerae</i> is a motile bacterium. This work sought to provide fundamental information on the genetic repertoire of <i>V. cholerae</i> by parsing its annotated genome sequence downloaded from Genbank. Comprising gene name, gene function and gene sequence of all genes in the genome of <i>V. cholerae</i>, the resource should be useful in identifying potential genes involved in pathogenesis as well as guiding genome editing effort to construct loss of function mutants for understanding new facets of its pathogenesis mechanisms.
DOI: 10.6084/m9.figshare.1521157.v1
title: Computer Vision Cracks the Leaf Code (PNAS 2016): Extended Heat Map Outputs

description: Extended heat map outputs, as in Fig. 1 of the primary article in <i>PNAS*</i>, for Wolfe National Cleared Leaf Collection specimens in the 19 families in the experiment shown in Fig. 3<i>A</i> of the primary article (19 pdf files). Please see Fig. 1 caption in the primary article for explanation. *Wilf, P, S Zhang, S Chikkerur, SA Little, SL Wing, T Serre. 2016. Computer vision cracks the leaf code. <i>PNAS </i>113(12): 3305-3310.
DOI: 10.6084/m9.figshare.26882425.v1
title: p_paraeruginosa_allstrains_allcontigs.fasta

description: This database file contains the sequences of all 7 complete genomes and all contigs of 75 draft genomes of the novel species <i>Pseudomonas paraeruginosa. </i>Currently only a few of these have been correctly identified in NCBI; most are still called <i>Pseudomonas aeruginosa</i>. DNA and protein searches (blastn, tblastn) using the NCBI wgs database, limited to the genus <i>Pseudomonas</i>, are very slow and often exceed CPU limits. This database (~580Mb) can be searched using Pearson's fasta36 or tfastx36 (among other tools) in under a minute on a personal computer e.g. MacBook Pro.
DOI: 10.6084/m9.figshare.28235432.v1
title: data for Mochizuki and Watanabe-Taneda "Wasp pollination and pollinator filtering by dense hairs at the floral tube entrance in <i>Marsdenia tinctoria </i>(Apocynaceae)"

description: The physical filtering of pollinators is an important factor influencing pollination effectiveness. This study explored the potential functions of dense hairs that completely obstruct the entrance of floral tube in <i>Marsdenia tinctoria </i>by characterizing the flowers of this species, as well as its pollinators and their behavior. The corolla was white upon blooming in the morning, then turned yellow at night, and the flower finally dropped by the third morning. The hairs tended to be disheveled in yellow-petaled flowers. Pollination success increased with floral age. Direct observations of flowers in natural <i>M</i>.<i> tinctoria </i>populations over a period of 32 h recorded 126 visitors, of which 70% were wasps. We observed pollinia attached to the mouthparts of wasps, carpenter bees, and honeybees, but not to those of butterflies, moths, flies, or ants. Detailed examination of insect mouthparts and floral morphology indicated that insect visitors that acted as pollinators had mouthparts longer than the floral tubes, equipped with hairs to which pollinia could attach. The mouthparts of potter wasps were often covered with pollinaria, carrying on average 30–75 pollinia. The dense floral hairs were penetrated by large-bodied visitors, and blocked smaller visitors. Disturbance of these floral hairs allowed smaller insects to access nectar, suggesting that the hairs function in preventing nectar theft by smaller insects. This study presents the first case of wasp pollination in the genus <i>Marsdenia </i>and provides insights into the potential function of its dense floral hairs, a synapomorphy of this genus, in filtering floral visitors.
DOI: 10.6084/m9.figshare.28726628.v2
title: Solving an inverse problem with generative models

description: This project contains the dataset used in the manuscript "Solving an inverse problem with generative models". The code and documentation for using this data set are available in the manuscript. See the preprint at https://doi.org/10.26434/chemrxiv-2025-nl9gl.
DOI: 10.6084/m9.figshare.5028212.v1
title: Springer Nature 2017_Social Media Survey

description: Data linked to the Springer Nature 2017 social media and scholarly collaboration network survey
DOI: 10.6084/m9.figshare.5413261.v1
title: Opinion diffusion on multilayer social networks

description: This web page contains the supplementary information for the paper “Opinion diffusion on multilayer social networks” by H.-B. Hu et al. The supplementary information files include three folders (.rar file) which provide generated networks used for experiments and a Word file which provides the research on networks with more than 2 layers and a description of the network datasets in the three folders.
DOI: 10.6084/m9.figshare.6654821.v2
title: DATABASE HEALTHCARE UTILIZATION AND HEALTH BEHAVIORS PROSPECTIVE APPROACH

description: Follow-up study, Health workers cohort study, prospective association of health behaviors and health services utilization
DOI: 10.6084/m9.figshare.8428010.v1
title: Raw data of VSM of MNS1. from Synthesis of poly(acrylic acid) coated magnetic nanospheres via a multiple polymerization route

description: Document contains all the raw data of the MNS1 VSM curve in Fig.5.
DOI: 10.17632/4w6fcyzdfp
title: Dataset for Cyberbullying Severe Classification

description: We retrieved 7,547 tweets from comment section of Nigerian topmost influential twitter handles from July 12, 2022 to September 22, 2022. The acquired datasets of comments were then cleaned, keeping only the text (remove User handle, URL, emotional signs, etc.) and filtered to remove duplicated comments using Python. The datasets consist of severe classification
DOI: 10.17632/8gpcbtprv6
title: Data on the bioluminescence, cell viability, and biofilm formation of Photobacterium leiognathi strains exposed to ground microplasticss

description: ABSTRACT
This dataset provides comprehensive measurements of bioluminescence, cell viability, and biofilm formation in Photobacterium leiognathi strains (LB01 and LB09) exposed to varying concentrations of ground microplastics (GMPs). The study aims to investigate the effects of GMPs exposure on these critical bacterial functions, offering insights into the environmental impact of MPs on marine luminous bacteria.

DATA DESCRIPTION
The bioluminescence data, which expressed as specific bioluminescence (SBF), includes measurements recorded in Log relative light units (Log RLUs) using Glomax Discover (Promega Instrument). These measurements were taken at multiple time intervals, such as every 5 h for 3.1 days (75 h) or 24 h for 7 days, to capture the temporal changes in bioluminescence activity during and after (post-exposure experiment) exposure to GMPs (Tables S1-S4). 
For cell viability, the data represented as optical density (ODs) at 560 nm. MTT assays were conducted to determine cell viability. The wells were added with MTT solution (5 mg/mL concentration), incubated for 8 h and dissolved with dimethyl sulfoxide. This analysis enabling an examination of the impact of GMPs on bacterial growth and survival (Tables S5-S6).
Biofilm formation data was obtained by quantifying the biofilm biomass using 1% crystal violet solution. This involved measuring the ODs at 570 nm to determine the amount of biofilm produced by Phb. leiognathi under each condition. The dataset includes biofilm measurements for both the control (unexposed to GMPs) and experimental groups, corresponding to the same GMP concentrations used in the bioluminescence and cell viability experiments (Tables S7-S8).

This dataset is valuable for researchers studying the environmental effects of microplastics on marine bacteria, particularly those interested in the functional responses of bioluminescent organisms to plastic pollution. The comprehensive data on bioluminescence, cell viability, and biofilm formation provides a robust foundation for understanding the ecophysiological effects of GMPs to Phb. leiognathi.