cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1289850
title: Centrosomal nucleolin is required for microtubule network organization

description: Nucleolin is a pleiotropic protein involved in a variety of cellular processes. Although multipolar spindle formation has been observed after nucleolin depletion, the roles of nucleolin in centrosome regulation and functions have not been addressed. Here we report using immunofluorescence and biochemically purified centrosomes that nucleolin co-localized only with one of the centrioles during interphase which was further identified as the mature centriole. Upon nucleolin depletion, cells exhibited an amplification of immature centriole markers surrounded by irregular pericentrin staining; these structures were exempt from maturation markers and unable to nucleate microtubules. Furthermore, the microtubule network was disorganized in these cells, exhibiting frequent non-centrosomal microtubules. At the mature centriole a reduced kinetics in the centrosomal microtubule nucleation phase was observed in live silenced cells, as well as a perturbation of microtubule anchoring. Immunoprecipitation experiments showed that nucleolin belongs to protein complexes containing 2 key centrosomal proteins, γ-tubulin and ninein, involved in microtubule nucleation and anchoring steps. Altogether, our study uncovered a new role for nucleolin in restricting microtubule nucleation and anchoring at centrosomes in interphase cells.
DOI: 10.6084/m9.figshare.24278887.v1
title: WithMe preprocessed dataset

description: The preprocessed WithMe dataset as introduced in the following paper:Steven Mortier, Renata Turkes,Jorg De Winne, Wannes Vanransbeeck, Dick Botteldooren, Paul Devos, Steven Latré, Marc Leman, Tim Verdonck. 2023. <i>Classification of Targets and Distractors in an Audiovisual Attention Task based on Electroencephalography</i>. Sensors. 2023; 23(23):9588. https://doi.org/10.3390/s23239588A full explanation of the data collection and preprocessing procedure can be found in the paper. A short version can be found below:The WithMe experiment involved 42 young adult subjects, including 21 females and 21 males. All participants had normal or corrected-to-normal vision and normal hearing. The experiment used a modified digit-span task where subjects had to identify and report target digits in a sequence, while ignoring distractor digits. The experiment included four different conditions: no support, visual rhythmic support, auditory non-rhythmic support, and visual rhythmic and auditory support. These conditions were presented in a pseudo-randomized order.EEG data was collected using a standard 64-electrode EEG 10-20 system and sampled at 2048 Hz. The EEG data underwent several preprocessing steps, including re-referencing, bad channel removal, notch filtering, and band-pass filtering. The data was divided into epochs, ranging from 0.2 seconds pre-stimulus to 1.0 seconds post-stimulus, and independent component analysis (ICA) was applied to remove artifact components. Bad channels were interpolated using neighboring channels, and the data was downsampled to 50 Hz. On average, less than 0.6% of epochs were rejected per subject.We expect to elicit attention, in the form of a P3a event-related potential, in response to the target stimuli. This dataset includes the preprocessed .fif files for all subjects. The accompanying behavioral data can be found here.The full, raw data will be published as open access soon. A detailed description of the experiment and preprocessing steps can be found in the following paper: --insert paper details after acceptance--
DOI: 10.6084/m9.figshare.24657396.v9
title: SynGAP: a synteny-based toolkit for gene structure annotation polishing

description: These datasets are generated and analyzed during the SynGAP study.
DOI: 10.6084/m9.figshare.20363190.v8
title: Construction of a cross-species cell landscape at single-cell level

description: We applied scRNA-seq to map organism-level cell landscapes at multiple life stages for mice, zebrafish, and Drosophila. By integrating the comprehensive dataset of more than 2.6 million single cells, we constructed a cross-species cell landscape and identified signatures and common pathways that changed throughout the lifespan. We identified structural inflammation and mitochondrial dysfunction as the most common hallmarks of organism ageing, and found that pharmacological activation of mitochondrial metabolism alleviated ageing phenotypes in mice. Meanwhile, the cross-species cell landscape with other published data sets were stored in an integrated online portal Cell Landscape (http://bis.zju.edu.cn/cellatlas/).
DOI: 10.6084/m9.figshare.24517960.v2
title: Data and Code for "Lateral inhibition in V1 controls neural and perceptual contrast sensitivity," Del Rosario et al., Nature Neuroscience 2025

description: MATLAB data and code needed to reproduce all main and supplemental figures and quantification in "Lateral inhibition in V1 controls neural & perceptual contrast sensitivity," Del Rosario et al., 2023 - 2025.Codebase and embargo date updated on Jan 11, 2025 for accepted manuscript.Codebase updated on Dec 21, 2024 for provisionally accepted manuscript.Codebase updated on July 17, 2024 for revised manuscript.Codebase updated on Oct 1, 2024 for additional revisions to manuscript.All code tested in Matlab 2017a - 2021b. See readMe.txt in .zip archive for instructions.
DOI: 10.6084/m9.figshare.25013870.v1
title: Sites with botanical records, ID and corresponding geographical metadata

description: This dataset lists all the sites archaeobotanically studied in the database.
DOI: 10.6084/m9.figshare.25648761.v1
title: dataset from: Fockink et al. The role of nurse trees in the plant community of park grassland: a case study in Southern Brazil. <i>Applied Vegetation Science.</i>

description: We investigated the facilitation of three nurse tree species typical of park grassland (<i>Prosopis affinis</i>, <i>Prosopis nigra </i>and <i>Aspidosperma quebracho-blanco</i>)<i> </i>on the composition and structure of the plant community and the mechanisms through which these species facilitate the establishment of other species under their canopies.File list:<b>dendro_variables.csv</b>Dataset containing dendrometric variables of nurse trees: height (m); stem height (m) and crown diameter (m).<b>floristic_data.csv</b>Dataset containing woody and herbaceous species recorded per plot, sampled under the canopy of nurse trees (under tree) and in paired open areas (open area).<b>env_variables.csv</b>Dataset containing environmental variables recorded under the canopy of nurse trees (under tree) and in paired open areas (open area). The results include the following variables:abund_woody – Abundance of woody regenerantsrichness_woody – Richness of woody regenerantsabund_herbs – Abundance of herbaceous speciesrichness_herbs – Richness of herbaceous speciessoil_cover_native – Native herbaceous cover (%)soil_cover_exotic – Exotic herbaceous cover (%)exposed_soil – Exposed soil (%)litter_cover – Litter cover (%)litter_depht – Litter depth (cm)LAI – Leaf Area Index<b>relative_interaction_index_RII.csv</b>Dataset containing the Relative Interaction Index (RII) calculated for each species, along with their classification based on the type of facilitation. The classifications are as follows: Nfc = non-facilitated, Fc = facilitated, and N = neutral.
DOI: 10.6084/m9.figshare.26068419.v1
title: HiGTS_2000s2

description: HiGTS is a high temporal resolution global gridded dataset of human thermal stress metrics. Derived using climate variables from ERA5-Land and ERA5, the HiGTS consists of hourly gridded maps of Universal Thermal Climate Index (UTCI), Universal Thermal Stress (UTS), and daily Thermal Stress Duration (TSD) at 0.1° × 0.1° spatial resolution over the global land surface from January 1, 2000 to December 31, 2023.HiGTS_2000s2 contains the data from April 1, 2000 to June 30, 2000.
DOI: 10.6084/m9.figshare.27092143.v2
title: Supplemental_spreadsheet_1.zip

description: Hyperlinked annotated spreadsheet of the predicted coding sequences from the rat flea, Xenopsylla cheopis<br>
DOI: 10.17632/mmp87df9ct
title: Task learning drives adaptive vocal adjustments in echolocating bats

description: Additional Supplementary Materials for this manuscript include:
Data Sl: Sheet 1 for absolute and masked thresholds. 
Data S2: Call parameters for tone detection tasks.
Data S3: Performance of echo detection task.
Data S4: Call parameters for tone detection tasks.
Data S5: Call amplitude of tone detection training.
Data S6: Call amplitude of 1st echo detection training.
Data S7: Call amplitude of 2nd echo detection training.
Data S8: Performance of echo detection training.
Data S9: Other call parameter of tone detection training.
DOI: 10.17632/yg92ys7d45
title: Annexes to A GIS-based model to assess electric energy consumptions and usable renewable energy potential in Lazio Region at municipality scale

description: Annex 1 - plants powered by RES in the Lazio Region; Annex 2 - Electricity consumptions, RES electricity production and percentages of electricity consumption from local RES for each Lazio Municipality; Annex 3 - Additional PV power and PV surface for each Lazio Municipality
DOI: 10.6084/m9.figshare.21922071.v1
title: Validation_Rain_rate

description: This is the observation rain gauge data for validating PASIVEL data for the paper below. <br> Lee, J., Byun, J., Baik, J., Jun, C., and Kim, H.-J.(2022) Estimation of raindrop size distribution and rain rate with infrared surveillance camera in dark conditions, Atmos. Meas. Tech. Discuss. [preprint], https://doi.org/10.5194/amt-2022-196, in review.
DOI: 10.6084/m9.figshare.22591693.v1
title: PRISMA Checklist 2023

description: Transformational entrepreneurship behavior determinant factors as ecosystem which is influencing socio-economic growth comprising of environment and community development in optimal balance. Organizational resilience determinant factors include leader member-exchange, psychological capital, ambidexterity, and competitive advantage strategy. From the literature search, it was also found that there are transformational entrepreneurship determinant factors that have not been studied and are expected to be able to make references for future research. From this literature review, we found gaps between organizational resilience and transformational entrepreneurship behavior and transformational entrepreneurship behavior determinant factors
DOI: 10.6084/m9.figshare.7842143.v1
title: Supplementary Material for: The Impact of Norms on the Outcome of Children Born Very-Preterm when Using the Bayley-III: Differences between US and German Norms

description: <b><i>Background:</i></b> The Bayley Scales of Infant and Toddler Development, third edition (Bayley-III) are widely used to assess the development of children born preterm. However, it is still unclear whether US norms are adequate for use in other populations. In 2014, the German version of the Bayley-III with German norms was published. <b><i>Objectives:</i></b> We aimed to compare the performance of very-preterm infants at one, two, and three years of age using the German versus US norms of the Bayley-III. <b><i>Methods:</i></b> All children born prior to 32 weeks of gestational age during 2012 and 2015 and taking part in the follow-up program of the Medical University of Vienna were assessed and scored according to both German and US norms by two expert clinical psychologists at the age of one, two, and three years of age. <b><i>Results:</i></b> In total, 843 tests were obtained from 450 children. When looking at scaled scores for cognitive, language, and motor outcomes, preterm children achieved significantly lower scores in nearly all subtests with the German as compared to the US norms. In addition, the proportion of impaired children scoring &lt; 1 standard deviation (SD) and &lt; 2 SD below the norm was significantly higher in nearly all subtests when using the German compared to the US norms (<i>p</i> &lt; 0.05). <b><i>Conclusions:</i></b> Applying German and US norms of the Bayley-III leads to different outcomes in very-preterm children, and these differences are statistically significant and clinically relevant. Thus, comparisons of outcomes of very-preterm children using culturally specific norms are problematic, and these findings have to be considered.
DOI: 10.6084/m9.figshare.29095916.v1
title: Data and code for Regional heterogeneity and policy evolution of China's new energy vehicle development: A multi-dimensional analysis based on dynamic time warping clustering and dual policy frameworks

description: Data and code for Regional heterogeneity and policy evolution of China's new energy vehicle development: A multi-dimensional analysis based on dynamic time warping clustering and dual policy frameworks
DOI: 10.6084/m9.figshare.7067513.v1
title: Supplementary Material for: Artemisinin-Daumone Hybrid Inhibits Cancer Cell-Mediated Osteolysis by Targeting Cancer Cells and Osteoclasts

description: <b><i>Background/Aims:</i></b> Bone metastasis of cancer cells decreases patient survival and quality of life. Hybridization via the covalent coupling of two bioactive natural products is a useful strategy for developing more potent anticancer agents by enhancing their bioavailability and avoiding drug resistance<b><i>.</i></b> <b><i>Methods:</i></b> The <i>in vivo</i> activities of artemisinin-daumone hybrid 15 (ARTD) were estimated in cancer cell-inoculated mice and ovariectomized mice. The viability, migration, and invasion of cancer cells were measured via MTT, wound-healing, and transwell invasion assays. ARTD-regulated transcription factors were detected with an RT<sup>2</sup> profiler PCR array kit and Western blotting. Osteoclastogenesis and osteoclast activity were detected with tartrate-resistant acid phosphatase staining, a pit formation assay, gelatin zymography, and a cathepsin K ELISA assay. <b><i>Results:</i></b> ARTD blocked cancer-associated osteolysis more potently than artemisinin in mice with intratibially inoculated breast cancer or lung cancer cells. ARTD inhibited the viability, migration, and invasion of breast and lung cancer cells in the absence or presence of transforming growth factor-β1. ARTD treatment induced the expression of tumor suppressive activating transcription factor 3 and inhibited oncogenic E2F transcription factor 1 expression at the mRNA and protein levels. ARTD inhibited receptor activator of nuclear factor kappa-B ligand-induced osteoclast formation and bone resorbing activity by reducing the secreted levels of matrix metalloproteinase-9 and cathepsin K. Furthermore, ARTD prevented estrogen deficiency-induced bone loss in ovariectomized mice. <b><i>Conclusion:</i></b> ARTD may be a promising candidate for inhibiting cancer-induced bone destruction. The application of ARTD may be extended to patients with chemotherapy-induced ovarian failure or postmenopausal osteoporosis.
DOI: 10.6084/m9.figshare.7200821.v1
title: Supplementary Material for: The Osteogenic Potential of the Neural Crest Lineage May Contribute to Craniosynostosis

description: The craniofacial skeleton is formed from the neural crest and mesodermal lineages, both of which contribute mesenchymal precursors during formation of the skull bones. The large majority of cranial sutures also includes a proportion of neural crest-derived mesenchyme. While some studies have addressed the relative healing abilities of neural crest and mesodermal bone, relatively little attention has been paid to differences in intrinsic osteogenic potential. Here, we use mouse models to compare neural crest osteoblasts (from frontal bones or dura mater) to mesodermal osteoblasts (from parietal bones). Using in vitro culture approaches, we find that neural crest-derived osteoblasts readily generate bony nodules, while mesodermal osteoblasts do so less efficiently. Furthermore, we find that co-culture of neural crest-derived osteoblasts with mesodermal osteoblasts is sufficient to nucleate ossification centres. Altogether, this suggests that the intrinsic osteogenic abilities of neural crest-derived mesenchyme may be a primary driver behind craniosynostosis.
DOI: 10.17632/3c9vdxrf3n
title: Raw images for Mall et al., MCB 2021

description: Raw images of western blots that were used for making figures as mentioned in Mall et al., Molecular and Cellular Biology 2021
DOI: 10.6084/m9.figshare.14333381.v1
title: Supplementary Material for: MASP-1 and MASP-3 Bind Directly to <b><i>Aspergillus fumigatus</i></b> and Promote Complement Activation and Phagocytosis

description: Activation of the complement system is mediated by the interaction between pathogens and pattern recognition molecules (PRMs); mannose-binding lectin (MBL), ficolins, and collectin-10/-11 from the lectin pathway and C1q from the classical pathway. Lectin pathway activation specifically depends on proteases named MBL-associated serine proteases (MASPs) that are found in complexes with PRMs. In this study, we hypothesize that MASPs can recognize selected pathogens independently of PRMs. Using different clinical strains of opportunistic fungi, we have observed that MASPs directly recognize certain fungal pathogens in a way that can facilitate complement activation. Among these were <i>Aspergillus fumigatus</i> – a dangerous pathogen, especially for immunocompromised patients. In flow cytometry and fluorescence microscopy, we found that MASP-1 and -3 bound to all <i>A. fumigatus</i> growth stages (conidia, germ tubes, and hyphae), whereas rMASP-2 and the nonproteolytic rMAP-1 did not. Bound rMASPs could recruit rMBL and rficolin-3 to <i>A. fumigatus</i> conidia in a nonclassical manner and activate complement via rMASP-2. In experiments using recombinant and purified components, rMASP-1 increased the neutrophilic phagocytosis of conidia. In serum where known complement activation pathways were blocked, phagocytosis could be mediated by rMASP-3. We have encountered an unknown pathway for complement activation and found that MASP-1 and MASP-3 have dual functions as enzymes and as PRMs.
DOI: 10.6084/m9.figshare.29093912.v1
title: A systematic review on multi-nutritional and phytopharmacological importance of Perilla frutescens

description: Perilla frutescens (L.) Britt, a worldwide distributed plant, is an important economic crop and with a long cultivation history in China as well as some other countries in Asia. The plant species were the main parts of folk medicine practiced by the ancient peoples in different parts of the world. P. frutescens (L.) is an annual short-day plant belonging to the family Labiatae which is used by ancient people in different parts of the world. P. frutescens have been used as an important traditional herbal medicine for treating various diseases including depression, anxiety, tumor, cough, antioxidant, allergy, intoxication, and some intestinal disorders. Perilla seeds contain considerably high levels (approx. 60%) of α-linolenic acid, which can be expected to possess various biological activities. The leaves are said to be helpful for asthma, colds, and different types of flu’s. The current review has been written after gone through several literature of review on P. frutescens and a great effort have been given to enhance the pharmacological contents in the current review from different literature of review. The current review included many bioactive metabolites present in P. frutescens and their nutritional as well as pharmacological importance.
DOI: 10.17632/n96p4tgch8
title: Pommes Pont-Neuf

description: Dataset Description: Good and Bad French Fries Classification

1. Overview

This dataset comprises over 500 samples of French fries (pommes pont-neuf) categorized as good or bad based on their visual and qualitative attributes. The dataset is designed for machine learning applications, particularly for training and evaluating models in image-based food quality assessment.

2. Data Collection

Device Used: Redmi 10 Prime mobile camera

Lighting Condition: Natural daylight

Background: White

Number of Samples: More than 500

Categories:

Good French Fries: Fries with uniform shape, golden-brown color, crisp texture, and no visible burns or defects.

Bad French Fries: Fries that are overcooked (burnt edges), undercooked (pale appearance), irregularly shaped, broken, or with visible black spots.



3. Image Specifications

Resolution: Based on the Redmi 10 Prime's camera specifications, the images are expected to have high clarity, making it easier to distinguish quality differences.

Format: Likely captured in JPEG or PNG format.

Framing: Single fry or multiple fries per image, uniformly arranged against a white background.


4. Applications

Automated food quality classification

Training deep learning models for food inspection

Enhancing fast-food industry quality control

Computer vision applications in food safety


This dataset provides a solid foundation for AI-driven quality assessment of French fries, ensuring consistency and efficiency in food evaluation.
DOI: 10.6084/m9.figshare.1512427.v4
title: brain tumor dataset

description: This brain tumor dataset contains 3064 T1-weighted contrast-inhanced images with three kinds of brain tumor. Detailed information of the dataset can be found in readme file.
DOI: 10.6084/m9.figshare.21185764.v1
title: Study 301-325

description: Video capsule endoscopy studies labeled by anatomical organ
DOI: 10.6084/m9.figshare.28184660.v1
title: Supplementary Material for: Histone Demethylase KDM6B Promotes Chondrogenic Differentiation Potential of Stem Cells from the Apical Papilla Via HES1

description: Introduction: Mesenchymal stem cell (MSC)-based therapies have emerged as a promising approach for treating articular cartilage injuries. However, enhancing the chondrogenic differentiation potential of MSCs remains a significant challenge. KDM6B, a histone demethylase that specifically removes H3K27me3 marks, is essential in controlling the maturation of chondrocytes. In this study, we examined how KDM6B influences chondrogenic differentiation in SCAPs and investigated the underlying mechanisms involved.
Methods: SCAPs were utilized. Alcian Blue staining, pellet culture, and cell transplantation in rabbit knee cartilage defect models assessed MSC chondrogenic differentiation. Western blot, Real-time RT-PCR, and Microarray analysis examined the underlying molecular mechanisms.
Results: KDM6B promotes the expression of Aggrecan, COL2A1, COL5, glycosaminoglycans, and collagen fibers, while also increasing the COL2/COL1 ratio in SCAPs. In vivo, SCAPs overexpressing KDM6B significantly enhanced the repair and regeneration of knee cartilage and subchondral bone, with higher levels of glycosaminoglycan and COL5 expression observed within the tissue. KDM6B promotes the chondrogenic differentiation potential of SCAPs by repressing HES1. In addition, knock-down of HES1 enhanced the chondrogenic differentiation of SCAPs.
Conclusions: KDM6B enhances the differentiation of SCAPs into chondrocytes and demonstrated its effectiveness in the repair and regeneration of cartilage tissue and subchondral bone in vivo experiments. These findings provide an important foundation for future research on the use of dental tissue-derived stem cells to treat cartilage injuries.
DOI: 10.6084/m9.figshare.28443032.v4
title: Sleep Deprivation and the Gut Microbiome: A Systematic Review and Meta-Analysis for Gut microbes review

description: Sleep Deprivation and the Gut Microbiome: A Systematic Review and Meta-Analysis for Gut microbes review