cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24257647.v4
title: Comparison between Conventional and Fit-for-Purpose Land Demarcation Practices in Ekiti State, Nigeria (DATA)

description: This data contains GNSS records, total station, theodolite and UAV coordinates. It also contains the computation for Root Mean Square Error (RMSE)
DOI: 10.6084/m9.figshare.7059458.v1
title: MACCRs.tsv

description: This file contains 3,100 sets of metadata extracted from clinical case reports. Each metadata record includes information identifying the source report, text corresponding to high-level medical concepts, and funding details.
DOI: 10.6084/m9.figshare.8137706.v3
title: Reconstruction ensembles

description: Global mean surface temperature reconstructions. Each file is the 1000 member ensemble from one method.File names are methods abbreviations as in the paper; tab separated, members in columns, first column years CE.<br>
DOI: 10.6084/m9.figshare.9702302.v1
title: Behavioral video data from Steinmetz et al. 2019.

description: <b>Raw behavioral videos of the mice during the recording sessions reported in Steinmetz et al. 2019.</b><br><i>Companion dataset to doi:10.6084/m9.figshare.9598406. </i><br>There are two videos per session. The first includes the frontal aspect of the mouse including face and forelimbs, recorded at 40Hz with IR illumination. The second is a close-up zoom of the right eye, recorded at 100Hz. <br>Timing information, as well as some pre-extracted features, is in the companion dataset.
DOI: 10.17632/d49b9p6f4r
title: Impact craters formed by spinning granular projectiles

description: These files contain an example of the setup required to perform and analyze a numerical simulation  of the impact of a spinning granular projectile on a granular bed. The simulation is carried out using the open-source free DEM software LIGGGHTS. The simulations were all tested and previous validation results agreed quite well with the models and experiments from the literature. The dataset contains an example case of the initialization, which requires several steps, and from the main simulation. We also share an Octave code for post-processing the results.
DOI: 10.17632/z97bs2c8p7
title: Topology recapitulates ontogeny of dendritic arbors

description: Drosophila melanogaster larvae were raised on glucose fly food at 25℃. 96hr AEL larvae were used for all analyses. For visualization of dendritic morphologies of class III neurons (ddaF), nompC-Gal4 (Stock 36361 from Bloomington Drosophila Stock Center) was crossed with 10XUAS-mCD8::GFP (32187). The fly strain ppk-cd4-tdGFP (a gift from Han Chun (Cornell University)) was used for imaging class IV neurons. The imaging was done using a spinning disk microscope: the Yokogawa CSU-W1 disk (pinhole size 50 μm) built on a fully automated Nikon TI inverted microscope with perfect focus system, an sCMOS camera (Zyla 4.2 plus sCMOS), and running Nikon Elements software. Individual neuron image stacks were acquired with a 60X 1.2 NA water immersion lens with a z step size 0.16 μm. 
Raw images for class IV and class III neurons were uploaded. Raw images exist in .nd2 or .tiff forms. Due to the size limit, raw images for class III neurons were processed using maximum intensity z-projection and pairwise stitching plugins of ImageJ software.
This manuscript also contains datasets from Drosophila Hemibrain, mouse visual cortex and Neuromorpho.
The link to hemibrain dataset is: https://www.janelia.org/project-team/flyem/hemibrain. 
The link to electron microscopy dataset on layer 2/3 of the mouse visual cortex is: https://www.microns-explorer.org/phase1. 301 neuron reconstructions with spine information were stored in microns_example_all.mat.
The link to neuromorpho database is: https://neuromorpho.org. Here we used the neuromopho dataset from the paper (Cuntz, H., Bird, A. D., Mittag, M., Beining, M., Schneider, M., Mediavilla, L., ... & Jedlicka, P. (2021). A general principle of dendritic constancy: A neuron’s size-and shape-invariant excitability. Neuron, 109(22), 3647-3662.).
DOI: 10.6084/m9.figshare.16635919.v4
title: All data and R scripts

description: All data and R scripts for FIRE article "Evaluating the performance of fire rate of spread models in northern-European <em>Calluna vulgaris</em> heathlands." Cite the article: https://doi.org/10.3390/fire5020046 <br>
DOI: 10.6084/m9.figshare.28477124.v3
title: Insights into Catalytic Activity and Selectivity of 5-Hydroxymethylfurfural Oxidation on Gold Single-Crystal Electrodes

description: The selective electrochemical oxidation of 5-hydroxymethylfurfural (HMF) to 2,5-furandicarboxylic acid (FDCA) holds transformative potential for advancing sustainable, bio-based polymer production. In this study, we unveil the pivotal role of gold single-crystal electrode surface orientation in directing HMF oxidation pathways under alkaline conditions. Using cyclic voltammetry, we systematically evaluate the oxidation behaviour on Au(111), Au(100), Au(110), Au(311), Au(331), and Au(210) surfaces. Our findings reveal that Au(111) and Au(100) surfaces exhibit superior catalytic activity for the complete oxidation to FDCA, while Au(110) promotes the selective formation of 5-hydroxymethyl-2-furancarboxylic acid (HMFCA). These differences in activity are closely linked to the crystallographic structure, influencing adsorption energies and reaction intermediates. In situ infrared reflection absorption spectroscopy (IRRAS) and attenuated total reflectance (ATR) spectroscopy provide direct molecular insights, identifying distinct vibrational signatures of intermediates and products. This study highlights the critical role of electrode surface structure in tuning reaction efficiency and selectivity, contributing to the development of more efficient catalytic processes in green chemistry.
DOI: 10.6084/m9.figshare.7435385.v2
title: Skull-stripped MRI GBM Datasets (and Segmentations)

description: Skull-stripped MRI GBM Datasets. Please use the following citations if you use them in your work:<br> L. Lindner, D. Wild, M. Weber, M. Kolodziej, G. von Campe, J. Egger. Skull-stripped MRI GBM Datasets. Figshare, 2018. L. Lindner, et al. Using synthetic training data for deep learning-based GBM segmentation. In 2019 41st Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), pp. 6724-6729. IEEE, 2019. J. Egger, et al. GBM Volumetry using the 3D Slicer Medical Image Computing Platform. Sci Rep., 3:1364, 2013. <br> <br> Further Information:<br> <br> Ten Contrast-enhanced T1-Weighted MRI Datasets from Patients with pathologically confirmed Glioblastoma Multiforme (GBM) and Manual Expert Segmentations from Neurosurgeons.<br> <br> All Datasets are skull-stripped and reformatted to have 260 slices in axial direction. Datasets with a sagittal or coronal scanning direction have been reformatted to an axial direction.<br> <br> Note: Only the enhancing tumor and the necrotic core were segmented, since these are currently the areas of main interest in clinical practice. Other regions, such as a surrounding edema, are typically not delineated in clinical routine, since these annotations do often not accurately reflect the true state.<br>
DOI: 10.6084/m9.figshare.13712881.v1
title: Hindi Text Summarization Data

description: The data is crawled from Hindi News Media for the purpose of extractive text summarization.
DOI: 10.6084/m9.figshare.3101989.v1
title: DMOZ -open directory project data

description: DMOZ data as file hierarchy. Every folder named with the corresponding category in Open Directory Project (ODP) hierarchy. Every folder contains sub-folders which are children of that category in ODP hierarchy and text files which are leaves of that folder category.<br>
DOI: 10.6084/m9.figshare.6287687.v2
title: A Modified Random Survival Forests Algorithm for High Dimensional Predictors and Self-Reported Outcomes

description: We present an ensemble tree-based algorithm for variable selection in high-dimensional datasets, in settings where a time-to-event outcome is observed with error. This work is motivated by self-reported outcomes collected in large-scale epidemiologic studies, such as the Women’s Health Initiative. The proposed methods equally apply to imperfect outcomes that arise in other settings such as data extracted from electronic medical records. To evaluate the performance of our proposed algorithm, we present results from simulation studies, considering both continuous and categorical covariates. We illustrate this approach to discover single nucleotide polymorphisms that are associated with incident Type 2 diabetes in the Women’s Health Initiative. A freely available R package <i>icRSF</i> has been developed to implement the proposed methods. Supplementary material for this article is available online.
DOI: 10.6084/m9.figshare.781330.v1
title: ESIP Meeting RDF Data

description: We are working to create Linked Open Data from the people, meetings, and clusters within the Earth Science Information Partnership (ESIP). This file represents the meetings expressed as RDF. Note that the URIs are likely to change as this data begins to be served publicly as Linked Open Data. The files will be updated at that time.
DOI: 10.6084/m9.figshare.21708071.v1
title: Effects of PFBS concentration and litter type on soil parameters.xlsx

description: Full name of five types of organic material: <em>Medicago lupulina</em> leaves (ML), <em>Plantago lanceolata</em> leaves (PL), commercial hemp stem (HS, REAL NATURE, Item no.: 1,259,176, Krefeld, Germany), wheat straw (MultiFit, Item no.: 1,008,159, Krefeld, Germany) and fine green tea (Meßmer Tee GmbH, Seevetal, Germany). Full name of enzyme: β-1,4-N-acetyl-glucosaminidase (acetyl), β-D-1,4-cellobiosidase (cello), β-glucosidase (gluco) and phosphatase (pho) Res refers to soil respiration.
DOI: 10.17632/7wx3chtsxx
title: EPICC

description: This collection provides processed data of the paper "The co-evolution of the genome and epigenome in colorectal cancer".
DOI: 10.17632/kdkryh5rs2
title: WiHArD: Wikipedia based Hierarchical Arabic Dataset

description: WiHArD (Wikipedia based Hierarchical Arabic Dataset) is a hierarchical Arabic dataset of 6027 texts extracted from Wikipedia Web site. WiHArD is structured into three "level 1" classes and nine "level 2" classes:
•	"Level 1" classes are Culture (ثقافة), History (تاريخ) and Math (رياضيات). Texts in this level describe general notions related to these domains.
•	"Level 2" classes are Clothes (ملابس), Food_drinks (طعام و شراب), Tourism (سياحة), Events (أحداث), Inventions (اختراعات), Monuments (أثار), Algebra (جبر), Analysis (تحليل) and Geometry (هندسة). Texts in this level describe specific notions related to these sub-domains.

Four files are shared for the benefit of the NLP and IA communities, especially researchers working on Arabic language:
1.	WiHArD_Directory_Hierarchy.zip contains the directory hierarchy.
2.	WiHArD.csv, a CSV file of three columns: "text" column contains the Arabic texts; "category_path" and "category_code" columns contain respectively the category path and the category code.
3.	WiHArD_Level1.csv, a CSV file restricted to the texts the first level, namely Culture (ثقافة), History (تاريخ) and Math (رياضيات).
4.	WiHArD_Level2.csv, a CSV file restricted to the texts of the second level, namely Clothes (ملابس), Food_drinks (طعام و شراب), Tourism (سياحة), Events (أحداث), Inventions (اختراعات), Monuments (أثار), Algebra (جبر), Analysis (تحليل) and Geometry (هندسة).
DOI: 10.6084/m9.figshare.23497502.v2
title: In situ root zone soil moisture measurements.xls

description: The dataset provides daily in situ root zone soil moisture measurements (0-100 cm) over Huai river basin in China from April 1, 2015 to March 31, 2020, which is derived from depth-weighted averaged soil moisture at depths of 10, 20, 40 and 100 cm observed at 08:00 AM. The unit is m3/m-3.
DOI: 10.6084/m9.figshare.24751956.v2
title: Annotation and quality control for genomic variants from 209 local chickens

description: Annotation and quality control files for genomic variants from 209 local chickens
DOI: 10.6084/m9.figshare.28939121.v1
title: 2D Anderson Localization and KPZ sub-Universality Classes: sensitivity to boundary conditions and insensitivity to symmetry classes

description: Data and script files for generating the figures of our manuscript are shared here. Manuscript is available at arXiv:2504.17010
DOI: 10.17632/3nm3ctwycc
title: QDA-processed

description: Processed resting-state fMRI data using a new quantitative data-driven analysis (QDA) method. Reprocessing script and related mask and MNI template are also provided.
DOI: 10.17632/c3jhnkgr8p
title: Simulation code for "Optimal Default Options" JPubE September 2024

description: This code generates the simulations reported in "Optimal Default Options" by B. Douglas Bernheim and Jonas Mueller-Gastell, published in the Journal of Public Economics, September 2024.
DOI: 10.6084/m9.figshare.13359632.v1
title: PSRGAN

description: PSRGAN datasets
DOI: 10.6084/m9.figshare.16744258.v1
title: Raw data Shi et al Nature Energy 2022 A shorted membrane electrochemical cell powered by hydrogen to remove CO2 from the air feed of hydroxide exchange membrane fuel cells

description: Raw data supporting figures in Shi et al "A shorted membrane electrochemical cell powered by hydrogen to remove CO2 from the air feed of hydroxide exchange membrane fuel cells", Nature Energy, 2022<br>
DOI: 10.6084/m9.figshare.6793784.v1
title: Simple Measures of Individual Cluster-Membership Certainty for Hard Partitional Clustering

description: We propose two probability-like measures of individual cluster-membership certainty which can be applied to a hard partition of the sample such as that obtained from the Partitioning Around Medoids (PAM) algorithm, hierarchical clustering or k-means clustering. One measure extends the individual silhouette widths and the other is obtained directly from the pairwise dissimilarities in the sample. Unlike the classic silhouette, however, the measures behave like probabilities and can be used to investigate an individual's tendency to belong to a cluster. We also suggest two possible ways to evaluate the hard partition using these measures. We evaluate the performance of both measures in individuals with ambiguous cluster membership, using simulated binary datasets that have been partitioned by the PAM algorithm or continuous datasets that have been partitioned by hierarchical clustering and k-means clustering. For comparison, we also present results from soft-clustering algorithms such as soft analysis clustering (FANNY) and two model-based clustering methods. Our proposed measures perform comparably to the posterior-probability estimators from either FANNY or the model-based clustering methods. We also illustrate the proposed measures by applying them to Fisher's classic data set on irises.
DOI: 10.6084/m9.figshare.7824083.v2
title: AJP-Endo McCoin et al.

description: Supplemental tables and figures containing primer sets, anthropometrics, gene expression data and RNA-seq analysis and GSH:GSSG in male and female WT, liver-specific PGC-1a heterozygous and BNIP3-null mice on a HFD and HFD+VWR.
DOI: 10.6084/m9.figshare.17148413.v2
title: SAT

description: Gridded hourly precipitation based on a linear average of three non-gauge-corrected satellite-based precipitation products (IMERG-Early, PERSIANN-CCS, and GSMaP_NRT) <br>
DOI: 10.6084/m9.figshare.19650081.v1
title: Pezzi_etal_2022.zip

description: VCF files and fastsimcoal models according to Pezzi et al. paper. (2022)
DOI: 10.6084/m9.figshare.28407974.v2
title: BLASTX vs TrEMBL

description: BLASTX vs TrEMBL
DOI: 10.6084/m9.figshare.9782813.v1
title: Transcriptome of Escherichia coli K-12 (MG1655) at stationary phase in minimal medium

description: Gene expression analysis provides a lens into the cellular processes dominant in a cell at a particular point in time. Such understanding helps guide further experiments as well as providing the bedrock on which theoretical underpinnings of cellular processes emanates. In essence, gene expression analysis tells us the genes implicated in particular cellular processes and is the starting point for in-depth mechanistic studies. Two approaches operating at different levels of biological complexities are available for probing gene expression analysis, one of which is proteomics, the other is RNA-seq based transcriptome analysis. While proteomics workflow has been automated significantly over the past decade with the advent of liquid chromatography mass spectrometry, the dataset obtained pales in comparison to that available from RNA sequencing (RNA-seq). Specifically, probing the transcriptome of cells using contemporary next-generation high throughput sequencing typically generates millions of reads, which when aligned to a reference genome of the same species, tells a quantitative story of the relative expression levels of different genes in the organism. Hence, RNA-seq is the dominant technology utilized for gaining an understanding of the differential expression of genes at the global level with the assumption that mRNA abundance correlates linearly with protein abundance, hence, providing a readout of gene expression levels. This work entails the processing of a RNA-seq dataset of <i>Escherichia coli</i> K-12 (MG1655) during stationary growth in liquid minimal medium (Array Express accession number: E-GEOD-77325) using an in-house MATLAB software. A total of 3.5 million reads was processed to yield the final transcriptome dataset, which is catalogued in an Excel table detailing the gene abbreviation, description of gene function, gene sequence, and expression count. The last variable, which signifies expression level of a gene, is calculated based on the alignment of a RNA-seq read with a corresponding gene sequence. The software does not count reads that include part of the 5’ UTR of a gene. Overall, the top ten highest expressed genes of <i>E. coli</i> K-12 during stationary phase growth were ompF, fliC, ompA, fusA, tufA, ompC, metE, rpsA, ompT, and gapA. Such a catalogue of highly expressed genes speaks of the importance of outer membrane proteins, translation related proteins, and glyceraldehyde-3-phosphate dehydrogenase A in driving cellular processes during stationary phase. Overall, the dataset should provide a good reference for researchers interested in the gene expression patterns of <i>E. coli</i> K-12 during stationary phase growth, as well as providing a starting point for further investigation of differences in gene expression patterns of <i>E. coli</i> between different growth phases.<br><br>
DOI: 10.6084/m9.figshare.25036364.v1
title: Treating pain in sickle cell disease by means of focused ultrasound neuromodulation (Ultrasound Characterizations: Computer Simulations)

description: We developed a novel transcranial focused ultrasound transducer for treating pain in humanized sickle cell mice. The project promises to provide non-pharmacologic chronic pain treatment for patients associated with underlying conditions such as cancer or sickle cell disease (SCD).This dataset includes 5 .mat files with formatted transcranial focused ultrasound simulation pressure magnitude data (variable: <b><i>us_mag</i></b>). Each file name is marked with the transcranial brain targets, e.g., S1HL, insula, thalamus, that are responsible for pain signal processing. Other two .mat files have the formatted ultrasound pressure field when the ultrasound targets at a sham location or when the transducer is working in the coherent mode, i.e., all elements transmitting ultrasound simultaneously. When the tFUS targeted at S1HL, insula, thalamus and sham locations, the H276 was steering its focus by certain distances. These distances were listed in our preprinted work shown below. The spatial step sizes of the 3D matrix (<b><i>us_mag</i></b>) are included in each of these files (variable: <b><i>delta_x</i></b>, <b><i>delta_y</i></b>, <b><i>delta_z</i></b>).The simulations were implemented in Sim4Life V7.0 in the presence of a mouse skull model (CT image based). This work was supported in part by NIH EB029354, NS124564, and NS131069. More information can be found in the corresponding manuscript:Kim MG*, Yu K*, Yeh C-Y, Fouda R, Argueta D, Kiven S, Ni Y, Niu X, Chen Q, Kim K, Gupta K, He B. Low-intensity transcranial focused ultrasound changes pain-associated behaviors by modulating pain processing brain circuits. bioRxiv: https://doi.org/10.1101/2022.12.07.519518 (*Equal contribution, first author)If anyone uses the whole or part of the dataset provided here, we kindly ask you to cite the above publication in any of your publications or presentations:
DOI: 10.6084/m9.figshare.28586132.v1
title: Hearing Test Data Base.xlsx

description: A one-stage hearing screening protocol was developed and its effectiveness was determined by testing for hearing loss on high risk newborns admitted at a neonatal intensive care unit of a tertiary hospital.
DOI: 10.6084/m9.figshare.25546465.v2
title: Fabric Defects Object Detection Dataset

description: The dataset comprises 720 images each depicting four distinct defect types in colored fabrics: Oil, Hole, Cutting, and Crack, totaling approximately 180 images per type. This dataset holds significant academic value, particularly within the realm of Computer Vision, serving as a crucial resource for developing image processing algorithms and deep learning models for tasks such as classification, object detection, or segmentation. Its application stands to significantly enhance advancements in textile engineering and manufacturing processes.<br>The FD_Dataset comprises two distinct files:<br><br>FD, which encompasses comprehensive datasets alongside Label.mat facilitated through MATLAB for any object detection model.YOLO, housing datasets for training, validation, and testing specifically tailored for YOLO object detection models.<br>
DOI: 10.6084/m9.figshare.5510440.v1
title: Datasets

description: Datasets used to generate all figures in main text and supplemental material. All data can be generated using the Mathematica notebook provided in this collection. <br>
DOI: 10.17632/6py9v57sf2
title: Analyzing Various Maize Varieties Grown Organically: VIT Vellore's Phenotypic, Yield, and Canopy Data

description: The dataset presented here is an ensemble of various plant and yield traits collected over a season of maize from the VIT University farm, Vellore. The data consists of 15 columns which are classified under four classes namely vegetative traits, yield traits, canopy temperature, and chlorophyll readings of randomly selected and tagged plants. Artificial Intelligence techniques like Machine Learning and Deep Learning can be applied to optimize the yield of the selected genotypes.
DOI: 10.17632/bp92htj65g
title: Data for: INFLATION EXPECTATIONS AS A POLICY TOOL?

description: replication files
DOI: 10.6084/m9.figshare.1412829.v1
title: Comparison of bile acids and acetaminophen protein adducts in children and adolescents with acetaminophen toxicity

description: The relationship of individual bile acids to indicators of oxidative drug metabolism (acetaminophen protein adducts) and liver injury was examined in children with acetaminophen overdose, children with low dose exposure to acetaminophen, and children with no recent exposure to acetaminophen. Targeted metabolomic analysis was used to quantify nine bile acids in the serum samples of children and adolescents among the three groups. Bile acids were compared to serum levels of acetaminophen protein adducts and alanine aminotransferase.
DOI: 10.6084/m9.figshare.14400884.v1
title: The chromosome-level genome assembly of Sichuan pepper

description: Here we generated a chromosome-level genome assembly of one Sichuan pepper species <i>Zanthoxylum</i> <i>armatum</i> characterized by drought tolerance and apomixis. cds.fasta.gz - CDS files of all genesprotein.fasta.gz - peptide files of all genesgene.gff3.gz - genome annotationgenome.fasta.gz - genome assembly