cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1597701.v2
title: Genome-wide Annotation, Identification, and Global Transcriptomic Analysis of Regulatory or Small RNA Gene Expression in Staphylococcus aureus

description: In <i>Staphylococcus aureus</i>, hundreds of small regulatory or small RNAs (sRNAs) have been identified, yet this class of molecule remains poorly understood and severely understudied. sRNA genes are typically absent from genome annotation files, and as a consequence, their existence is often overlooked, particularly in global transcriptomic studies. To facilitate improved detection and analysis of sRNAs in <i>S. aureus</i>, we generated updated GenBank files for three commonly used <i>S. aureus </i>strains (MRSA252, NCTC 8325, and USA300), in which we added annotations for &gt;260 previously identified sRNAs. These files, the first to include genome-wide annotation of sRNAs in <i>S. aureus</i>, were then used as a foundation to identify novel sRNAs in the community-associated methicillin-resistant strain USA300. This analysis led to the discovery of 39 previously unidentified sRNAs. Investigating the genomic loci of the newly identified sRNAs revealed a surprising degree of inconsistency in genome anno- tation in <i>S. aureus</i>, which may be hindering the analysis and functional exploration of these elements. Finally, using our newly created annotation files as a reference, we perform a global analysis of sRNA gene expression in <i>S. aureus </i>and demonstrate that the newly identified <i>tsr25 </i>is the most highly upregulated sRNA in human serum. This study provides an invaluable resource to the <i>S. aureus </i>research community in the form of our newly generated annotation files, while at the same time presenting the first examination of differential sRNA expression in pathophysiologically relevant conditions. <br>
DOI: 10.6084/m9.figshare.16980592.v1
title: GWAS treefile and nexus alignment for network analysis in SplitsTree

description: treefile and nexus alignment for network analysis in SplitsTree
DOI: 10.6084/m9.figshare.20291934.v3
title: Prevalence and Determinants of Obesity among Indonesian Diabetics

description: The present study aimed to determine the prevalence and determinants of obesity among diabetic individuals in Indonesia
DOI: 10.6084/m9.figshare.25649406.v1
title: Supplementary Information 1

description: Supplementary
DOI: 10.6084/m9.figshare.28034708.v2
title: ESM for Flannery-Sutherland et al. (2025). Nature Ecology and Evolution

description: Spatial incompleteness in the fossil record severely diminishes the observed ecological and geographic ranges of clades. The biological processes shaping species distributions and richness through time, however, also operate across geographic space and so clade biogeographic histories can indicate where their lineages must have successfully dispersed through these sampling gaps. Consequently, these histories are powerful, yet untapped tools for quantifying their unobserved ecographic diversity. Here, we couple phylogeographic modelling with a novel landscape connectivity approach to reconstruct the origins and dispersal of Permian-Triassic archosauromorph reptiles. We recover substantial ecographic diversity from the gaps in their fossil record, illuminating the cryptic first 20 million years of their evolutionary history, a peak in climatic disparity in the earliest Triassic, and dispersals through the Pangaean tropical dead zone that contradict its perception as a hard barrier to vertebrate movement. This remarkable tolerance of climatic adversity was likely integral to their later evolutionary success.This ESM contains all data and code used in our analyses.
DOI: 10.6084/m9.figshare.29067428.v2
title: Supplementary Tables.xlsx

description: This file includes supplementary tables for the manuscript titled "Bi-directional Mendelian randomization indicates causal relationships between circulating branched-chain amino acids and metabolic health"
DOI: 10.6084/m9.figshare.5518996.v2
title: sleep dataset.zip

description: This is a dual-mode sleep video database. Please cite the following paper if you wish to use our dataset: Hu M, Zhai G, Li D, et al. Combination of near-infrared and thermal imaging techniques for the remote and simultaneous measurements of breathing and heart rates under sleep situation[J]. PloS one, 2018, 13(1): e0190466.If you have any questions, you can send a request to: humenghan89@163.com
DOI: 10.17632/bfn2pksz45
title: EEG Motor imagery open/close hands with C4 electrode dataset

description: Dataset with records of imagery open and close right and left and right hands (actually, the fists) in different setups and no movement in other setup. They are saved in matlab format. Someone that wants to use it only has to execute the load command or clicking two times the files after download.

Inside every movement setup there are 4 signals of the same movement.
- setup1: close right hand
- setup2: open right hand
- setup3: close left hand
- setup4: open left hand
Total: 4 signals per movement (setup), total 16 movement signals.

Rest has 10 records.
- setup1_rest: no movement
Total: 10 records, 1 signals per record, 10 no movement signals.

The duration of the signals was 2 seconds per record. They are saved with 
just one electrode in the C4 position with the reference electrode placed 
behind the ear.

The last 6 samples (per record) can be erased.
DOI: 10.6084/m9.figshare.28785914.v2
title: Supporting information for "Fingerprinting the early information of granitic magmas revealed by fayalite-ferrosilite bearing microgranular enclaves in Jiuyishan area of South China Block"

description: Supporting information for "Fingerprinting the early information of granitic magmas revealed by fayalite-ferrosilite bearing microgranular enclaves in Jiuyishan area of South China Block"
DOI: 10.17632/3hmx8ws3np
title: Data for: Trade, Pollution and Mortality in China

description: Data and code
DOI: 10.6084/m9.figshare.27677571.v3
title: outdated version

description: outdated version
DOI: 10.17632/93bdmx2b7p
title: Orientation-Based Analysis of 3D Printing Parameters and Quality Control

description: The provided dataset is a structured tabular dataset used for 3D printing analysis, containing features that describe the characteristics and parameters of 3D printed models. These features include both numerical values and categorical data.
DOI: 10.17632/vzrs8n8pk6
title: DScribe: Library of descriptors for machine learning in materials science

description: DScribe is a software package for machine learning that provides popular feature transformations (“descriptors”) for atomistic materials simulations. DScribe accelerates the application of machine learning for atomistic property prediction by providing user-friendly, off-the-shelf descriptor implementations. The package currently contains implementations for Coulomb matrix, Ewald sum matrix, sine matrix, Many-body Tensor Representation (MBTR), Atom-centered Symmetry Function (ACSF) and Smooth Overlap of Atomic Positions (SOAP). Usage of the package is illustrated for two different applications: formation energy prediction for solids and ionic charge prediction for atoms in organic molecules. The package is freely available under the open-source Apache License 2.0.
DOI: 10.17632/w6sjsxsxnw
title: Data for: Performance analysis optimization and experimental verification of a photon-counting communication system based on non-photon-number-resolution detectors

description: These data are the simulation and experimental results of a photon-counting communication system based on non-photon-number-resolution detectors
DOI: 10.17632/x79r35bdt5
title: Data for: The thioredoxin redox potential and redox charge are surrogate measures for flux in the thioredoxin system

description: Support data for paper: 1. Jupyter Notebook describing all the analyses undertaken in the paper (‘Models and Notebook’). 2. Full analytical solutions for the mathematical analyses presented in the main paper (‘Analytical solution’). 3. All the regression and co-correlation data and outputs (‘Regression and Statistical Data’).
DOI: 10.25442/hku.20472261.v1
title: The Five Eyes (FVEY)

description: Description The geometry of 5 member states of The Five Eyes (FVEY), an intelligence alliance comprising Australia, Canada, New Zealand, the United Kingdom, and the United States. An interactive view of this dataset: Link Source Data were collected from the Wikipedia page of FVEY. The geospatial features, including polygons and boundaries of regions, are sourced from Natural Earth, Admin 0 – Countries version 5.1.1 (Published on 12 May 2022). For metadata, such as data description and available methods for geospatial data processing, please read the readme.pdf. Terms of use This dataset features in a collection of geospatial data "Geo-mapping databases for the Belt and Road Initiative". To cite this work, available citation styles can be found here: https://doi.org/10.6084/m9.figshare.c.6076193
DOI: 10.6084/m9.figshare.1094359.v5
title: Source Dataset for Online Attention to Digital Humanities Publications (#DH2014 poster)
DOI: 10.6084/m9.figshare.27234219.v1
title: <b>Family interactions of adolescent victims of sexual abuse</b> - Data and Code

description: <b>Context:</b>Even if Child Sexual Abuse (CSA) is frequently reported in childhood and adolescent, familial environment of these patients is rarely precisely examined.<br><b>Objective:</b>The main objective of our study is to describe the family interactions of adolescents who are victims of CSA, and then, to explore the differences in family profiles based on the existence of incestuous acts and/or to incestuous climate.<br><b>Methods:</b>This study was conducted with 425 adolescents aged 13 to 19 years, hospitalized in a psychiatric unit over the past four years, among which 107 reported CSA, including 39 intrafamilial and 45 extrafamilial CSA. An incestuous climate was observed in 72 families. Intrafamilial and extrafamilial CSA, as well as the incestuous climate, were the basis of a between-group comparison of DSM-V psychiatric disorders and family interactions, as measured by the At-Risk Family Interactions and Levers scale (ARFIL).<b>Results:</b>Families where CSA was identified among adolescents were more characterized by interactions of rejection (emotional coldness, devaluation, abandonment, etc.) and by a lack of family cohesion. Intrafamilial CSA was distinguished from extrafamilial CSA by the presence of an incestuous climate and a traumatic context. The risk of detecting intrafamilial CSA in an incestuous environment within the family was estimated at 4 (RR=4.09).<br><b>Conclusion:</b>These results suggest observation of family interactions using the ARFIL scale provide both an aid to the detection of CSA and a therapeutic lever for the management of these situations. In particular, identifying incestuous climate within families provides insights for improving the screening of adolescents who are victims of CSA. Family interactions should be systematically explored during medical care of adolescents and children.<br>
DOI: 10.17632/9jgtn797b9
title: ETR of 2008 BCI competition IV-2a

description: we use the public dataset 2008 BCI competition IV-2a to analyze the training and evaluation datasets of nine objects. We first obtain the event from each session, generate epochs, and mark the energy set for different time periods. All the pre-processing data are generated according to the unified energy scale and six types of custom energy calculation methods. Next we generated the training topographical maps and input them into the CNN network for training. Then, a classifier supporting multi-object classification is achieved. Finally, topographical maps of evaluation datasets were judged, and the classification accuracy is obtained statistically.
DOI: 10.17632/zh5g5wbcj9
title: FAS100K

description: Two sets of 4096-dimensional global image descriptors comprising 47781 and 26638 samples respectively (Total Size: 1.3 GB). More details can be found in the corresponding research publication: https://arxiv.org/abs/2001.08434 and the resource link: https://github.com/oravus/CoarseHash
DOI: 10.25373/ctsnet.29119628.v1
title: Femoral Cannulation for CPB During Minimally Invasive Cardiac Surgery

description: This video demonstrates the technique of open cut down femoral vessel cannulation for cardiopulmonary bypass during minimally invasive procedures using the semi-Seldinger technique.
DOI: 10.6084/m9.figshare.12198009.v2
title: Perception of clinical trials among general population in Mauritius

description: Contains the data related to perception, awareness and knowledge of CT among the general Mauritian population <br>
DOI: 10.6084/m9.figshare.21894681.v1
title: Medical dataset

description: Data is related to the medical book
DOI: 10.6084/m9.figshare.21919029.v1
title: Fischer et. al. 2023 Supplemental Data

description: Contains supplemental figures 1, 2, and 3 for the publication " The oncogenic function of PLAGL2 is mediated via ASCL2 and IGF2 and a Wnt-independent mechanism in colorectal cancer"
DOI: 10.6084/m9.figshare.23606010.v1
title: AppleLeaf9-Enhanced Edition(AL9EE)

description: AL9EE was derived from the AppleLeaf9 dataset through data augmentation using CycleGAN and further enhanced for apple disease classification. AL9EE consists of a total of 26,755 apple leaf disease images. The dataset includes nine categories: Alternaria leaf spot, Brown spot, Frogeye leaf spot, Grey spot, Health, Mosaic, Powdery mildew, Rust, and Scab.
DOI: 10.6084/m9.figshare.28693375.v1
title: Influence factors of metronidazole-related CNS disorders: an analysis of the Japan adverse drug event report and FDA adverse event reporting system

description: Metronidazole (MNZ) can be administered for various infections. The impact of comorbidities/concomitant drugs on MNZ-induced central nervous system (CNS) disorders remains unclear. We assessed the risk of metronidazole-related CNS disorders using the Japan Adverse Drug Event Report (JADER, May 2023) and the US Food and Drug Administration Adverse Event Reporting System (FAERS, Q1 2023), excluding comorbidities/concomitant drugs. Clonazepam and diazepam were evaluated as potential prophylactics based on the efficacy of benzodiazepines for MNZ-related CNS disorders. Reporting odds ratios (ROR) and 95% confidence intervals (CI) were calculated. Additionally, sensitivity analysis by sex and age was conducted. The ROR (95% CI) of CNS disorders associated with MNZ in JADER and FAERS were 3.16 (2.69–3.72) and 1.69 (1.64–1.73), respectively. MNZ was significantly related to CNS disorders after excluding comorbidities (brain/spinal cord or liver abscesses) and concomitant drugs (glucocorticoids, antiepileptic, antiparkinson, and schizophrenia drugs). In sensitivity analysis, MNZ was significantly related to CNS disorders, despite sex and age. The ROR in the concomitant with clonazepam (CZP) was 0.70 (0.53–0.92) in FAERS. MNZ may be associated with CNS disorders, even if comorbidities/concomitant drugs that are potential risk factors for CNS disorders are excluded. Additionally, CZP may suppress CNS disorders.
DOI: 10.6084/m9.figshare.19100429.v1
title: Experiment results with unsupervised features

description: This excel file contained experiment results with unsupervised features.
DOI: 10.6084/m9.figshare.20032988.v1
title: The GWAS summaries of 21 agronomic traits in Simmental cattle

description: The genotyped with Illumina Bovine 770K Bead chip were imputed to sequence level using Beagle 5.4 based on a multiple-breed reference population consisted of 1,847 individuals from run 8 of the 1000 Bull Genomes Project. A total of 8.2 million SNPs (MAF &gt; 5% and missing rate &lt; 10%) for 854 ~2,622 individuals were used to perform the genome-wide association analysis. Before running the GWAS, the phenotype were adjusted for year, sex, age (month), and the first two principal components produced by PLINK and normalized by rank-transformation separately using the transform function included in the GenABEL. The associations among SNPs and traits were tested using mixed linear models in GCTA software.
DOI: 10.6084/m9.figshare.28315133.v1
title: Transcript-level data from CosMx study of childhood-onset lupus nephritis

description: Transcript data used in the manuscript, "FastReseg: using transcript locations to refine image-based cell segmentation results in spatial transcriptomics."
DOI: 10.6084/m9.figshare.29115648.v1
title: Additional file 15 of Lung lipids associated with smoking and ECIG use in a cross-sectional study and clinical trial

description: Supplementary material 15.
DOI: 10.17632/v5w2xcnpfb
title: Data for: Investments in and returns on network embeddedness: An experiment with trust games

description: Experimental data & analysis file (Stata)
DOI: 10.6084/m9.figshare.1165574.v1
title: A system for recording 3D information with applications in the measurement of plant structure

description: Poster at the "4th International Workshop on Functional-Structural Plant Models" (FSPM04),
DOI: 10.6084/m9.figshare.22580533.v1
title: Soil data for estimation of stiffness modulus

description: This data is collected during several soil investigation operations from various sites in Islamabad, Pakistan. It is used for developing models for estimation of soft soil stiffness modulus.
DOI: 10.6084/m9.figshare.22766290.v1
title: Table S2_Inclusion-exclusion-reasons_JRSI from Simulating contact networks for livestock disease epidemiology: a systematic review

description: Complete list of the full-text articles assessed for eligibility (n=463) and whether they were accepted or rejected (plus reasons). Papers found via citations are also shown (n=7).
DOI: 10.6084/m9.figshare.29097569.v1
title: Data from: Molecular signatures of introgressive divergence and selection in contact zones of closely related pine species (<i>Pinus </i>genus)

description: The data is comprised of a .RDS R file containing adegenet's genind object, which includes genomic data of 1558 individuals derived from pure Polish populations of Scots pine (<i>Pinus sylvestris</i>), dwarf mountain pine (<i>Pinus mugo</i>) and hybrid populations of those two species (Bór na Czerwonem, Błędne Skały and Torfowisko pod Zieleńcem). The genomic data was generated using Axiom_PineGAP SNP array. Out of 49,829 SNPs, 7,390 markers were selected after filtering - derived mainly from functional regions of nuclear genome.
DOI: 10.6084/m9.figshare.c.3258022_d4.v1
title: Post Exercise.zip

description: 5 post-exercise recovery trials in total from 5 participants.

Chest surface motion is of significant importance as it contains information of respiratory and cardiac systems along with the complex coupling between these two systems. It is not only critical in radiotherapy, but also useful in personalized health systems for continuous cardiorespiratory monitoring. In this dataset, a multimodal setup is employed to simultaneously acquire cardiorespiratory signals. These signals include high-density trunk surface motion (from 16 distinct locations) with VICON motion capture, nasal breathing from thermal sensor, respiratory effort from strain belt and electrocardiogram in lead-II configuration. This dataset can not only be used for evaluating prediction algorithms for radiotherapy applications, but also can be employed for developing techniques to evaluate the cardiomechanics and hemodynamic parameters from chest surface motion in wearable/home monitoring applications.
DOI: 10.17632/n38x2tfzk7
title: Dual graded lattice structures Framework: STL Files for Lattice Generation Testing and dual graded Compression Test Specimens

description: Additive manufacturing enables the production of complex structured parts with tailored properties. Instead of manufacturing parts as fully solid, they can be infilled with lattice structures to optimize mechanical, thermal, and other functional properties. A lattice structure is formed by the repetition of a particular unit cell using a certain defined pattern. The unit cell's geometry, relative density, and size dictate the lattice structure's properties. Functionally graded lattice structure al-lows for further part optimization, where certain domains of the part require denser infill compared to other domains. This repository consists of two compressed files. In the first compressed file, the specimens to test the dual graded lattice structure (DGLS) generation framework is attached. This framework can grade both the size and the relative density or porosity of standard and custom unit cells simultaneously as a function of the structure spatial coordinates. Popular benchmark parts from different fields were used to test the framework's efficiency against different unit cell types and grading equations. The second compressed file contains the STL files for 19 uniquely designed compression test specimens generated using the DGLS to study the effect of lattice structure dual grading on mechanical properties. It was found that combining both relative density and size grading fine-tunes compressive strength, modulus of elasticity, absorbed energy, and fracture behavior of the lattice structure. For more information refer to: Mostafa, K.G.; Momesso, G.A.; Li, X.; Nobes, D.S.; Qureshi, A.J. Dual Graded Lattice Structures: Generation Framework and Mechanical Properties Characterization. Polymers 2021, 13, 1528. https://doi.org/10.3390/polym13091528
DOI: 10.4121/20080097.v1
title: LocScale test data

description: Test data for the unit tests of the cryo-EM map sharpening software LocScale.
DOI: 10.6084/m9.figshare.21070381.v1
title: Data.zip

description: Data presented in the article Relation between interfacial shear and friction force in 2D materials
DOI: 10.6084/m9.figshare.22766348.v1
title: Proffitt et al (submitted, Mol Cell Endocrinol) AR MEME Tables.xlsx

description: This Excel file contains the results of a MEME (mixed effects model of evolution)  analysis (Murrell, B. et al., 2012) of  site-specific evolution of two teleost androgen receptors, ARα and ARβ.
<br>
This analysis was conducted as part of a study (Proffitt, M.R., Liu, X., Ortlund, E.A., and Smith, G.T. "Evolution of androgen receptors contributes to species variation in androgenic regulation of communication signals in electric fish." (submitted 05/23, Molecular and Cellular Endocrinology).
<br>
     Each tab contains the analysis for one of the two AR paralogs. The parameters are described below:   Site: The codon/nucleotide in the AR gene   
α: synonymous substitution rate at each site  
β-: non-synonymous substitution rate at each site for the negative/neutral evolution component  
p-: proportion of the tree evolving under negative/neutral evolution at each site   
β+: non-synonymous substitution rate at each site for the positive/neutral evolution component   
p+: proportion of the tree evolving neutrally or under positive selection at each site   
LRT: log-ratio test for p+&gt;0   
p-value: p-value for p+&gt;0   
Branches under selection: an approximation of the number of branches in the tree under positive selection at each site   
Branch length: Length of branches contributing to inference.   
MEME LogL: Log-likelihood for the site under the MEME model   
FEL LogL: Log-likelihood for the site under the fixed-effects likelihood model    
<br>
DOI: 10.17632/2c3kzy4v93
title: Drains, Sanitation and Health in Uttarakhand, India

description: Primary survey data of 1530 households from the state of Uttarakhand, India on individual health (specifically water-borne disease), household and village attributes, and sanitation quality (including drain quality, toilets, open-defecation). Survey date, November 2004 - January 2005.
DOI: 10.17632/bbk8ntzp93
title: GPR and soil depth

description: This file contains GPR and soil depth for the paper of Deep Learning Meets GPR: Exploring Transformer Models for Precision Soil Depth Prediction