cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/rv7pjnfhxx
title: HUGProne: Prone and supine breast free breathing dose volume histograms - ancillary data updated with prescribed dose

description: Data of manuscript: 
Prone versus supine free-breathing for right-sided whole breast radiotherapy.
Odile Fargier-Bochaton, Xinzhuo Wang, Giovanna Dipasquale, Mohamed Laouiti, Melpomeni Kountouri, Olena Gorobets, Nam P. Nguyen, Raymond Miralbell & Vincent Vinh-Hung. 
Scientific Reports volume 12, Article number: 525 (2022) .
https://doi.org/10.1038/s41598-021-04385-3

Related paper for the left breast:
Is prone free breathing better than supine deep inspiration breath-hold for left whole-breast radiotherapy? A dosimetric analysis.
Xinzhuo Wang, Odile Fargier-Bochaton, Giovanna Dipasquale, Mohamed Laouiti, Melpomeni Kountouri, Olena Gorobets, Nam P. Nguyen, Raymond Miralbell & Vincent Vinh-Hung.
Strahlentherapie und Onkologie volume 197, pages317–331 (2021).

Left breast data, available on Mendeley at:
https://doi.org/10.17632/vftzc2r746.1

Study registration:
https://clinicaltrials.gov/ct2/show/NCT02237469

Contents of prone_FB_share.zip:
m1x_RL_FB_share.txt, raw DVHs.
m1x_RL_FB_info.txt, description of the raw DVHs column label names.
share_list12.xlsx, patient characteristics, anonymous; comments and day dates removed.
Feb 18, 2023, adds file share_list12_version2.xlsx, data updated with column DoseRx = dose (Gy) prescribed to Breast PTV
DOI: 10.17632/yynfpjhy5y
title: LINF_180018900

description: Zinc finger (C3H1-type)-containing protein; Leishmania infantum (strain JPCM5)
DOI: 10.6084/m9.figshare.17213270.v1
title: Knee Osteoarthritis .mat Data

description: EMG, marker, and force plate data for individuals with knee osteoarthritis
DOI: 10.6084/m9.figshare.1265162.v1
title: Atmel Testing (1531)

description: Atmel testing data.
DOI: 10.6084/m9.figshare.25477366.v1
title: The data and code of "Escalating Arsenic Contamination Throughout Chinese Soils"

description: The data includes soil arsenic data and rice arsenic data, which are respectively in two Excel sheets. The predictive variables are not allowed to be shared due to the data platform's requirements. Therefore, the source website of the predictive variables is mentioned in the supplementary materials and Data Availability statement.
DOI: 10.6084/m9.figshare.28631330.v1
title: BLA DBS treatment of FS mice vHPC m<sup>6</sup>A epitranscriptomic microarray analysis data

description: Basolateral amygdala (BLA) deep brain stimulation (DBS) has been shown to alleviate symptoms of post-traumatic stress disorder (PTSD), but the specific mechanisms remain incompletely understood. The hippocampus, a brain region closely connected to the amygdala, plays a key role in the pathological processes of PTSD. The N6-methyladenosine (m<sup>6</sup>A) methylation of RNAs in the hippocampus is known to play a significant role in regulating the brain's response to stress and emotional disorders. This study aimed to comprehensively analyze the roles of transcriptome-wide m<sup>6</sup>A modifica-tion of the hippocampus in BLA DBS treatment for a PTSD mouse model by m<sup>6</sup>A sequencing.
DOI: 10.6084/m9.figshare.5526757.v5
title: Dataset for: "The importance of artificial wetlands for birds: A case study from Cyprus"

description: Giosa E, Mammides C, Zotos S (2018) The importance of artificial wetlands for birds: A case study from Cyprus. PLOS ONE 13(5): e0197286. https://doi.org/10.1371/journal.pone.0197286<br><br>Dataset consists of two excel files: a. Bird Checklist, and b. Wetland Data<br><br>The checklist contains the list of species recorded in all artificial and natural wetlands (n=19) during the years 2009-2011. For each species it includes the following information:1. Scientific name2. Common name3. IUCN status4. Abundance in natural wetlands5. Abundance in artificial wetlands6. Abundance in year 2009 7. Abundance in year 2011 <br>8. Abundance in year 2011 <br><br>The wetland data include the following information:1. Site Number2. Site Name3. Type (i.e., whether artificial or natural)4. Description (e.g., whether dam, salt lake, etc.)5. Conservation status (e.g., whether an Important Bird Area or a Ramsar Wetland)6. X coordinate of the centroid (GCS_WGS_1984)7. Y coordinate of the centroid (GCS_WGS_1984)8. Bird species richness in 20099. Bird species richness in 2010<br>10. Bird species richness in 201111. Bird diversity (Fisher's alpha diversity index) in 200912. Bird diversity (Fisher's alpha diversity index) in 201013. Bird diversity (Fisher's alpha diversity index) in 201114. Maximum depth (in meters)15. Salinity (in practical salinity unit)16. Salinity (categories)17. Total area (in km2)18. Total area of the surrounding "250 meter buffer" (in km2)19. Total length of roads within the buffer (in km)20. Total road density (in km/km2)21. Total area of hunting reserves (i.e., areas where hunting is prohibited) within the buffer (in km2)22. Percentage of the buffer area covered by hunting reserves<br>For any questions regarding the dataset please contact Christos Mammides at cmammides@outlook.com
DOI: 10.17632/5vxm8rptk2
title: Data for: Non-canonical activation of the DNA sensing adaptor STING by ATM and IFI16 mediates NF-kB signalling after nuclear DNA damage

description: Raw image data relating to the manuscript Dunphy et al., (2018). Non-canonical activation of the DNA sensing adaptor STING by ATM and IFI16 mediates NF-kB activation after nuclear DNA damage.
DOI: 10.25415/ujhb.21602445.v1
title: Depression_and_Anxiety

description: Using a cross-sectional survey, we investigated the way in which the naturally occurring latent groups distinguished the levels of social functioning of university students. A sample of 1988 participants (69.1% female; mean age of 21.44 [SD = 3.094], between 17 and 64 years) completed the Patient Health Questionnaire-9, the Generalised Anxiety Disorder-7, and the Social Functioning Questionnaire. The anxiety and depression symptom classes were compared for levels of social functioning. The four meaningful classes were found to be Class 1 (20.3%) “Healthy”, Class 2 (35.3%) “Anxious exhaustion”, Class 3 (18.3%) “Anxious depression” and Class 4 (26.1%) “Low distress”. Although depressive symptoms were endorsed across all classes, it was those with higher levels of anxiety that showed poorer social functioning. The findings show symptom differentiation and highlight a need for better targeted and tailored interventions for the differentiated comorbid presentation of depression and anxiety among university students.
DOI: 10.6084/m9.figshare.22216876.v1
title: The effects of aerobic and resistance training on skin aging

description: This is a dataset file of training intervention study to elucidate the effects of aerobic and resistance training on skin aging.
DOI: 10.6084/m9.figshare.28925297.v1
title: Supplementary Material for: Somapacitan is Effective and Well Tolerated in Chinese Children with Growth Hormone Deficiency: a Randomised Controlled Phase 3 Study

description: Introduction: REAL6 is a randomized, multi-centre, open-labelled, active-controlled parallel group phase 3 trial (NCT04970654) investigating once-weekly somapacitan, a reversible albumin-binding growth hormone (GH) derivative, in Chinese children with GH deficiency (GHD).
Methods: 110 treatment-naïve patients were randomized 2:1 to somapacitan (0.16 mg/kg/week) or daily GH (Norditropin®; 0.034 mg/kg/day) for 52 weeks. Annualized height velocity (HV; cm/year) at week 52 was the primary measurement. Additional assessments included HV standard deviation score (SDS), height SDS, bone age, insulin-like growth factor-I (IGF¬ I) SDS, and observer-reported outcomes.
Results: Estimated mean HV at week 52 was 11.0 and 10.4 cm/year for somapacitan and daily GH, respectively. Non-inferiority of somapacitan compared to daily GH was confirmed. Changes in HVSDS, height SDS, bone age, and IGF-I SDS from baseline to week 52 were similar between groups. At week 52, mean (SD) IGF-I SDS was within intended reference range (-2.0 to +2.0) and comparable between groups: +0.5 (1.4) for somapacitan versus +0.1 (1.2) for daily GH. Somapacitan was well-tolerated with a safety profile consistent with the well-known safety profile of daily GH. A low proportion of injection-site reactions were reported for somapacitan (2.7%), with no reports of injection-site pain during the 52-week treatment period. Disease burden was reduced from baseline to week 52 for both treatments. Somapacitan reduced treatment burden compared to daily GH.
Conclusions: Efficacy and safety profiles were comparable for Chinese children with GHD treated with somapacitan or daily GH. Both treatments similarly reduced disease burden, while treatment burden was reduced with somapacitan.
DOI: 10.17632/dcnr28rk47
title: The Dataset on Personality Traits, Social Capital, and Cognitive Predictors of Omani Students' Entrepreneurial Intention

description: This dataset belongs to the survey conducted to capture the perceived levels of personality traits, social capital, opportunity recognition, entrepreneurship education, and underlying factors of the theory of planned behavior among UG and PG level students studying business and management in three Omani universities, namely; University of Buraimi, Sohar University, and Dhofar University. For the purpose of data collection, a questionnaire was developed, borrowing validated scales from previous literature.
DOI: 10.25378/janelia.24222688.v1
title: Near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of mouse dorsal striatum (jrc_mus-dorsal-striatum)

description: <b>Sample</b>: Wild-type, 4 month old mouse, strain: C57BL/6;129 from Jackson Lab<b>Sample Description</b>: Close appositions between the membrane of the endoplasmic reticulum (ER) and other intracellular membranes have important functions in cell physiology. These include lipid homeostasis, regulation of Ca2+ dynamics, and control of organelle biogenesis and dynamics. Although these membrane contacts have previously been observed in neurons, their distribution and abundance have not been systematically analyzed. Here, we have used focused ion beam-scanning electron microscopy to generate 3D reconstructions of intracellular organelles and their membrane appositions involving the ER (distance ≤30 nm) in different neuronal compartments. ER–plasma membrane (PM) contacts were particularly abundant in cell bodies, with large, flat ER cisternae apposed to the PM, sometimes with a notably narrow lumen (thin ER). Smaller ER–PM contacts occurred throughout dendrites, axons, and in axon terminals. ER contacts with mitochondria were abundant in all compartments, with the ER often forming a network that embraced mitochondria. Small focal contacts were also observed with tubulovesicular structures, likely to be endosomes, and with sparse multivesicular bodies and lysosomes found in our reconstructions. Our study provides an anatomical reference for interpreting information about interorganelle communication in neurons emerging from functional and biochemical studies.<b>Protocol</b>: Four month old female mice C57BL/6;129 were anesthetized with a ketamine/xylazine anesthetic mixture before perfusion with 2% depolymerized paraformaldehyde and 2.5% glutaraldehyde in 0.1 M sodium cacodylate buffer, postfixed in 2% OsO4, 1.5% K4Fe(CN)6, 0.1 M sodium cacodylate buffer 1 h. Subsequently, specimens were stained in block with 2% aqueous uranyl acetate (1 h), dehydrated in increasing concentrations of ethanol, and embedded in Epon then re-embedded in durcupan.<b>Contributions</b>: Sample provided by Yumei Wu, Christina Whites, and Pietro De Camilli (Yale), prepared for imaging by Yumei Wu and Christina Whites (Yale), with imaging and post-processing by C. Shan Xu (Yale), Kenneth Hayworth (HHMI/Janelia), Gleb Shtengel, and Harald Hess(HHMI/Janelia).<b>Acquisition ID</b>: jrc_mus-dorsal-striatum<b>Voxel size (nm)</b>: 4 x 4 x 4.44 (X, Y, Z)<b>Data dimensions (µm)</b>:<b> </b>10.2 x 10.3 x 6.0 (X, Y, Z)<b>Imaging start date</b>: 2016-09-09<b>Imaging duration (days)</b>: 3<b>Landing energy (eV)</b>: 700<b>Imaging current (nA)</b>: 0.20<b>Scanning speed (MHz)</b>: 0.400<b>Dataset URL</b>: s3://janelia-cosem-datasets/jrc_mus-dorsal-striatum/jrc_mus-dorsal-striatum.zarr/recon-2/em/<b>Visualization Website</b>: https://openorganelle.janelia.org/datasets/jrc_mus-dorsal-striatum<b>Publication</b>:<b> </b>Wu et al., 2017; Xu et al., 2017; Xu et al., 2021
DOI: 10.6084/m9.figshare.14138855.v1
title: Data for: Rapid geographic divergence in competitive ability of cane toad larvae (Rhinella marina) during a biological invasion

description: Experimental data associated with the research paper "<b>Rapid geographic divergence in competitive ability of cane toad larvae (</b><b><i>Rhinella marina</i></b><b>) during a biological invasion</b>" published in Ecology.
DOI: 10.6084/m9.figshare.28485413.v3
title: City air temperature data after basic processing

description: Using car-collected air temperature data in 11 northeastern USA cities, we evaluated how land cover at high resolution influences both air and surface temperatures. This dataset is what is required to replicate our primary analyses.Please see https://github.com/Alonzo-Lab/urban-temperature-analysis/tree/main for the associated code and instructions for how to run these analyses.
DOI: 10.17632/3h6xffk9h6
title: CALANIE: Anisotropic elastic correction to the total energy, to mitigate the effect of periodic boundary conditions

description: CALANIE (CALculation of ANIsotropic Elastic energy) computer program evaluates the elastic interaction correction to the total energy of a localized object, for example a defect in a material simulated using an ab initio or molecular statics approach, resulting from the use of periodic boundary conditions. The correction, computed using a fully elastically anisotropic Green’s function formalism, arises from the elastic interaction between a defect and its own periodically translated images. The long-range field of elastic displacements produced by the defect is described in the elastic dipole approximation. Applications of the method are illustrated by two case studies, one involving an ab initio investigation of point defects and vacancy migration in FCC gold, and another a molecular statics simulation of a dislocation loop. We explore the convergence of the method as a function of the simulation cell size, and note the significance of taking into account the elastic correction in the limit where the size of the defect is comparable with the size of the simulation cell.
DOI: 10.17632/629h2fsvcx
title: Knowledge Graph Dataset used in DecKG

description: 1. Research Hypothesis: The proposed method DecKG aims to improve location recommendation systems by integrating users' check-in behavior (user-POI interactions) with structured urban knowledge graphs (KGs). The hypothesis is that leveraging contextual information from KGs—such as POI categories, geographic proximity, and brand affiliations—will enhance the accuracy and relevance of personalized POI recommendations.

2. Data Description:
2.1 Datasets: Two real-world datasets, Beijing and Shanghai [1], are used. Each contains check-in histories of 10,000 users and a corresponding knowledge graph.
2.2 User-POI Interactions: These represent users' historical check-ins at Points of Interest (POIs), capturing preferences and behavior.
2.3 Knowledge Graph (KG): The KG is structured as triplets (head entity, relation, tail entity). Entities include POIs (e.g., a restaurant), their categories (e.g., "Chinese cuisine"), geographic segments (e.g., a district), and attributes like brand. Relations define contextual links between entities, such as "belongs to brand X" or "is near [region]."
2.4 Data Split: Each dataset is divided into training (80%), testing (10%), and validation (10%) sets to evaluate model performance.

3. Data Collection:
3.1 User check-in data was sourced from location-based services, reflecting real-world visitation patterns as introduced in [1].
3.2 The KG was constructed using POI metadata (e.g., categories, brands) and spatial relationships (e.g., proximity between regions) as introduced in [1].
3.3 The datasets were preprocessed to select 10,000 active users per city, ensuring balanced representation.

[1] Liu, C., Gao, C., Jin, D., Li, Y., 2021. Improving location recommendation with urban knowledge graph. arXiv preprint arXiv:2111.01013.
DOI: 10.6084/m9.figshare.1243361.v1
title: HOJA DE SEGURIDAD DE CLORO

description: HOJA DE SEGURIDAD DE CLORO
DOI: 10.6084/m9.figshare.20502384.v2
title: Rhodopsin pumps with xanthophyll antennas: energy transfer in an abundant light-harvesting system: Additional Data

description: Additional supporting data: <br> GEM_rhodopsins.tsv, IMG.M_rhodopsins.tsv, OM-RGC_rhodopsins.tsv - data on the rhodopsin sequences from GEM, JGI IMG/M and OM-RGC v2 IMG.M_metadata.tsv - metadata for the metagenomes from IMG/M Rhodopsins.jtree - rhodopsin tree file with metadata and aligned sequences in .jtree format Data_jgi.tar.gz - sequences and gene info for all rhodopsins (pfam01036) downloaded from IMG/M.
DOI: 10.6084/m9.figshare.27068128.v3
title: <b>Morphological and Autofluorescence Dataset for ‘Touch’ Epidermal Cell Populations</b>

description: This dataset contains autofluorescence and morphological profiles of epidermal cell populations analyzed with Imaging Flow Cytometry. Epidermal samples were aged for varying amounts of time prior to analysis. Multiple samples from the same individual were also collected to assess profile variation within and across contributors.
DOI: 10.6084/m9.figshare.28756475.v1
title: Supplementary Videos for the mtl2 Research Article

description: <i>Schizosaccharomyces pombe</i>, or fission yeast, videos for nanobodies on mtl2
DOI: 10.6084/m9.figshare.5697064.v1
title: Viannia paper (Coughlan et al 2017) Suppl Tables

description: Viannia paper (Coughlan et al 2017) Suppl Tables
DOI: 10.17632/dpdnv5fw4x
title: Fuzzy logic

description: Paper on fuzzy logic implementation in construction management
DOI: 10.17632/vgdth6ytk5
title: A customizable and low-cost 3D-printed transwell device coupled with 3D cell culture for permeability assay

description: Abstract 

The permeability-based assay is commonly used to assess intestinal barrier function, and it relies on using a transwell insert as an essential compartment. The device consists of a semipermeable membrane that is attached at the bottom of the insert and splits the system into the apical and basolateral compartments. However, commercial inserts are standardized with different pore sizes based on the application and offer only a flat plane of two-dimensional cell culture. Herein, we present a simple, low-cost 3D-printed transwell device and a robust method to functionalize the inserts for paper-based 3D cell culture. This 3D-printed device was fabricated from a polylactic acid (PLA) filament, and a paper membrane used to support HT-29 cells for intestinal permeability assessment. A device showed good biocompatibility when culturing HT-29 cells for 48 and 72 h with 97% and 98% of cell viability, respectively. Together with fluorescent images, cells were attached directly to the microfiber networks of a Matrigel-functionalized paper, indicating that the functionalized paper is biocompatible and bioactive. Furthermore, in a more appropriate culture microenvironment, SEM analyses revealed cellular features differentiating into mucus secreting cells by the formation of microvilli on the cell surface. To demonstrate the usability of the 3D printed transwell device, intestinal permeability was assessed using both chemical and biological stimulation treatments. The permeability results employing FITC-dextran validated the association between a different level of relative fluorescence intensity unit (RFU) and the orange color of live cells by CellTrackerTM. As a result, this 3D-printed transwell device provides a straightforward and cost-effective method for manufacturing a device for customization in many laboratory settings, making it a feasible alternative to marketed transwell devices that do not allow for customization.
DOI: 10.6084/m9.figshare.1162518.v1
title: Trade_data

description: This file contains a dataset extracted from BACI-COMTRADE regarding the export values of 12 countries over 97 HS2 product categories.
DOI: 10.6084/m9.figshare.3971937.v1
title: Supplementary Material for: Impact of Rectal Swabs on Infectious Complications after Transrectal Prostate Biopsy

description: <b><i>Objectives:</i></b> To determine the impact of rectal swabs (RSs) on infectious complications (IC) following prostate biopsy (PB). <b><i>Methods:</i></b> A retrospective cohort study was conducted including all patients subjected to PB between 2009 and 2013. Group B consisted of patients with a RS and group A of patients without. RS reported the presence of gram-positive or negative germs, sensitive or resistant to ciprofloxacin. Antimicrobial prophylaxis was adjusted to the result. Frequency of IC in each group was determined. <b><i>Results:</i></b> Group B had 548 (47.20%) patients and group A 613 (52.80%). From group B, 250 (45.62%) of the RSs showed fluoroquinolone (FQ)-resistant germs. Forty nine (16.44%) patients with sensitive germs vs. 147 (59.51%) with resistant germs had a history of previous FQ treatment (p &lt; 0.0001). IC were observed in 33 (5.49%) patients from group A and in 7 (1.28%) patients from group B (p &lt; 0.0001), requiring hospitalization in 4.99 vs. 1.28%, respectively. IC and hospital admissions were reduced in 76.68 and 74.34%, respectively, following the implementation of RS. <b><i>Conclusions:</i></b> RS and targeted antibiotic prophylaxis prior to PB was associated with a significant reduction in IC and hospital admissions. Ceftriaxone could be an alternative in cases of known resistance. Past history of FQ treatment is associated with increased resistance.
DOI: 10.6084/m9.figshare.8253113.v1
title: antigenicity classification of conformational epitopes

description: Data Citation 12---Antigenicity classification of conformational epitopes
DOI: 10.6084/m9.figshare.12924176.v1
title: Gene database of Pseudomonas stutzeri strain NCTC 10475

description: <i>Pseudomonas stutzeri</i> is a Gram-negative, rod-shaped, motile bacterium with a single polar flagellum. Associated with rare infections in humans, it has nevertheless been isolated from the spinal fluid. This work sought to provide fundamental information about the genetic repertoire of <i>Pseudomonas stutzeri</i> strain NCTC 10475 through parsing the annotated genome sequence of the bacterium downloaded from Genbank. Comprising gene name, gene function, and gene sequence, the resource should find use in a variety of biological workflows seeking to understand the evolutionary origins of the species, as well as putative mechanisms underlying its pathogenicity in humans.
DOI: 10.6084/m9.figshare.29066624.v1
title: MATHCAD FIle for simulating cyclic voltammograms of electrochemical-catalytic mechanism

description: This is original MATHCAD file ready to simulate cyclic voltammograms of an electrochemical-catalytic mechanism in which mass transfer of electrochemically active species is governed by diffusion. The protocol provided in the MATHCAD File of this mechanism enables simulation of cyclic voltammograms as a function of the rate of irreversible catalytic (regenerative) reaction, but also as a function of the rate of electron transfer step. This model is suitable for he beginners in electrochemistry mainly for educational purposes. The MATHCAD File is ready for simulation in MATHCAD 14 or higher versions of MATHCAD, and it is free for use for everyone.
DOI: 10.6084/m9.figshare.6873413.v1
title: Molecular function enriched in somatotropes.txt

description: GO term analysis performed using PANTHER on approximately 300 genes enriched in somatotropes, categorized by enrichment of GO molecular functions.
DOI: 10.6084/m9.figshare.23820621.v2
title: KBC/ZnO_Laser_data

description: Characteristics of ZnO/KBC bionanocomposite foams and the results about random lasers of ZnO/KBC bionanocomposite foams.