cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12834263.v1
title: Supplementary Material for: Retinal Ganglion Cell Topography and Spatial Resolving Power in Echolocating and Non-Echolocating Bats

description: Bats are nocturnal mammals known for their ability to echolocate, yet all bats can see, and most bats of the family Pteropodidae (fruit bats) do not echolocate – instead they rely mainly on vision and olfaction to forage. We investigated whether echolocating bats, given their limited reliance on vision, have poorer spatial resolving power (SRP) than pteropodids and whether tongue click echolocating fruit bats differ from non-echolocating fruit bats in terms of visual performance. We compared the number and distribution of retinal ganglion cells (RGCs) as well as the maximum anatomical SRP derived from these distributions in 4 species of bats: <i>Myotis daubentonii</i>, a laryngeal echolocating bat from the family Vespertilionidae, <i>Rousettus aegyptiacus</i>, a tongue clicking echolocating bat from the family Pteropodidae, and <i>Pteropus alecto</i> and <i>P. poliocephalus</i>, 2 non-echolocating bats (also from the Pteropodidae). We find that all 3 pteropodids have a similar number (≈200,000 cells) and distribution of RGCs and a similar maximum SRP (≈4 cycles/degree). <i>M. daubentonii</i> has fewer (∼6,000 cells) and sparser RGCs than the pteropodids and thus a significantly lower SRP (0.6 cycles/degree). <i>M. daubentonii</i> also differs in terms of the distribution of RGCs by having a unique dorsal area of specialization in the retina. Our findings are consistent with the existing literature and suggest that <i>M. daubentonii</i> likely only uses vision for orientation, while for pteropodids vision is also important for foraging.
DOI: 10.6084/m9.figshare.18096383.v2
title: Nurse Workload, Missed Nursing Care, and the Contributing Factors in the Neonatal Intensive Care Unit in a Limited Resource Setting: A Case from Indonesia

description: This data consists of NASA-TLX and MISSCARE survey conducted to 48 NICU nurses from the Neonatal Intensive Care Unit (NICU) in Dr. Soetomo General Hospital
DOI: 10.6084/m9.figshare.5128549.v1
title: Supplementary Material for: Serum Ferritin Predicts Mortality Regardless of Inflammatory and Nutritional Status in Patients Starting Dialysis: A Prospective Cohort Study

description: <b><i>Background:</i></b> The impact of serum ferritin on prognosis in patients starting hemodialysis (HD) is not fully elucidated. <b><i>Methods:</i></b> A prospective cohort of 946 incident HD patients from 26 dialysis centers in Korea was selected for this study. Patients were divided into tertiles according to natural logarithm (Ln) ferritin concentrations. <b><i>Results:</i></b> During a median follow-up of 39 months, 88 (9.3%) patients died. Multivariate Cox proportional hazard analysis demonstrated that Ln ferritin was independently associated with an increase in cardiovascular mortality risk (hazard ratio (HR) 1.604, 95% CI 1.040-2.474, p = 0.033), infection-related mortality risk (HR 1.916, 95% CI 1.056-3.476, p = 0.032), and all-cause mortality risk (HR 1.547, 95% CI 1.156-2.069, p = 0.003). <b><i>Conclusion:</i></b> Serum ferritin levels at the time of HD commencement were a significant independent risk factor for mortality regardless of systemic inflammation and nutritional status. Therefore, elevated serum ferritin levels could be an effective indicator for prognosis.
DOI: 10.6084/m9.figshare.809582.v1
title: Spatial Demography Column 1 Data and code

description: These are the data and code for the first column in the Spatial Demography journal's Software and Code series
DOI: 10.6084/m9.figshare.19499624.v1
title: patches and local annotations, slide 037, zoom 248x248 um2

description: patches and local annotations: data for slide with ID of the last 3 characters of the file name: local annotations in csv format and a folder with patches at zoom level indicated at the 6th character of the file name
DOI: 10.6084/m9.figshare.23667531.v2
title: R script used for the analysis of Clinical Trial (CT) distribution worldwide associated with the Hepatitis B Virus.

description: <strong>Search strategy and selection criteria</strong> We searched the International CT Registry Platform (ICTRP) from the WHO, and ‘ClinicalTrials.gov’ registries for Hepatitis B Virus Clinical Trials (CT) reported in English, without limitation by start year. CT were only eligible for inclusion when focused on the pathogen of interest, but we included studies both of individuals with the relevant infection and of healthy volunteers (e.g., for HBV studies, we permitted ‘CHB’, ‘HBV’, ‘Hepatitis B’ and ’healthy’, with the latter reflecting enrolment for phase I CT for evaluation of HBV-specific interventions). Studies categorized as ‘observational’ (i.e., no intervention) or with missing location data were excluded. CTs were then sorted by WHO region, based on their registered location(s), using this R script (Version 4.2.1). Final database are published here: https://doi.org/10.6084/m9.figshare.23667480.v1 <br>
DOI: 10.6084/m9.figshare.25689504.v1
title: Supplementary Material for: Longterm erythromycin treatment alters the airway and gut microbiota：Data from COPD patients and mice with emphysema

description: Introduction: Although long-term macrolide antibiotics could reduce the recurrent exacerbation of chronic obstructive pulmonary disease (COPD), the side effect of bacterial resistance and the impact on the microbiota remain concerning. We investigated the influence of long-term erythromycin treatment on the airway and gut microbiota in mice with emphysema and patients with COPD.
Methods: We conducted 16S rRNA gene sequencing to explore the effect of erythromycin treatment on the lung and gut microbiota in mice with emphysema. Liquid chromatography–mass spectrometry was used for lung metabolomics. A randomized controlled trial was performed to investigate the effect of 48-week erythromycin treatment on the airway and gut microbiota in COPD patients. 
Results: The mouse lung and gut microbiota were disrupted after cigarette smoke exposure. Erythromycin treatment depleted harmful bacteria and altered lung metabolism. Erythromycin treatment did not alter airway or gut microbial diversity in COPD patients. It reduced the abundance of pathogens, such as Burkholderia, in the airway of COPD patients and increased levels of symbiotic bacteria, such as Prevotella and Veillonella. The proportions of Blautia, Ruminococcus and Lachnospiraceae in the gut were increased in COPD patients after erythromycin treatment. The time to the first exacerbation following treatment was significantly longer in the erythromycin-treatment group than in the COPD group.
Conclusion: Long-term erythromycin treatment reduces airway and gut microbe abundance in COPD patients but does not affect microbial diversity and restores microbiota balance in COPD patients by reducing the abundance of pathogenic bacteria.
DOI: 10.6084/m9.figshare.6823094.v1
title: SKYDataset

description: This contains the EEG recordings for subjects from the manuscript, "High Frequency Cerebral Activation and Inter-hemispheric synchronization following Sudarshan Kriya Yoga (SKY) in Brain Rhythms: The State effects". These 40 subjects underwent 5 minutes of baseline recording followed by 45 minutes of Sudarshan Kriya Yoga followed by 20 minutes of supine rest while listening to audio instructions. The total duration of the experiment was 1 hour 10 minutes.<br>subjects_epochs.mat : This contains the manual curated epochs from the recordings which were free of movements artifacts and noise. The "timings" array in the structure is of the shape 40subjects x 4events x 40 epochs. The first and last events were used for this analysis. Each epoch start time is mentioned in the array and the epoch length was fixed at 4 seconds. <br>SubjectMetadata.csv: This contains the age, sex and meditation experience in years of the subjects in the study.
DOI: 10.6084/m9.figshare.22094012.v1
title: Growth in Ugandan children with cerebral palsy DATA SET

description: There is a need to understand the growth and burden of malnutrition in children with cerebral palsy (CP) in order to design appropriate inclusive nutrition strategies. We compared the nutritional status and four-year longitudinal growth of a population-based cohort of children and young people (C&Y) with CP (n=97; 2-17 years; 55/42 M/F), and an age and sex matched group without CP (n=91; 2-17y; 50/41 M/F) in rural Uganda. The cohorts were assessed in 2015 and 2019 for weight, height, social demographic characteristics, and feeding related factors. Nutritional status was determined using the World Health Organization (WHO) Z-scores. Wilcoxon sign rank and Mann-Whitney tests were used to test within and between group differences. Multivariable linear regression was used to determine predictors of the change in growth. Approximately two thirds (62/97 (64%)) of C&Y with CP were malnourished (with &lt;-2SD in any of the WHO Z-scores), especially those with feeding difficulties (OR=2.65; P=0.032), and those who needed to be fed (OR=3.8; P=0.019). Both the CP and non-CP groups deviated negatively from the WHO reference growth curve for height, with a significantly slower growth in the CP group (median change score of height-for-age Z score (HAZ) between assessments =-0.80(-1.56, 0.31), p&lt;0.01), than the non-CP group (median HAZ change score=-0.27(-0.92,0.34, p=0.034). There was a statistically significant group difference in the median HAZ change score between the CP and non-CP groups (z = -2.21, p=0.026). Severity of motor impairment measured by the Gross Motor Function Classification System (GMFCS-level) correlated negatively (r =-1.37,95%CI -2.67, -0.08) with the change in HAZ scores among the CP group. Children and young people with severe motor impairments exhibit an increased risk of malnutrition and growth retardation compared to their age matched peers without CP, which underscores the need to develop inclusive community-based nutrition strategies for children with cerebral palsy.
DOI: 10.6084/m9.figshare.25378543.v1
title: Yuasa's stuffed specimen collection open date

description: 2022年10月5日に故・湯浅純孝氏の奥様である湯浅俶子氏から標本を寄附していただいた．当コレクションは，富山県産のものを中心に鳥類の仮剝製標本417種1,410点，哺乳類の仮剝製標本81点の計1,491点からなる．なかでも鳥類標本では989点が富山県産のもので，戦後の富山県における鳥類相を把握する上で，大変貴重な標本が数多く含まれている．本標本群は故・湯浅純孝氏が生涯をかけて収集されたものであり，貴重な資料として当館の登録標本として保存している．博物館資料として活用されることを期待すると託されたものであり，今後は県内のみならず国内外の研究者によって本標本群が活用されると幸いである．yuasa`s mammal`s collection open date & yuasa`s bird`s collection open date<br>
DOI: 10.6084/m9.figshare.12672038.v2
title: Revised MD17 dataset (rMD17)

description: THE REVISED MD17 dataset:<br>=========================<br><br><br>Citation:<br>========<br><br> Anders S. Christensen and O. Anatole von Lilienfeld (2020) "On the role of gradients for machine learning of molecular energies and forces" arXiv:?????<br><br>The molecules are taken from the original MD17 dataset by Chmiela et al., and 100,000 structures are taken, and the energies and forces are recalculated at the PBE/def2-SVP level of theory using very tight SCF convergence and very dense DFT integration grid. As such, the dataset is practically free from nummerical noise. <br><br><br>One warning: As the structures are taken from a molecular dynamics simulation (i.e. time series data), they are not guaranteed to be independent samples. This is easily evident from the autocorrelation function for the original MD17 dataset<br><br>In short: DO NOT train a model on more than 1000 samples from this dataset. Data already published with 50K samples on the original MD17 dataset should be considered meaningless due to this fact and due to the noise in the original data.<br><br><br>The data:<br>=========<br><br>The ten molecules are save in Numpy .npz format.<br><br>The keys correspond to:<br><br>'nuclear_charges' : The nuclear charges for the molecule<br>'coords' : The coordinates for each conformation (in units of ångstrom)<br>'energies' : The total energy of each conformation (in units of kcal/mol)<br>'forces' : The cartesian forces of each conformation (in units of kcal/mol/ångstrom)<br>'old_indices' : The index of each conformation in the original MD17 dataset<br>'old_energies' : The energy of each conformation taken from the original MD17 dataset (in units of kcal/mol)<br>'old_forces' : The forces of each conformation taken from the original MD17 dataset (in units of kcal/mol/ångstrom)<br><br>*Note that for Azobenzene, only 99988 samples are available due to 11 failed DFT calculations, and the original dataset only contained 99999 structures.<br><br><br>Data splits:<br>============<br>Five training and test splits are saved in CSV format containing the corresponding indices.<br><br>
DOI: 10.6084/m9.figshare.12807974.v1
title: Subject_3

description: Subject 3 signals
DOI: 10.6084/m9.figshare.7728734.v2
title: Data: Social network predicts susceptibility to respiratory infection in a wild chimpanzee group

description: 1) A network adjacency matrix based on 5-meter proximity data on male chimpanzees over the course of a 3-month study period ("5m network adjacency matrix.csv")<br>2) Data file on individual chimpanzees, including social network metrics, age, neighborhood within the community, dominance status, and whether they showed clinical signs of respiratory infection during the study period.
DOI: 10.6084/m9.figshare.28159244.v1
title: Research data (2013-2023) for bank study

description: IA is calculated from Total Assets (ASSET), Real estate loans (LNRE), Farm loans (LNAG), and Loans to Individuals (LNCON) from the balance sheet. IL is calculated from Total Deposits (DEP), Deposits of individuals with account balances of $250,000 or less (DEPSMAMT), and Cash and Balances due from Depository Institutions (CHBAL) from the balance sheet.Employing actor-network theory, this study introduces a dynamic econophysics framework for bilateral risk analysis within SLHCs. Utilizing a maximum entropy model on the annual balance sheets of 147 US. SLHCs from 2013 to 2023, constructs intercompany funding and exposure networks using intercompany assets and liabilities data. Two algorithms are utilized to extract core-periphery network features, assessing optimal linkages and disruptions from external shocks. Expanding on previous research, additional core-periphery network features are incorporated. This study provides a comprehensive structural analysis at the node, edge, and graph levels, offering valuable insights into risk evolution in financial networks over time.Wang, H. (2025). Bilateral risk in savings and loan holding companies: an econophysics framework for analyzing network resilience. <i>Applied Economics</i>, 1–17. https://doi.org/10.1080/00036846.2025.2461328
DOI: 10.6084/m9.figshare.22587271.v1
title: Sediment properties.xlsx

description: Sediment properties (bulk density, saturated density, Organic matter content, pH, medium grain size, clay content, silt content) among mangrove habitat in Qi'ao Island, Pearl River Estuary, China. Sampling sites include the <em>Kandelia obovata</em> , <em>Sonneratia apetala</em> with 14,17,22 year stand ages, and bare tidal flat.
DOI: 10.6084/m9.figshare.4519676.v1
title: Supplementary Material for: Neurodevelopmental Effects of Undernutrition and Placental Underperfusion in Fetal Growth Restriction Rabbit Models

description: <b><i>Introduction:</i></b> Chronic reduction of oxygen and nutrient delivery to the fetus has been related to neurodevelopmental problems. Placental underperfusion induces a significant reduction in oxygen and nutrient delivery, whereas maternal undernutrition causes mainly nutrient deficiency. A comparison of the neurodevelopmental effects of both situations in pregnant rabbits was performed. <b><i>Materials and Methods:</i></b> The placental underperfusion model was induced after uteroplacental vessel ligation at 25 days of pregnancy. The undernutrition model was induced after a reduction of 70% of the basal maternal intake at 22 days of pregnancy. Neurobehavioral tests were applied in the derived offspring at the neonatal period and over the long term. Structural brain differences were evaluated by brain networks obtained from diffusion magnetic resonance imaging. <b><i>Results:</i></b> Birth weight was significantly lower in both cases. However, stillbirth was only increased in the placental underperfusion model. Cases from both models presented poorer neurobehavioral performance and network infrastructure, being more pronounced in the placental underperfusion model. <b><i>Discussion:</i></b> Prenatal insults during the last third of gestation resulted in functional and structural disturbances. The degree of neurodevelopmental impairment and its association with structural brain reorganization seemed to be related to the type of the prenatal insult, showing stronger effects in the placental underperfusion model.
DOI: 10.6084/m9.figshare.26198357.v1
title: Supplementary Material for: Outcome Prediction Model for radiofrequency Uvulopalatopharyngoplasty with Tonsillectomy in Adult Obstructive Sleep Apnea: retrospective cohort study

description: Introduction: Knowing an individualized outcome prediction is essential when counseling patients before surgery. We aim to identify predictors and build a model for the outcome of radiofrequency-uvulopalatopharyngoplasty with tonsillectomy (rfUPPP+TE).
Methods: All adult patients undergoing rfUPPP+TE for sleep-disordered breathing from 2015-2022 in our institution were included. Preoperative evaluations included detailed upper airway examinations and standardized questionnaires. Postoperative outcomes were measured through home sleep apnea testing and repeated questionnaires three months post-surgery. The primary endpoint was the postoperative apnea-hypopnea index (AHI) and the AHI responders using the Sher criteria.
Results: We analyzed 247 patients with a mean age of 46±11 years, predominantly male (88.7%), and a mean BMI of 29.0kg/m^2. The mean AHI was reduced from 26.4±18.6/h preoperatively to 16.2±14.6/h postoperatively. Daytime sleepiness improved from 8.9±48 to 4.0±3.1 and snoring from 7.9±2.1 to 3.3±2.2. Multivariate analysis indicated that higher tonsil grades, preoperative AHI, and snoring levels were associated with a greater reduction in AHI. Age and body weight were negative predictors for AHI reduction. For AHI responders, according to Sher, tonsil grade was the only predictor in a multivariate analysis. The ROC curve of this simple model, with a corrected AUC of 0.625, compared favorably against two established models.
Conclusion: Our study highlights that tonsil grade, preoperative AHI, snoring, and, to a smaller extent, age, and weight are key determinants of AHI reduction, emphasizing the importance of preoperative evaluation. Despite the multifactorial nature of obstructive sleep apnea, preoperative evaluation can predict the outcome of rfUPPP+TE and guide surgical planning.
DOI: 10.6084/m9.figshare.5122672.v1
title: Supplementary Material for: Sunitinib for Asian Patients with Advanced Renal Cell Carcinoma: A Comparable Efficacy with Different Toxicity Profiles

description: <i>Objective:</i> We aimed to describe the efficacy and safety of sunitinib in unselected Korean advanced renal cell carcinoma (RCC) patients. <i>Patients and Methods:</i> From November 2005 to August 2008, 132 histologically confirmed advanced RCC patients (100 in the global expanded access program) were enrolled. Response and toxicity were assessed regularly according to the protocol. <i>Results:</i> Within this population, 82.6% had clear cell RCC, and 28.8% were treatment naïve. Patients received a median of 5 cycles of sunitinib (range 1–30), and the mean relative dose intensity was 82.0 ± 14.20 (SD). The progression-free survival (PFS) and overall survival rates were 8.2 and 23.1 months, respectively. For the 130 evaluable patients, the objective response rate was 34.1% (n = 45); 44.7% (n = 59) exhibited stable disease. Reasons for discontinuation were disease progression (75.0%) and toxicity (7.6%). The most frequent adverse events were thrombocytopenia (75.0%), neutropenia (70.5%), and anemia (69.7%). Low body surface area (OR = 4.2, 95% CI 1.2–13.8, p = 0.02) and previously treated status (OR = 3.1, 95% CI 1.3–7.4, p = 0.01) were highly predictive of grade 3–4 toxicities. Based on these findings, a nomogram predicting the probability of 12-month PFS was constructed, giving a concordance index of 0.675. <i>Conclusions:</i> Despite the different toxicity profiles, maintaining adequate dose modifications and a careful follow-up enables comparable treatment outcomes for unselected Korean advanced RCC patients.
DOI: 10.6084/m9.figshare.25918615.v1
title: Thwaites Ice Shelf - Fracture depth from ICESat-2 (2018-2022) and seasonal flow velocity from Sentinel-1 (2018-2023)

description: This dataset was produced for the manuscript “Recent Fracture-Flow Variability on Thwaites Ice Shelf and Linkages to Atmosphere-Ocean Drivers” submitted to the journal “AGU Advances” by Wang et al. 2024. It has two subfolders, including the derived time series of fracture depth grids for 2018-2022, and flow velocities for 2018-2023.To use this dataset, please cite.Wang, S., Alexander, P. M., Alley, R. B., Huang, Z., Parizek, B.R., Willet, A.G., Anandakrishnan, S.(2024). Recent Fracture-Flow Variability on Thwaites Ice Shelf and Linkages to Atmosphere-Ocean Drivers. Under review. (We will update this information after the paper is formally published)Please refer to the readme file for more information, and/or contact Shujie Wang at skw5660@psu.edu.
DOI: 10.6084/m9.figshare.20411811.v2
title: Spectral Library (as xls, speclib, kit)

description: MaxQuant outputs were loaded into Spectronaut. The processed spectral library was processed by default settings. Files were searched with PA14-fasta gene data. The file 2022_03_speclib123.xls can be used as as library file for programs like Spectronaut, DIA-NN or Skyline. The file 2022_08_mastersheet_spectral_library_PA01_PA14_DDA-MS.xlsx contains quantitativ LFQ-quantified protein abundances of roughly 3800 gene products that were found in at least 6/8 samples. Please feel free to use the data to varify your experimental setup.
DOI: 10.6084/m9.figshare.8262020.v1
title: Jerash Northwest Quarter GPR data

description: This data was collected during the 2011 campaign of the Danish-German Jerash Northwest Quarter Project (Universities of Aarhus and Münster)<br>Geophysical prospections were undertaken by Eastern Atlas, Berlin<br>All data is converted into the Palestine1923 (EPSG:28192)<br>RAD data<br>* 3 timeslices for each area measured (Area A, Area B, Area CD)<br>* timeslice 1: 0ns - 10ns --&gt; 0m-0,5m / timeslice 2: 10ns - 20ns --&gt; 0,5m-1m / timeslice 3: 20ns - 30ns --&gt; 1m-1,5m<br>
DOI: 10.6084/m9.figshare.21136657.v1
title: FTLD Metadata

description: FTLD metadata
DOI: 10.6084/m9.figshare.21717164.v1
title: Self generated DEMs

description: The .rar folder contains DEMs that were self generated using USGS ISIS and BAE Systems SocetSet. These DEMs were used in morphometric analysis of gully systems on Mars.
DOI: 10.15468/dl.b6hzxh
title: Occurrence Download

description: A dataset containing 3908 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Observation, Human Observation, Machine Observation, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Muscina levida (Harris, 1780)"
 ]
}

 The dataset includes 3908 records from 53 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009451-250426092105405/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.