cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7857269.v1
title: Supplementary Material for: The Altered-State-of-Consciousness Aspect of a Feeling of Lightness Is Reported to Be Associated with Antidepressant Benefits by Depressed Individuals Receiving Ketamine Infusions: A Systematic Analysis of Internet Video Testimonials

description: Medicine
DOI: 10.6084/m9.figshare.28311548.v1
title: Cost Calculations

description: This database presents data from cost effectiveness analysis conducted as part of A360's first investment phase (2016-2020). The methodology for collecting this data and indicator definitions is included below.<i>We collected costing data to facilitate a cost analysis that used a blended top-down and bottom-up approach. Costing data included financial costs incurred during A360’s implementation and excluded end-user or societal level costs. Financial data from PSI and its A360 consortium partners’ financial systems was pulled into an Excel database to calculate direct implementation costs. The project’s external cost-effectiveness evaluation partner (independently engaged by the A360 donors) supported in extracting site level costing data from government financial systems through facility surveys. This was employed to calculate government in-kind implementation cost. These surveys were conducted through interviews with staff in selected health facilities by trained data collectors using an excel-based costing tool. The tool captured costs which were unavailable data from PSI and its A360 consortium partners’ financial systems, including facility size and cost for use of utilities, office and medical equipment, and government staff time. Surveys were also conducted among the project personnel to determine how project costs were allocated between the different phases of the project and between the major cost drivers.</i><i>To generate routine cost-efficiency metrics, each of A360’s interventions was assigned a ‘total implementation cost’ which consisted of all direct and indirect costs incurred by PSI or a consortium partner at a country level. Global top-down costs, including personnel costs for the project’s global staff and consortium partners and the associated indirect costs, were allocated to each country intervention’s total implementation cost using the approximate time spent supporting each country intervention. Cost per adopter was calculated on a quarterly basis using a cumulative approach. The total to date implementation cost was summed with the cost allocation from the project’s global costs and divided by the total to date number of adopters reached for the same period. For A360’s two interventions in Nigeria, MMA and 9ja Girls, costs were split across proportionally based on the number of sites where A360 was currently implementing each intervention. </i>
DOI: 10.6084/m9.figshare.14470740.v2
title: Phonics Instruction in Early Literacy supplemental .xlsx

description: This data is provided as a supplemental for the systematic literature review, Phonics Instruction in Early Literacy: Examining Professional Learning, Instructional Resources, and Intervention Intensity.<b> </b><b></b>
DOI: 10.6084/m9.figshare.5127850.v1
title: Supplementary Material for: Cumulative Effects of Foraging Behavior and Social Dominance on Brain Development in a Facultatively Social Bee <b><i>(Ceratina australensis)</i></b>

description: In social insects, both task performance (foraging) and dominance are associated with increased brain investment, particularly in the mushroom bodies. Whether and how these factors interact is unknown. Here we present data on a system where task performance and social behavior can be analyzed simultaneously: the small carpenter bee <i>Ceratina australensis.</i> We show that foraging and dominance have separate and combined cumulative effects on mushroom body calyx investment. Female<i> C. australensis</i> nest solitarily and socially in the same populations at the same time. Social colonies comprise two sisters: the social primary, which monopolizes foraging and reproduction, and the social secondary, which is neither a forager nor reproductive but rather remains at the nest as a guard. We compare the brains of solitary females that forage and reproduce but do not engage in social interactions with those of social individuals while controlling for age, reproductive status, and foraging experience. Mushroom body calyx volume was positively correlated with wing wear, a proxy for foraging experience. We also found that, although total brain volume did not vary among reproductive strategies (solitary vs. social nesters), socially dominant primaries had larger mushroom body calyx volumes (corrected for both brain and body size variation) than solitary females; socially subordinate secondaries (that are neither dominant nor foragers) had the least-developed mushroom body calyces. These data demonstrate that sociality itself does not explain mushroom body volume; however, achieving and maintaining dominance status in a group was associated with mushroom body calyx enlargement. Dominance and foraging effects were cumulative; dominant social primary foragers had larger mushroom body volumes than solitary foragers, and solitary foragers had larger mushroom body volumes than nonforaging social secondary guards. This is the first evidence for cumulative effects on brain development by dominance and task performance.
DOI: 10.6084/m9.figshare.8035679.v1
title: Patient 5 MRI

description: CTs and MRIs were both acquired under radiotherapy immobilization protocols with patients in the treatment position.<br>CT scans were acquired on one of four machine models (LightSpeed RT16, GE Medical Systems, Waukesha, WI, USA; Brilliance 64 or Brilliance Big Bore, Philips Healthcare, Cambridge, MA, USA; SOMATOM Definition Edge, Siemens, Washington D.C., USA) using x-ray tube currents between 208 – 434 mA at 120 kVp. All scans have slice thicknesses of either 2.5 or 3 mm, with 2.5 or 3 mm of space between slices. Sections are displayed in 512 x 512 pixel matrices and were reconstructed in diameters between 500 – 600 mm. <br>MRI scans were acquired in one of two machine models (Discovery MR750, GE Medical Systems, Waukesha, WI, USA; Ingenia, Philips Healthcare, Cambridge, MA, USA) in 3 Tesla magnetic fields with echo times between 97.72 – 101.82 milliseconds. All scans have slice thicknesses of 2.5 mm, with 2.5 or 4 mm of space between slices. Sections are displayed in 512 x 512 pixel matrices and were reconstructed in 256 mm diameters.
DOI: 10.6084/m9.figshare.11929881.v1
title: MutiQC Report for Neuroblastoma Cell Line ATAC-Seq and ChIP-Seq

description: MutiQC Report for Neuroblastoma Cell Line ATAC-Seq and ChIP-Seq
DOI: 10.6084/m9.figshare.16871824.v1
title: Supplementary Material for: The Clinical Complexity of Penile Cancer: Current Clinical-Epidemiological Data from the Database of the Free State of Saxony/Germany

description: <b><i>Objectives:</i></b> The aim of this study was to assess penile cancer incidence, clinical characteristics, treatment options, transparency of clinical quality, and relative survival based on data from the clinical cancer registry. <b><i>Subjects and Methods:</i></b> A total of 898 patients with tumours of the penis were diagnosed and analysed in the period from 2000 to 2018; they were documented in the 4 regional clinical cancer registries and summarized in the Command Office of these 4 registries. <b><i>Results:</i></b> The standardized incidence rate increased from 0.86 in 2000 to 2.67 in 2018. Most tumours were located at the glans (42.9%) followed by the prepuce (19.5%) and corpus penis (6.9%); they were classified into pT1a/pT1b (20.0%/7.0%), pT2 (23.5%), pT3 (12.4%), and pT4 (0.8%). In only 32.0% of all documented cases, a stage-related lymphadenectomy (LND) was carried out. Negative surgical margins were found in only 70% and the Rx status in 15.1%. Primary metastasis was detected in pN1 (5.1%), pN2 (3.9%), pN3 (3.1%), and M1 status in 3.0%, respectively. The predominant therapy was surgery in 78.3%. The proportion of penile partial resections was significantly (<i>p</i> = 0.0045) regredient over the control period. Adjuvant chemotherapy was performed in 4.7%, adjuvant external-beam radiotherapy in 3.0%. The 5-year relative overall survival rate was 74.7% and ranged from 108.0% (stage 0) to 17.1% (stage IV). A total of 29 hospitals performed tumour operations. <b><i>Conclusions:</i></b> The multitude of clinical and epidemiological variables available in clinical cancer registries allows a safe assessment of tumour dynamics themselves, as well as good quality of transparency and broadly acceptable guideline adherence. Deviations from the accepted level of evidence were found in the grading definition, in the high quota of positive surgical margins, in the defensive indication position to the glans resurfacing/reconstruction and diagnostical LND. Based on these relevant findings in the database combined with the low frequency of the tumour in area/clinics/year, we recommended establishing SCCP reference clinics. This work is the first time that European standardized rate-based cancer registry data on penile cancer from Germany has been communicated.
DOI: 10.6084/m9.figshare.24899358.v1
title: data

description: in-situ data in summer cruise
DOI: 10.6084/m9.figshare.5688916.v1
title: FLO1K - Mean Annual Flow Time Series 1960-2015

description: NetCDF metadata:<br> netcdf FLO1K.ts.1960.2015.qav {<br> dimensions:<br> time = UNLIMITED ; // (56 currently)<br> lat = 21600 ;<br> lon = 43200 ;<br> variables:<br> double lat(lat) ;<br> lat:standard_name = "latitude" ;<br> lat:long_name = "latitude" ;<br> lat:units = "degrees_north" ;<br> double lon(lon) ;<br> lon:standard_name = "longitude" ;<br> lon:long_name = "longitude" ;<br> lon:units = "degrees_east" ;<br> float qav(time, lat, lon) ;<br> qav:_FillValue = -1.f ;<br> qav:grid_mapping = "crs" ;<br> qav:long_name = "mean annual streamflow" ;<br> qav:description = "mean over the 12 mean monthly streamflow values of the year" ;<br> qav:units = "m3/s" ;<br> float time(time) ;<br> time:units = "days since 1900-01-01 00:00:00" ;<br> time:standard_name = "time" ;<br> time:calendar = "gregorian" ;<br> int crs ;<br> crs:long_name = "Lon/Lat Coords in WGS84" ;<br> crs:grid_mapping_name = "latitude_longitude" ;<br> crs:longitude_of_prime_meridian = 0. ;<br> crs:semi_major_axis = 6378137. ;<br> crs:inverse_flattening = 298.257223563 ;<br> <br> // global attributes:<br> :Conventions = "CF-1.6" ;<br> :title = "FLO1K: global maps of mean, maximum and minimum annual streamflow at 1 km resolution from 1960 through 2015" ;<br> :institution = "Radboud University & PBL Netherlands Environmental Assessment Agency" ;<br> :source = "FLO1K v1.0" ;<br> :scenario = "Historical run 1960-2015, yearly timesteps" ;<br> :comment = "" ;<br> :references = "For documentation, see Barbarossa et al. (Sci. Data, 2018)" ;<br> :disclaimer = "This data was produced with the utmost care, based on methods described in the above article. Please cite the above article when using any part of this data in your work." ;<br> :history = "Created on 2017-12-07" ;<br> }
DOI: 10.6084/m9.figshare.22623539.v1
title: Additional file 2 of multiWGCNA: an R package for deep mining gene co-expression networks in multi-trait expression data

description: Additional file 2. Network Comparison. Comparison of multiWGCNA combined network modules to Castanho et al. 2020 standard WGCNA modules.
DOI: 10.6084/m9.figshare.24517681.v1
title: Genetic linkage mapping of round fish pacu (Piaractus mesopotamicus)

description: This study describes the development of the medium density linkage map for pacu, which will be used as a framework to study relevant traits to the production of this species.
DOI: 10.6084/m9.figshare.11877966.v2
title: PLoS One: Alpha diversity_ by sample type

description: Alpha diversity (Shannon diversity) of bacteria, archaea, and fungi from summer from different sample types (i.e., water and sediment).
DOI: 10.6084/m9.figshare.25584081.v1
title: Whole cervix imaging of collagen, muscle, and cellularity in term and preterm pregnancy

description: A magnetic resonance imaging technique, diffusion basis spectrum imaging (DBSI), offers non-invasive insights into cervical structure by imaging cellularity, collagen, and muscle fibers. Validated through both ex vivo and in vivo analyses, DBSI reveals significant microstructural differences between term and preterm deliveries, correlating closely with timing of delivery.
DOI: 10.6084/m9.figshare.14473512.v2
title: Mechanomics RT-DC Set 04 - MCF10A-PIK3CA

description: Entry is a part of <b>Mechanomics</b> collection (10.6084/m9.figshare.c.5399826) that contains materials supporting findings presented in the following manuscript:<i>Urbanska, M., Ge, Y.</i> et al.,<br><b><i>De novo identification of universal cell mechanics gene signatures</i></b>BiorXiv: https://doi.org/10.1101/2021.04.26.441418<i>;</i><i> </i><i>first published:</i><i> </i>27th April 2021<i>, last updated:</i><i> </i>4th Nov 2024<br>eLife: https://doi.org/10.7554/eLife.87930<i>; first published:</i><i> </i>23rd March 2023<i>, last updated:</i><i> </i>27th Dec 2024<br>This dataset contains mechanical measurement of MCF10A cell lines with single-allele PIK3CA mutation E545K in exon 9 (ex9) or H1024R in exon 20 (ex20) (Juvin <i>et al.</i>, 2013, <i>PLoS One</i>). These cell lines were previously generated by homologous recombination by Horizon Discovery LTD, UK and were kindly provided, together with an isogenic wild type (wt) control, by L.R. Stephens.Lines:<br>• MCF10A wild type (wt)• MCF10A PIK3CA mutation E545K in exon 9 (ex9)*<br>• MCF10A H1024R in exon 20 (ex20).<br>*not used in the final version of the manuscript Measurements were performed using real-time deformability cytometry (RT-DC).<br><b>_rtdc.zip</b> - contains data acquired during the measurments in '*.rtdc' format<b>_tsv.zip</b> - contains extended data in a '*.tsv' format<br><b>_glmm.zip</b> - contains result summaries of statistical analysis comparing Young's moduli of the different cell types using generalised linear mixed effects models<br>Juvin, V. <i>et al.</i> Signaling via Class IA Phosphoinositide 3-Kinases (PI3K) in Human, Breast-Derived Cell Lines. <i>PLoS One</i><b> </b><b>8</b>, (2013). https://doi.org/10.1371/journal.pone.0075045<br>
DOI: 10.6084/m9.figshare.21896697.v1
title: LU81149.zip

description: lunar impact crater catalog
DOI: 10.6084/m9.figshare.8952938.v1
title: PeerJ_Supplementary Materials

description: Alzheimer's disease (AD) is a prevalent progressive neurodegenerative human disease. Several initially highly hopeful anti-AD drugs based on the amyloid-β (Aβ) hypothesis of AD have failed recent late-phase tests, and the cause of AD remains unclear. Natural aging (AG) is a high-risk factor for AD. Here, we aim to gain insights in AD that may lead to its therapeutic treatment through conducting functional analyses of gene expression microarray data from AG and AD-affected brain. These may add to our understanding of AD pathology.
DOI: 10.6084/m9.figshare.28643264.v1
title: Supplementary Material for: BILATERAL VASO-PROLIFERATIVE TUMORS IN USHER SYNDROME

description: Introduction: Vasoproliferative tumors (VPTs) can be associated with retinal dystrophy, but there are few well-documented cases, and even fewer linked to Usher syndrome. Most reported cases are unilateral. The purpose of this report is to describe a case of bilateral sequential VPT in the context of MYO7A-related Usher syndrome.
Case Report: A 13-year-old female presented with pain in her left eye and no light perception in that eye. She was found to have left eye advanced neovascular glaucoma related to VPT in the context of MYO7A-related Usher syndrome. Intraocular pressure and pain were controlled with external diode cyclodestruction. Almost 3 years later, early asymptomatic VPT was noted in the right eye during follow-up and was treated with laser photocoagulation. 
Conclusion: Although VPT is typically unilateral, affected patients need careful follow-up for possible bilateral sequential disease. Early treatment avoids blinding complications.
DOI: 10.6084/m9.figshare.11933475.v3
title: Supplemental Data 2 - Fetal Mouse Lung Simulation

description: This is the Supplemental Data 2, including data and source code, in manuscript: Nguyen et al. Polar Gini Curve: a Technique to Discover Single-cell Biomarker Using 2D Visual Information<br>
DOI: 10.6084/m9.figshare.21113668.v1
title: Codes for UWB signal analysis

description: This MATLAB script allows users to load the dataset files (either in .csv format or .mat format) and plot the Channel Frequency Response (CFR) of the UWB data for a desired time segment (between a chosen pair of UWB nodes). Furthermore, this script allows the users to plot the first path power level (in dBm) and ground truth trajectory, and the accumulated and aligned CIR measurements.
DOI: 10.6084/m9.figshare.6214127.v5
title: Microsatellite genotypes for 26 Bombus huntii populations

description: Eleven microsatellite genotypes for 350 <i>Bombus huntii </i>(Hymenoptera: Apidae) across 26 populations. This is the final dataset used for analyses by Koch et al. "Quaternary climate instability is correlate with patterns of population genetic variability in Bombus huntii". This filtered dataset accounts for linkage disequilibrium, null alleles, HWE, and sibship relationships. This dataset in in GenAlEx 6.5 format (Peakall R. & Smouse, P.E. (2012) GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research - an update. Bioinformatics, 28, 2537-2539)
DOI: 10.6084/m9.figshare.21304728.v1
title: Supplementary Material for: Association of cancer antigen 125 with long-term prognosis in light-chain cardiorenal amyloidosis

description: Background: Light-chain (AL) cardiorenal amyloidosis has been characterized as type 5 cardiorenal syndrome with fluid overload and poor prognosis. Cancer antigen 125 (CA125) has the potential for use in evaluating fluid load and prognosis for heart failure. However, less details for CA125 in AL cardiorenal amyloidosis have been reported. Methods: Sixty patients diagnosed with AL cardiorenal amyloidosis were enrolled in this retrospective study. Patients were divided into two groups according to the cutoff point of CA125 level (35 U/mL). Logistic regression was used to screen variables associated with CA125. Cox regression analyses was utilized to verify the prognostic potential of CA125. Results: The mean age was 61±8 years, and 68% of the participants were male. Compared to patients with normal CA125 levels (≤35 U/mL), patients with high levels of CA125 (&gt;35 U/mL) had a higher proportion of New York Heart Association class &gt;II, pericardial effusion, and edema, as well as a lower level of albumin and left ventricular longitudinal strain (LVLS). Logistic regression showed age, albumin, and LVLS to be independently associated with CA125. Seventeen (28%) patients died during the follow-up. Multivariate model including CA125, estimated glomerular filtration rate, E/e’ and left ventricular ejection fraction showed acceptable prognostic potential (C-index= 0.829, 95%CI 0.749 to 0.909). CA125 remained an independent prognostic factor (HR=1.018, 95%CI 1.005 to 1.031, P=0.008) after adjusting for the remaining three variates and provided a significant incremental effect to the risk determined from them (C-index 0.829 vs 0.784, P=0.037). Conclusions: Serum CA125 level was associated with long-term prognosis of AL cardiorenal amyloidosis.
DOI: 10.6084/m9.figshare.3386083.v1
title: FWS herbicide usage data and species lists used in data filtering, Wagner et al. (2016c)

description: FWS herbicide usage data and species lists for data filtering used in the publication<br>"Wagner, V., Antunes, P.M., Irvine, M., Nelson, C.R. (2016) Herbicide usage for invasive non-native plant management in wildland areas of North America. Journal of Applied Ecology"<br><br>See accompanying R script (10.6084/m9.figshare.3386032) and publication for more details on data preparation and analysis.<br><br>
DOI: 10.6084/m9.figshare.16900390.v1
title: Table 3.

description: <b>Experimental setup and results.</b>
DOI: 10.6084/m9.figshare.25770186.v1
title: Discrete vulnerability to pharmacological CDK2 inhibition is governed by heterogeneity of the cancer cell cycle.

description: The data set comprises the uncropped images of all the western blots
DOI: 10.6084/m9.figshare.22722763.v3
title: Urban FRT

description: This folder contains the raw dataset used for analysis for this study.
DOI: 10.6084/m9.figshare.14642904.v1
title: Final Averaged Data

description: this dataset contains the average and standard deviation of the GRF, EMG, kinematic, and kinetic data for 12 participants stored in a Matlab structure. The data includes ground reaction forces, EMG of 8 muscles on the right leg, joint kinematics, and kinetics. The processing techniques used are described in detail in a paper in review.<br>Each column in the n-by-8 matrix of EMG data represents 1 muscle of the right leg. The order is: Soleus, Tibialis anterior, Medial Gastrocnemius, Lateral Gastrocnemius, Rectus Femoris, Vastus Medialis, Vastus Lateralis, Biceps Femoris.<br>
DOI: 10.6084/m9.figshare.14915790.v3
title: Tables

description: Table 1: Baseline values among treatment groups <br>Table 2: Change in bone mineral density among treatment groupsTable 3: Comparison between measurements in each treatment groupTable 4: Comparison between each measurement interval among treatment groupsTable 5: Changes in bone markers among treatment groups<br>
DOI: 10.6084/m9.figshare.15033384.v1
title: Pair T oral present.sav

description: raw data set
DOI: 10.6084/m9.figshare.24785607.v1
title: Target Programs and Properties

description: Target Programs and Properties: object follwer, brobot, elevator simulator (elev), and sv-comp 2022.
DOI: 10.6084/m9.figshare.22303093.v1
title: Supplementary Material for: Higher risk of sarcopenia in older adults with type 2 diabetes: NHANES 1999-2018

description: Introduction: Recent studies suggested that sarcopenia may be a significant comorbidity of diabetes mellitus (DM). Nonetheless, studies with nationally representative data are scarce, and the changing trend of sarcopenia prevalence over time is largely unknown. Therefore, we aimed to estimate and compare the prevalence of sarcopenia in diabetic and non-diabetic United States (US) older population, and to explore the potential predictors of sarcopenia as well as the trend of sarcopenia prevalent in the past decades. Methods: Data was retrieved from the National Health and Nutrition Examination Survey (NHANES). Sarcopenia and DM were defined according to corresponding diagnosis criteria. Weighted prevalence was calculated and compared between diabetic and non-diabetic participants. The differences among age and ethnicity groups were explored. Results: A total of 6381 US adults (&gt;50 years) were involved. The overall prevalence of sarcopenia was 17.8% for US elders, and the prevalence was higher (27.9% vs. 15.7%) in those with diabetes ones than those without. Stepwise regression revealed that sarcopenia was significantly associated with DM (Adjusted odds ratio=1.37, 95%CI: 1.08-1.22; P&lt;0.05) after controlling for potential confounders including gender, age, ethnicity, educational level, BMI and muscle strengthening activity. A slightly fluctuate but overall increasing trend of sarcopenia prevalence was observed among diabetic elders while no obvious changing trend was observed in their counterparts in recent decades. Conclusion: Diabetic US older adults face significantly higher risk of sarcopenia when compared with their non-diabetic counterparts. Gender, age, ethnicity, educational level and obesity were important influencing factors of sarcopenia development.
DOI: 10.6084/m9.figshare.25139465.v1
title: ZY300.gff3

description: Gene structure annotation for N.tabacum
DOI: 10.6084/m9.figshare.c.3894760_d2.v1
title: Additional file 2: Supplementary Data. of Whole-lesion apparent diffusion coefficient histogram analysis: significance in T and N staging of gastric cancers

description: The values of ADC parameters and T/N stages of each patient. (XLS 25Â kb)