cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5598784.v2
title: Weighted NPMLE for the Subdistribution of a Competing Risk

description: Direct regression modeling of the subdistribution has become popular for analyzing data with multiple, competing event types. All general approaches so far are based on nonlikelihood-based procedures and target covariate effects on the subdistribution. We introduce a novel weighted likelihood function that allows for a direct extension of the Fine–Gray model to a broad class of semiparametric regression models. The model accommodates time-dependent covariate effects on the subdistribution hazard. To motivate the proposed likelihood method, we derive standard nonparametric estimators and discuss a new interpretation based on pseudo risk sets. We establish consistency and asymptotic normality of the estimators and propose a sandwich estimator of the variance. In comprehensive simulation studies, we demonstrate the solid performance of the weighted nonparametric maximum likelihood estimation in the presence of independent right censoring. We provide an application to a very large bone marrow transplant dataset, thereby illustrating its practical utility. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.5598793.v2
title: A Starting Point for Navigating the World of Daily Fantasy Basketball

description: Fantasy sports, particularly the daily variety in which new lineups are selected each day, are a rapidly growing industry. The two largest companies in the daily fantasy business, DraftKings and Fanduel, have been valued as high as $2 billion. This research focuses on the development of a complete system for daily fantasy basketball, including both the prediction of player performance and the construction of a team. First, a Bayesian random effects model is used to predict an aggregate measure of daily NBA player performance. The predictions are then used to construct teams under the constraints of the game, typically related to a fictional salary cap and player positions. Permutation based and <i>K</i>-nearest neighbors approaches are compared in terms of the identification of “successful” teams—those who would be competitive more often than not based on historical data. We demonstrate the efficacy of our system by comparing our predictions to those from a well-known analytics website, and by simulating daily competitions over the course of the 2015–2016 season. Our results show an expected profit of approximately $9,000 on an initial $500 investment using the <i>K</i>-nearest neighbors approach, a 36% increase relative to using the permutation-based approach alone. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.5598784.v1
title: Weighted NPMLE for the Subdistribution of a Competing Risk

description: Direct regression modeling of the subdistribution has become popular for analyzing data with multiple, competing event types. All general approaches so far are based on non-likelihood based procedures and target covariate effects on the subdistribution. We introduce a novel weighted likelihood function that allows for a direct extension of the Fine-Gray model to a broad class of semiparametric regression models. The model accommodates time-dependent covariate effects on the subdistribution hazard. To motivate the proposed likelihood method, we derive standard nonparametric estimators and discuss a new interpretation based on pseudo risk sets. We establish consistency and asymptotic normality of the estimators and propose a sandwich estimator of the variance. In comprehensive simulation studies we demonstrate the solid performance of the weighted NPMLE in the presence of independent right censoring. We provide an application to a very large bone marrow transplant dataset, thereby illustrating its practical utility.
DOI: 10.6084/m9.figshare.5598793.v1
title: A Starting Point for Navigating the World of Daily Fantasy Basketball

description: Fantasy sports, particularly the daily variety in which new lineups are selected each day, is a rapidly growing industry. The two largest companies in the daily fantasy business, DraftKings and Fanduel, have been valued as high as $2 billion. This research focuses on the development of a complete system for daily fantasy basketball, including both the prediction of player performance and the construction of a team. First, a Bayesian random effects model is used to predict an aggregate measure of daily NBA player performance. The predictions are then used to construct teams under the constraints of the game, typically related to a fictional salary cap and player positions. Permutation based and <i>K</i>-nearest neighbors approaches are compared in terms of the identification of “successful” teams – those who would be competitive more often than not based on historical data. We demonstrate the efficacy of our system by comparing our predictions to those from a well-known analytics website, and by simulating daily competitions over the course of the 2015–2016 season. Our results show an expected profit of approximately $9,000 on an initial $500 investment using the <i>K</i>-nearest neighbors approach, a 36% increase relative to using the permutation based approach alone.
DOI: 10.6084/m9.figshare.5598757
title: Screening for platelet function disorders with Multiplate and platelet function analyzer

description: Light transmission aggregation (LTA) is the gold standard for the diagnosis of platelet function disorders (PFDs), but it is time-consuming and limited to specialized laboratories. Whole-blood impedance aggregometry (Multiplate) and platelet function analyzer (PFA) may be used as rapid screening tools to exclude PFDs. The aim of this study is to assess the diagnostic performance of Multiplate and PFA for PFDs, as detected by LTA.Data from preoperative patients, patients referred to the hematologist for bleeding evaluation, and patients with a diagnosed bleeding disorder were used. PFDs were defined as ≥2 abnormal LTA curves. Diagnostic performance of Multiplate and PFA for detecting PFDs was expressed as sensitivity and specificity. The ability of Multiplate agonists and PFA kits to detect corresponding LTA curve abnormalities was expressed as area under the receiver operating characteristic curve. Prevalence of PFDs was 16/335 (4.8%) in preoperative patients, 10/54 (18.5%) in referred patients, and 3/25 (12%) in patients with a diagnosed bleeding disorder. In preoperative and referred patients, the sensitivity of Multiplate and PFA for detecting mild PFDs varied between 0% and 40% and AUCs for detecting corresponding LTA curve abnormalities were close to 0.50. In patients with a diagnosed bleeding disorder, both assays could detect Glanzmann thrombasthenia (GT) with sensitivity of 100% and AUCs of 0.70–1.00. Multiplate and PFA cannot discriminate between preoperative and referred patients with and without mild PFDs, meaning that they cannot be used as screening tests to rule out mild PFDs in these populations. Both Multiplate and PFA can detect GT in previously diagnosed patients.
DOI: 10.6084/m9.figshare.5598757.v1
title: Screening for platelet function disorders with Multiplate and platelet function analyzer

description: Light transmission aggregation (LTA) is the gold standard for the diagnosis of platelet function disorders (PFDs), but it is time-consuming and limited to specialized laboratories. Whole-blood impedance aggregometry (Multiplate) and platelet function analyzer (PFA) may be used as rapid screening tools to exclude PFDs. The aim of this study is to assess the diagnostic performance of Multiplate and PFA for PFDs, as detected by LTA.Data from preoperative patients, patients referred to the hematologist for bleeding evaluation, and patients with a diagnosed bleeding disorder were used. PFDs were defined as ≥2 abnormal LTA curves. Diagnostic performance of Multiplate and PFA for detecting PFDs was expressed as sensitivity and specificity. The ability of Multiplate agonists and PFA kits to detect corresponding LTA curve abnormalities was expressed as area under the receiver operating characteristic curve. Prevalence of PFDs was 16/335 (4.8%) in preoperative patients, 10/54 (18.5%) in referred patients, and 3/25 (12%) in patients with a diagnosed bleeding disorder. In preoperative and referred patients, the sensitivity of Multiplate and PFA for detecting mild PFDs varied between 0% and 40% and AUCs for detecting corresponding LTA curve abnormalities were close to 0.50. In patients with a diagnosed bleeding disorder, both assays could detect Glanzmann thrombasthenia (GT) with sensitivity of 100% and AUCs of 0.70–1.00. Multiplate and PFA cannot discriminate between preoperative and referred patients with and without mild PFDs, meaning that they cannot be used as screening tests to rule out mild PFDs in these populations. Both Multiplate and PFA can detect GT in previously diagnosed patients.
DOI: 10.6084/m9.figshare.5598679
title: full_dataset.Rdata

description: This dataset was created using the file 'Simulation Code.R', which is available at https://github.com/StevenRussell/Local_ZIKV_transmission.
DOI: 10.6084/m9.figshare.5598568
title: Usability Evaluation Documentation

description: Usability evaluation documents - 3rd iteration in (informal) usability evaluation. The evaluation methodology is described in detail in the paper.Quick user guide includes all modules tested in all three iterations - participants evaluated a sub-set of the tools available, dependent on evaluation stage and participant demographic information.
DOI: 10.6084/m9.figshare.5598631
title: PhytoPhylo database files

description: This data set contains the PhytoPhylo tree, a version of it converted to comma separated data, and a SQLite-compatible database file. Newick tree downloaded from https://github.com/jinyizju/S.PhyloMaker
DOI: 10.6084/m9.figshare.5598619
title: Supplementary Material for: One-to-One Correspondence Locations of Resected Polyps after Endoscopic Resection Using Catcher Tagged Method: A Randomized Prospective Study

description: <b><i>Background/Aims:</i></b> Multiple colorectal polyps with a diameter in the range of 10–19 mm are unable to be retrieved through a 3-mm endoscopic channel by the aspiration method. This study aims to assess the usefulness of Catcher Tag retrieval, which not only allows the accurate identification of the resected location but also enables the easiest retrieval in a short time without any special device. <b><i>Methods:</i></b> One hundred thirty five patients (483 polyps) were diagnosed with colorectal neoplasm, and 64 patients (225 polyps) were enrolled and randomly allocated into the Net forceps group (NET) and the Catcher Tagged group (TAG). In TAG, 3 types of colored ring-threads were used to retrieve resected polyps. After local injection of natural saline, ring-threads were placed close to polyps. The primary outcome was the number of one-to-one correspondence locations (UMIN000020826). <b><i>Results:</i></b> There was significant difference in one-to-one correspondence (<i>p =</i> 0.004). The average retrieval procedure time was 13.56 ± 3.47 (min) in NET and 3.55 ± 1.68 in TAG (<i>p</i> = 0.006). In NET, 1 polyp in each of 4 cases was lost during endoscopic mucosal resection and 2 polyps were lost in 1 case. In TAG, no polyp was lost (<i>p</i> = 0.016). <b><i>Conclusion:</i></b> The Catcher Tagged method is very useful for accurate one-to-one correspondence locations and pathological evaluation, and easy-to-retrieve multiple resected specimens.
DOI: 10.6084/m9.figshare.5598565
title: Supplementary Material for: Impact of Early Infant Growth, Duration of Breastfeeding and Maternal Factors on Total Body Fat Mass and Visceral Fat at 3 and 6 Months of Age

description: <b><i>Background:</i></b> Accelerated gain in fat mass in the first months of life is considered to be a risk factor for adult diseases, given the tracking of infancy fat mass into adulthood. Our objective was to assess the influence of early growth, type of feeding and maternal variables on fat mass in early life. <b><i>Methods:</i></b> In 300 healthy term infants, we longitudinally measured fat mass percentage (FM%) by air-displacement-plethysmography at 1, 3, and 6 months and abdominal visceral and subcutaneous fat measured by ultrasound at 3 and 6 months. <b><i>Results:</i></b> Both gain in FM% and weight-for-length in the first 3 months were positively associated with FM% at 6 months of age and visceral fat at 3 months of age. Gain in FM% and weight-for-length between 3 and 6 months were both positively associated with visceral fat at 6 months. Breastfeeding duration associated positively with subcutaneous fat but not with visceral fat at 3 and 6 months. Maternal characteristics did not associate with FM% or visceral fat at 3 or 6 months. <b><i>Conclusion:</i></b> Higher gain in FM% or in weight-for-length in the first postnatal months leads not only to higher FM% but also more to accumulation of visceral fat. Exclusive breastfeeding appears to promote subcutaneous but not visceral fat in the first 6 months.
DOI: 10.6084/m9.figshare.5598556
title: UI Snapshots - Design Iteration II

description: UI Snapshots through the iterative cycles of design, development and evaluation - assorted visualisation modules exploring skills analysis in the EDSA project.
DOI: 10.6084/m9.figshare.5598544
title: RNAseq data - Creolimax fragrantissima

description: RNAseq analysis of <i>Creolimax fragrantissima</i>​: list of differentially expressed genes between uninucleate and multinucleate cells. Includes DEseq mean expression levels in samples A and B, fold-change and adjusted p-values. <br>Details in de Mendoza <i>et al. </i>eLIFE 2015 (https://elifesciences.org/articles/08904)<br>http://www.multicellgenome.comInstitute of Evolutionary Biology (CSIC-UPF)
DOI: 10.6084/m9.figshare.5598517
title: Chroma from Luma in AV1 Status Update

description: First CfL status update given to the Alliance for Open Media (AOM)<br>
DOI: 10.6084/m9.figshare.5598520
title: UI Snapshots - Design Iteration I

description: UI Snapshots through the iterative cycles of design, development and evaluation - assorted visualisation modules exploring skills analysis in the EDSA project.
DOI: 10.6084/m9.figshare.5598544.v1
title: RNAseq data - Creolimax fragrantissima

description: RNAseq analysis of <i>Creolimax fragrantissima</i>​: list of differentially expressed genes between uninucleate and multinucleate cells. Includes DEseq mean expression levels in samples A and B, fold-change and adjusted p-values. <br>Details in de Mendoza <i>et al. </i>eLIFE 2015 (https://elifesciences.org/articles/08904)<br>http://www.multicellgenome.comInstitute of Evolutionary Biology (CSIC-UPF)
DOI: 10.6084/m9.figshare.5598427
title: Supplementary Material for: Determinants, Prevalence, and Trajectory of Long-Term Post-Stroke Cognitive Impairment: Results from a 4-Year Follow-Up of the Auckland Stroke Regional Outcomes Study-IV Study

description: <b><i>Background:</i></b> The long-term (&gt;12 months) prevalence, predictors, and trajectory of post-stroke cognitive deficits are not well established, especially at a community level. This study investigated the longitudinal course and prevalence of cognitive impairment in an incidence cohort, identifying factors associated with declining cognition. <b><i>Methods:</i></b> Two hundred fifty-seven participants (mean age = 67.93 ± 13.59) of first-ever stroke survivors, completed cognitive assessments within 2 weeks post stroke, and/or 1, 6, 12, and 48-month. Multivariate linear and logistic models were used to identify baseline predictors (reported as OR with 95% CI) and trajectory of cognitive impairment. <b><i>Results:</i></b> Cognitive functioning significantly declined by 2.8 points by 4 years post stroke. Eighty-four percent of stroke survivors had cognitive impairment indicative of post-stroke dementia (mean Montreal cognitive assessment = 20 ± 4.7) at 4-year. There were significant as­sociations between progressive cognitive decline and the ­following factors: male gender (OR 2.9, 95% CI 1.6–5.9, ­<i>p</i> = 0.0171), coronary artery disease (OR 2.96, 95% CI 1.35–6.49, <i>p</i> = 0.0070), arrhythmia (OR 2.21, 95% CI 1.07–4.57, <i>p</i> = 0.0317), not in a relationship (OR 2.8, 95% CI 1.4–5.50, <i>p</i> &lt; 0.0001), and not employed (OR 4.9, 95% CI 1.9–12.1, <i>p</i> &lt; 0.0001). <b><i>Conclusions:</i></b> Cognitive deficits remain highly prevalent at 4-year post stroke. Early identification of those at higher risk of declining cognition is vital to target rehabilitation interventions at the acute stage and improve overall outcomes.
DOI: 10.6084/m9.figshare.5598427.v1
title: Supplementary Material for: Determinants, Prevalence, and Trajectory of Long-Term Post-Stroke Cognitive Impairment: Results from a 4-Year Follow-Up of the Auckland Stroke Regional Outcomes Study-IV Study

description: <b><i>Background:</i></b> The long-term (&gt;12 months) prevalence, predictors, and trajectory of post-stroke cognitive deficits are not well established, especially at a community level. This study investigated the longitudinal course and prevalence of cognitive impairment in an incidence cohort, identifying factors associated with declining cognition. <b><i>Methods:</i></b> Two hundred fifty-seven participants (mean age = 67.93 ± 13.59) of first-ever stroke survivors, completed cognitive assessments within 2 weeks post stroke, and/or 1, 6, 12, and 48-month. Multivariate linear and logistic models were used to identify baseline predictors (reported as OR with 95% CI) and trajectory of cognitive impairment. <b><i>Results:</i></b> Cognitive functioning significantly declined by 2.8 points by 4 years post stroke. Eighty-four percent of stroke survivors had cognitive impairment indicative of post-stroke dementia (mean Montreal cognitive assessment = 20 ± 4.7) at 4-year. There were significant as­sociations between progressive cognitive decline and the ­following factors: male gender (OR 2.9, 95% CI 1.6–5.9, ­<i>p</i> = 0.0171), coronary artery disease (OR 2.96, 95% CI 1.35–6.49, <i>p</i> = 0.0070), arrhythmia (OR 2.21, 95% CI 1.07–4.57, <i>p</i> = 0.0317), not in a relationship (OR 2.8, 95% CI 1.4–5.50, <i>p</i> &lt; 0.0001), and not employed (OR 4.9, 95% CI 1.9–12.1, <i>p</i> &lt; 0.0001). <b><i>Conclusions:</i></b> Cognitive deficits remain highly prevalent at 4-year post stroke. Early identification of those at higher risk of declining cognition is vital to target rehabilitation interventions at the acute stage and improve overall outcomes.
DOI: 10.6084/m9.figshare.5598346
title: Policy-specific effects of transgovernmental cooperation: a statistical assessment across the EU’s post-Soviet neighbours

description: Can transgovernmental networks facilitate democratization in third countries? If so, to what extent and under what conditions can they impact states’ behaviour? Earlier works demonstrate that transgovernmental professional networks set by the European Union can shape attitudes of officials towards democracy in third countries. However, it remains unclear whether they change their behaviour, too; nor do we have an understanding of how long these changes last. Using the time-series cross-sectional analysis and focusing on two policy fields, human rights and public administration in the former Soviet republics, this article demonstrates that transgovernmental networks can stimulate improvements in domestic practices in third countries. At the same time, the results hint that their effects are policy-specific and rather short-lived.
DOI: 10.6084/m9.figshare.5598412
title: overlapSelect-NM_015110.split-hg38-fakefile.bb

description: Sample file for testing out building a trackhub on figshare
DOI: 10.6084/m9.figshare.5598361
title: Supplementary Material for: Screening of Skin Lesion-Associated Genes in Patients with Psoriasis by Meta-Integration Analysis

description: <b><i>Aim:</i></b> Psoriasis is an inflammatory skin disease, and approximately one quarter of individuals with psoriasis develop painful and debilitating arthritis. As a complex and polygenetic hereditary disease, it is significant to investigate skin lesion-associated genes of psoriasis. <b><i>Method:</i></b> In the present study, a total of 3,047 differentially expressed genes between lesional and nonlesional skin of psoriasis patients were screened based on 4 data sets in GEO DataSets. In the following, network module analyses were performed. <b><i>Result:</i></b> After calculating the correlation coefficients between eigenvalues of each module and disease status (psoriatic lesion and nonlesion), it was observed that the genes in black and green modules showed a significant correlation in each data set. Consequently, 58 significant characteristic genes of black modules and 74 of green modules were chosen for further analysis. The interaction network of the candidate feature genes was constructed based on the BioGRID, HPRD, and BIND databases, which contained 310 nodes. The mutual relationships of 70 genes, including 28 genes in the black module and 42 genes in the green module, were summarized, and 5 drug molecules related to these 70 factors were detected. Mepacrine and camptothecin were indicated as 2 drugs negatively related to psoriasis. <b><i>Conclusion:</i></b> The results suggested a pathogenesis mechanism of psoriasis and indicated novel therapeutic targets for psoriasis.
DOI: 10.6084/m9.figshare.5598346.v1
title: Policy-specific effects of transgovernmental cooperation: a statistical assessment across the EU’s post-Soviet neighbours

description: Can transgovernmental networks facilitate democratization in third countries? If so, to what extent and under what conditions can they impact states’ behaviour? Earlier works demonstrate that transgovernmental professional networks set by the European Union can shape attitudes of officials towards democracy in third countries. However, it remains unclear whether they change their behaviour, too; nor do we have an understanding of how long these changes last. Using the time-series cross-sectional analysis and focusing on two policy fields, human rights and public administration in the former Soviet republics, this article demonstrates that transgovernmental networks can stimulate improvements in domestic practices in third countries. At the same time, the results hint that their effects are policy-specific and rather short-lived.
DOI: 10.6084/m9.figshare.5598412.v1
title: overlapSelect-NM_015110.split-hg38-fakefile.bb

description: Sample file for testing out building a trackhub on figshare
DOI: 10.1285/i9788883051395n1
title: Ricerche sul Salento. Il Contributo del Dipartimento di Storia, Società e Studi sull’Uomo alla conoscenza del territorio. Rapporto 2018
DOI: 10.17028/rd.lboro.5598079
title: Using figshare to meet Loughborough University’s Research Data Management requirements

description: These are the slides of a presentation given at figshare Fest New Zealand on 27th October 2017 at Auckland University. One slide has been removed for copyright reasons from the original slide deck.
DOI: 10.6084/m9.figshare.5598037
title: bigdata-province-granada

description: bigdata-province-granada in json from 2010 in "Palacio de Congresos"
DOI: 10.6084/m9.figshare.5598049
title: ANCA negative RPGN - Case report of homeopathic treatment

description: Patient reports through the case progress during homeopathic treatment of ANCA negative RPGN. Dialysis frequency was reduced over time and stopped eventually.