cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.23499522
title: Supplementary Material for: Fetal growth velocity according to the mode of assisted conception

description: Introduction: Pregnancies conceived through assisted reproductive techniques (ART) are on the rise worldwide and have been associated with a higher risk of placental related disease in the third trimester. Objective: To compare fetal growth velocity between pregnancies through ART and those spontaneously conceived, considering the origin of the selected oocyte (i.e. autologous or donated). Methods: A cohort was created of singleton pregnancies after assisted reproduction, admitted at our institution for delivery, between January 2020 and August 2022. Fetal growth velocity from the second trimester to delivery was compared against a gestational-age-matched group of pregnancies spontaneously conceived according to the origin of the selected oocyte. Results: 125 singleton pregnancies conceived through ART were compared to 315 singleton spontaneous conceptions. Overall, after adjusting for possible confounders, multivariate analysis demonstrated that ART pregnancies had a significantly lower EFW z-velocity from the second trimester to delivery (adjusted mean difference=-0.002; p=0.035) and a higher frequency of EFW z-velocity in the lowest decile (adjusted OR=2.32 [95%CI 1.15-4.68]). Also, when ART pregnancies were compared according to the type of oocyte, those conceived with donated oocytes showed a significantly lower EFW z-velocity from the second trimester to delivery (adjusted mean difference=-0.008; p=0.001) and a higher frequency of EFW z-velocity in the lowest decile (adjusted OR=5.33 [95%CI 1.34-21.5]). Conclusions: Pregnancies achieved through ART exhibit a pattern of lower growth velocity across the third trimester, especially those conceived with donated oocytes. The former represents a sub-group at the highest risk of placental dysfunction that may warrant closer follow-up.
DOI: 10.6084/m9.figshare.23925117
title: Supplementary Material for: Childhood-onset Refractory Hypertension Results from Neurofibromatosis type 1 Caused by a Splicing NF1 mutation

description: Background: Neurofibromatosis type 1 (NF-1) is caused by mutations in the NF1 gene that encodes neurofibromin, a negative regulator of RAS proto-oncogene. Approximately one-third of the reported pathogenic mutations in NF1 are splicing mutations, but most consequences are unclear. The objective of this study was to identify the pathogenicity of splicing mutation in a Chinese family with NF-1 and determine the effects of the pre-mRNA splicing mutation by in vitro functional analysis. Methods: Next-generation sequencing was used to screen candidate mutations. We performed a minigene splicing assay to determine the effect of the splicing mutation on NF1 expression and three-dimensional structure models of neurofibromin were generated using SWISS-MODEL and PROCHECK method, respectively. Results: A pathogenic splicing mutation c.479+1G&gt;C in NF1 was found in the proband characterized by childhood-onset refractory hypertension. In vitro analysis demonstrated that c.479+1G&gt;C mutation caused skipping of exon 4, leading to a Glutamine to Valine substitution at position 97 in neurofibromin and an open reading frame shift terminating at codon 108. Protein modelling showed that several major domains were missing in the truncated neurofibromin protein. Conclusion: The splicing mutation c.479+1G&gt;C identified in a Chinese patient with NF-1 and childhood-onset refractory hypertension caused skipping of exon 4 and a truncated protein. Our findings offered new evidence for the molecular diagnosis of NF-1.
DOI: 10.6084/m9.figshare.24279460
title: Supplementary Material for: A German-wide systematic study on mobilization and collection of hematopoietic stem cells in poor mobilizer patients with multiple myeloma prior to autologous stem cell transplantation

description: Introduction: In patients with a clinical indication for autologous hematopoietic stem cell transplantation (ASCT) sufficient mobilization of CD34+ precursor cells into peripheral blood is essential to ensure adequate hematopoietic stem cell (HSC) collection prior to intensive therapy. However, with standard granulocyte-colony stimulating factor (G-CSF)-based mobilization schemes, an important minority of patients fail to mobilize sufficient (e.g., &gt; 10/µL) CD34+ cell counts into the peripheral blood and are considered as poor mobilizers (PM). Because failure to achieve sufficient CD34+ cell mobilization can negatively affect important clinical treatment endpoints, the use of plerixafor (PLX) was approved to increase CD34+ mobilization in PM patients. Methods: The German non-interventional, multicenter, open-label, prospective OPTIMOB study evaluated HSC mobilization strategies prior to planned ASCT in adult patients with hematologic malignancies (lymphomas or MM) focusing on PM patients. PM patients were defined as follows: (1) never achieving ≥ 20 CD34+ cells/µL before 1st apheresis, (2) receiving PLX at any time point of mobilization, (3) their initially planned stem cell yield had to be reduced, or (4) they had not received apheresis due to low CD34+ count in peripheral blood. Results: 168 of 475 MM patients (35%) participating in the OPTIMOB study were classified as PM,155 of them (92%) received PLX (PM+PLX) during the study. PM patients were 40 to 78 years old, slightly more often male (n=97, 58%), mostly newly diagnosed (n=146, 87%) and received highly individualized previous treatments. 94 of the PMs underwent chemotherapy mobilization (65%), 51 patients (35%) received steady state mobilization with G-CSF only during 1st mobilization attempt. 92% of the total PM population (n=155) underwent apheresis, 78% of them (n=117) achieved &gt; 2.0 x 10^6 CD34+ cells/kg body weight on the 1st day of apheresis. PM+PLX had a higher median total collection result than those PM patients without PLX support (7.2 vs 5.7 x 10^6 CD34+ cells/kg body weight). In total, ASCT was performed in 136 PM+PLX (88%) vs. 8 PM-PLX patients (62%). Discussion/Conclusion: The OPTIMOB study showed that a considerable proportion of adult MM patients in Germany are PMs. Even though most of PMs were supported with PLX in the OPTIMOB study, PM-PLX also successfully mobilized HSCs, allowing ASCT in majority of all PMs. However, further analyses are required for treatment optimization in PMs.
DOI: 10.5281/zenodo.7415982
title: Aurora A and cortical flows promote polarization and cytokinesis by inducing asymmetric ECT-2 accumulation - Data Archive

description: This archive contains all the images and raw data generated for: Katrina M Longhini & Michael Glotzer, “Aurora A and cortical flows promote polarization and cytokinesis by inducing asymmetric ECT-2 accumulation” The data is organized by figure then experiment. Each embryo folder contains formatted embryos, which are rotated, cropped, and photobleach corrected. Each recording starts at time 0 on the respective graph. The “AccumulationDataNew” files contain all the data generated from the “3pixel_membranefinder_w_dir.ijm” and “membrane_ROI_TimeSeries_max_scaled_dirs.ijm” scripts organized in a Tidy format generated in R using the first portion of the script “Edited_Membrane_Accumulation_Line_Script.Rmd”. These Fiji and R Markdown scripts are located in the “Analysis Scripts“ folder. All data visualization scripts are included in the “Analysis Scripts” folder. Sequences of plasmids generated for this paper are located in the “Plasmid Sequences” folder.
DOI: 10.6084/m9.figshare.21864249
title: Supplementary Material for: Challenges in the management of a 7 years old child with thyrotropin-secreting pituitary adenoma and the review of the literature

description: Introduction: Thyrotropin-producing pituitary adenoma (TSHoma) is a very rare disease, representing less than 1% of the pituitary tumours, present with elevated thyroid hormones and normal/high TSH concentrations. Case Presentation: A 7-year-old boy with nervousness was referred by his psychiatrist for elevated free T4, T3 and TSH levels. Initial evaluation revealed an elevated -subunit.Pituitary MRI demonstrated a macroadenoma. The patient underwent a trans-sphenoidal tumour resection (TSS) which showed positive immunohistochemical staining for TSH, growth hormone, and prolactin in tumoral tissue. Euthyroidism was achieved for one year after TSS, then, recurrence of tumour with elevated TSH and thyroid hormone levels necessitated a re-operation with TSS followed by gamma-knife radiosurgery. The euthyroid state was achieved and lasted for 2.5 years this time, but, due to the recurrence, medical treatment had been commenced with cabergoline and octreotide. Euthyroidism was maintained for the last 4 years on monthly octreotide treatment. A repeat MRI demonstrated no pituitary mass but a mass in the sphenoidal sinus had been detected. Removal of this mass by surgery did not achieve euthyroidism. 68Ga-DOTA-TATE PET/CT showed residual tissue extending from the pituitary region to the sphenoid sinus. The patient’s bone age was advanced 2 years at diagnosis which became 4 years in one year after the diagnosis and remained so throughout follow-up, leading to a final height of -3.3 SDS below his target height at the age of 16 years. Conclusion: The diagnosis, treatment, and follow-up of TSHomas are challenging and short stature due to accelerated bone maturation is a complication of paediatric TSHomas.
DOI: 10.15156/bio/sh1518609.08fu
title: SH1518609.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.17632/423f5cj79n.1
title: A Cryptic K48 Ubiquitin Chain Binding Site on UCH37 is Required for its Role in Proteasomal Degradation

description: Source data
DOI: 10.5281/zenodo.8016623
title: COVFlow: performing virus phylodynamics analyses from selected SARS-CoV-2 genome sequences

description: This upload contains pipeline configuration files, output data, scripts and data identifiers (GISAID EPI_ISL_ID) required to reproduce the results of the article entitled "COVFlow: performing virus phylodynamics analyses from selected SARS-CoV-2 genome sequences".
DOI: 10.5281/zenodo.8287852
title: Raw data for Mangan et al,. Loss and replacement of macroalgal standing stock and productivity after a major environmental disturbance

description: Raw data for the journal article: Mangan et al., (2023). Loss and replacement of macroalgal standing stock and productivity after a major environmental disturbance. Ecosphere.
DOI: 10.6084/m9.figshare.19588519.v2
title: RISK OF MENTAL DISORDERS AND MALNUTRITION IN ELDERLY COVID-19 SURVIVOR

description: This Data contains initial name, age, gender, profession, in/outpatient, degree of covid-19, commorbidities, caregiver, income, vaccine, risk of mental disorders, risk of malnutrtion
DOI: 10.6084/m9.figshare.21332664
title: Supplementary Material for: Affordability of Alcoholic Beverages in the European Union

description: <b><i>Background:</i></b> From a public health perspective, alcohol taxation should be designed to reduce alcohol affordability and thus alcohol consumption and related harms. <b><i>Objectives:</i></b> In this brief report, we estimate alcohol affordability in European Union Member States and associated countries and investigate whether affordability is related to national alcohol excise duties. <b><i>Method:</i></b> Beverage-specific affordability for beer, wine, and spirits were estimated based on the number of standard drinks a household could purchase based on their median monthly disposable household income in 2020. To determine the pooled affordability of alcohol, the beverage-specific estimates were weighted by the share of the beverage-specific per capita consumption in total recorded consumption. Pearson and Spearman rank correlations were calculated to establish the association between alcohol affordability and alcohol excise duty rates. All data were retrieved from official sources. <b><i>Results:</i></b> On average, a European household can purchase 1,628 standard drinks of alcohol with its monthly income, with affordability being highest in Germany, Austria, France, and Luxembourg. The affordability of spirits, but not that of beer or wine, was inversely correlated with the beverage-specific excise duty rates. <b><i>Conclusions:</i></b> Alcohol is affordable in the Member States of the European Union and associated countries, and low levels of excise duties on beer and wine appear to be unrelated to their affordability. Alcohol taxes should be increased to effectively reduce the affordability of alcoholic beverages in order to lower the alcohol-related health burden in Europe.
DOI: 10.6084/m9.figshare.21814281
title: Supplementary Material for: Prognostic Value of Stress Hyperglycaemia Ratio in Young Patients with Ischaemic Stroke or Transient Ischaemic Attack

description: <b><i>Introduction:</i></b> Stress hyperglycaemia is common in stroke. Recently, the stress hyperglycaemia ratio (SHR) has been proposed as a novel marker for stress hyperglycaemia and found to be associated with adverse outcomes in many diseases. However, data regarding the impact of the SHR on ischaemic stroke, especially in young adults, are limited. Therefore, the aim of this study was to investigate whether the SHR is associated with stroke severity and adverse outcomes in young adults with ischaemic stroke or transient ischaemic attack (TIA). <b><i>Methods:</i></b> We retrospectively recruited patients aged 18–45 years with acute ischaemic stroke or TIA. The SHR was calculated as fasting blood glucose (FBG) divided by glycated haemoglobin. The primary and secondary outcomes were 90-day poor functional outcomes and stroke severity on admission, respectively. Multivariable logistic regression, restricted cubic spline models, and subgroup analysis were performed to validate the relationship between the SHR and ischaemic stroke or TIA in young adults. <b><i>Results:</i></b> A total of 687 young adults (mean age 36.9 years) were recruited. Among them, 119 (17.3%) patients had prior diabetes, and 568 (82.7%) did not. The SHR was significantly associated with stroke severity and poor functional outcome. Compared with patients with lower SHR values, patients with higher SHR values were more likely to have moderate-to-severe stroke. The multivariable-adjusted OR (95% CI) was 1.70 (1.21–2.39) after adjusting for all potential confounders excluding FBG and 1.50 (1.03–2.17) after FBG adjustment. The restricted cubic spline showed a J-shaped association between the SHR and moderate-to-severe stroke. Compared with patients with lower SHR values, patients with higher SHR values were more likely to have poor functional outcome at 90-day follow-up. The multivariable-adjusted OR (95% CI) was 1.95 (1.12–3.41) after adjusting for all potential confounders excluding FBG and 1.84 (1.01–3.36) after FBG adjustment. A J-shaped association was found between the SHR and poor functional outcomes at the 90-day follow-up. In the subgroup analysis, SHR was independently associated with more severe stroke (OR, 1.79, 95% CI, 1.18–2.72) and poor functional outcomes (OR, 2.11, 95% CI, 1.32–3.35) in nondiabetic patients but not in diabetic patients in multivariate logistic analysis. Despite this, the interaction effects of prior diabetes on the association between the SHR and stroke severity and poor functional outcomes did not reach statistical significance. <b><i>Conclusion:</i></b> The SHR is independently related to more severe stroke and an increased risk of poor functional outcomes among young adults with ischaemic stroke or TIA.
DOI: 10.6084/m9.figshare.21884778
title: Supplementary Material for: Prevalence and Influencing Factors of Food Allergy in Global Context: A Meta-Analysis

description: <b><i>Introduction:</i></b> This study was conducted to evaluate the prevalence and influencing factors of food allergy (FA) in different regions and populations. <b><i>Methods:</i></b> The studies from January 2011 to December 2021 were searched through PubMed, Embase, Cochrane Library, and Web of Science databases. The prevalence of FA was evaluated by calculating the pooled effect estimates and their 95% confidence intervals (CIs). The odds ratio (OR) value was used to investigate the influencing factors of FA. Heterogeneity analysis among studies was performed using <i>I</i><sup>2</sup> analysis. Sensitivity analysis was performed to assess the stability of the results, and Begg’s test was used to assess publication bias. <b><i>Results:</i></b> A total of 105 published articles, including 3,318,608 participants, were involved in this study. The result indicated that the overall FA prevalence was 4.3% (95% CI: 0.038–0.047). The prevalence of FA was 4.2% in Asia (95% CI: 0.033–0.051), 3.2% in America (95% CI: 0.024–0.041), 4.8% in Europe (95% CI: 0.037–0.060), 1.6% in Africa (95% CI: 0.008–0.026), and 7.5% in Oceania (95% CI: 0.052–0.102). Milk (prevalence: 1.1%, 95% CI: 0.009–0.013) and egg (prevalence: 1.1%, 95% CI: 0.008–0.014) were the most common type of FAs. Male (OR: 1.289, 95% CI: 1.001–1.659), antibiotics exposure during pregnancy (OR: 1.221, 95% CI: 1.162–1.284), breastfeeding (OR: 1.349, 95% CI: 1.011–1.799), asthma (OR: 1.794, 95% CI: 1.443–2.230), eczema (OR: 5.121, 95% CI: 3.575–7.334), family history of atopic disease (OR: 1.893, 95% CI: 1.313–2.730), family history of FAs (OR: 2.096, 95% CI: 1.686–2.594), family history of atopic dermatitis (OR: 1.954, 95% CI: 1.645–2.322), family history of asthma (OR: 1.516, 95% CI: 1.370–1.678), and family history of allergic rhinitis/conjunctivitis (OR: 1.287, 95% CI: 1.191–1.392) increased the risk of FA. <b><i>Conclusion:</i></b> There were geographical differences in the prevalence of FA. Identification and nursing of FA high-risk populations should be strengthened to improve the quality of life.
DOI: 10.6084/m9.figshare.21907956
title: Supplementary Material for: Raised Thyroid Stimulating Hormone in Girls with Polycystic Ovary Syndrome: Effects of Randomized Interventions

description: Introduction Polycystic ovary syndrome (PCOS) in women associates with raised levels of circulating thyroid stimulating hormone (TSH) and with high rates of gestational complications. A low range of preconception TSH is followed by low rates of gestational complications. It is unknown whether TSH levels are elevated in adolescents with PCOS and, if so, whether traditional or exploratory treatments can lower them into safe preconception range. We investigated TSH in non-obese adolescents with PCOS, including the effects of randomized interventions. Methods Morning TSH was a safety marker in randomized pilot studies comparing the effects of an oral contraceptive (OC) versus those of a low-dose combination of spironolactone-pioglitazone-metformin (SPIOMET) in non-obese adolescents with PCOS. A post-hoc analysis compared: TSH levels in PCOS (N= 62) vs controls; TSH changes on treatment (for 1 year); TSH levels post treatment (for 1 year). Results Mean TSH levels were higher in PCOS patients than in control girls (P&lt;0.01). On-treatment TSH levels diverged (P&lt;0.001), remaining elevated on OC, and descending swiftly on SPIOMET, well into safe preconception range. Post-treatment TSH levels were stable in both subgroups. On-treatment changes of circulating TSH associated to those of liver fat (R= 0.307, P= 0.017). Conclusion The endocrine signature of early PCOS is herewith extended to include modestly raised levels of circulating TSH; the normalizing effects of SPIOMET intervention in non-obese adolescents with PCOS are herewith extended to include on- and post-treatment TSH.
DOI: 10.6084/m9.figshare.21929865
title: Supplementary Material for: Nosocomial COVID-19: A Nationwide Spanish Study

description: <b><i>Introduction:</i></b> SARS-CoV-2 is a highly contagious virus, and despite professionals’ best efforts, nosocomial COVID-19 (NC) infections have been reported. This work aimed to describe differences in symptoms and outcomes between patients with NC and community-acquired COVID-19 (CAC) and to identify risk factors for severe outcomes among NC patients. <b><i>Methods:</i></b> This is a nationwide, retrospective, multicenter, observational study that analyzed patients hospitalized with confirmed COVID-19 in 150 Spanish hospitals (SEMI-COVID-19 Registry) from March 1, 2020, to April 30, 2021. NC was defined as patients admitted for non-COVID-19 diseases with a positive SARS-CoV-2 test on the fifth day of hospitalization or later. The primary outcome was 30-day in-hospital mortality (IHM). The secondary outcome was other COVID-19-related complications. A multivariable logistic regression analysis was performed. <b><i>Results:</i></b> Of the 23,219 patients hospitalized with COVID-19, 1,104 (4.8%) were NC. Compared to CAC patients, NC patients were older (median 76 vs. 69 years; <i>p</i> &lt; 0.001), had more comorbidities (median Charlson Comorbidity Index 5 vs. 3; <i>p</i> &lt; 0.001), were less symptomatic (<i>p</i> &lt; 0.001), and had normal chest X-rays more frequently (30.8% vs. 12.5%, <i>p</i> &lt; 0.001). After adjusting for sex, age, dependence, COVID-19 wave, and comorbidities, NC was associated with lower risk of moderate/severe acute respiratory distress syndrome (ARDS) (adjusted odds ratio [aOR]: 0.72; 95% confidence interval [CI]: 0.59–0.87; <i>p</i> &lt; 0.001) and higher risk of acute heart failure (aOR: 1.40; 1.12–1.72; <i>p</i> = 0.003), sepsis (aOR: 1.73; 1.33–2.54; <i>p</i> &lt; 0.001), and readmission (aOR: 1.35; 1.03–1.83; <i>p</i> = 0.028). NC was associated with a higher case fatality rate (39.1% vs. 19.2%) in all age groups. IHM was significantly higher among NC patients (aOR: 2.07; 1.81–2.68; <i>p</i> &lt; 0.001). Risk factors for increased IHM in NC patients were age, moderate/severe dependence, malignancy, dyspnea, moderate/severe ARDS, multiple organ dysfunction syndrome, and shock; odynophagia was associated with lower IHM. <b><i>Conclusions:</i></b> NC is associated with greater mortality and complications compared to CAC. Hospital strategies to prevent NC must be strengthened.