bluuebunny/crossref_metadata_2025_split huggingface dataset:
Recurrent Cesarean Scar Pregnancy: Case Series and Literature Review
Authors: Timor-Tritsch I. E. , Horwitz G. , D'Antonio F. , Monteagudo A. , Bornstein E. , Chervenak J. , Messina L. , Morlando M. , Cali G. 
Published: January 2022

(Abstracted from Ultrasound Obstet Gynecol 2021;58:121–126)
There has been an increase in the number of cesarean deliveries (CDs) over the years and, with it, the publication of more cesarean scar pregnancy (CSP) data. Several authors have reported that, even with successful CSP treatment, there is a risk of recurrence.
Vaginal Electrical Stimulation for Postpartum Neuromuscular Recovery: A Randomized Clinical Trial
Authors: Brown Oluwateniola , Heliker Bhumy Davé , Geynisman-Tan Julia , Tavathia Meera , Mueller Margaret G. , Collins Sarah , Kenton Kimberly , Lewicky-Gaupp Christina 
Published: January 2022

(Abstracted from Female Pelvic Med Reconstr Surg 2021;27:659–666)
Obstetric anal sphincter injuries (OASIS) have been established as risk factors for anal incontinence (AI). Several studies have shown that women with OASIS were more likely to have AI than those without anal sphincter lacerations or tears.
Association Between Iatrogenic Delivery for Suspected Fetal Growth Restriction and Childhood School Outcomes
Authors: Selvaratnam Roshan John , Wallace Euan Morrison , Wolfe Rory , Anderson Peter John , Davey Mary-Ann 
Published: January 2022

(Abstracted from JAMA 2021;326:145–153)
One of the larger contributors to stillbirth in late pregnancy is fetal growth restriction (FGR). When undetected, the rate of stillbirth between 2000 and 2017 was 16.4 per 1000 births.
The Ultra-Long Study: A Randomized Controlled Trial Evaluating Long-Term GnRH Downregulation Prior to ART in Women With Endometriosis
Authors: Tomassetti C. , Beukeleirs T. , Conforti A. , Debrock S. , Peeraer K. , Meuleman C. , D'Hooghe T. 
Published: January 2022

(Abstracted from Hum Reprod 2021;36:2676–2686)
Although the adverse effect of endometriosis on pregnancy rate is well established, the impact of endometriosis on pregnancy rate after treatment with assisted reproductive technology (ART) remains unclear. There is evidence that the use of prolonged pituitary downregulation before ART in women with any degree of endometriosis increases the odds of clinical pregnancy significantly (up to 4-fold); however, this evidence is limited by potential methodology and publication bias.
COVID-19 vaccination status is associated with physical activity in German-speaking countries: the COR-PHYS-Q cohort study
Authors: Schwendinger F. , Boeck H. T. , Infanger D. , Faulhaber M. , Tegtbur U. , Schmidt-Trucksäss A. 
Published: January 2022

AbstractBackgroundTo examine the association between COVID-19 vaccination status and physical activity (PA), sporting behavior, as well as barriers to PA in adults in Switzerland, Germany, and Austria.MethodsA total of 1516 adults provided complete responses to our online questionnaire sent out in August 2021. Information about self-reported PA categories, sporting behavior, barriers to PA, and COVID-19 vaccination status were gathered. Main analyses were done using multiple linear regression adjusted for relevant parameters.ResultsWe found a significant association of vaccination status with total PA (p= .011), vigorous PA (p= .015), and moderate PA (p= .001) but not transport-related PA or sedentary time. Unvaccinated adults tended to have more total and vigorous PA than those vaccinated once (ratios of geometric means: 1.34 and 1.60, respectively) or twice (1.22 and 1.09, respectively). Yet, not sufficient evidence was available to confirm this. There was no between-group difference in the contribution of leisure time, work-related, or transport-related PA to total PA. Vaccination status was not associated with sporting behavior except for jogging as the primary intensive type of sports. Finally, there were no significant differences in any of the COVID-19 specific barriers to PA between groups.ConclusionOur data showed that vaccination status is associated with PA even in summer, where the number of COVID-19 cases was low and the severity of safety measures was mild. These findings may enhance future research and improve/extend COVID-19-specific PA guidelines.
Household composition, smoking cessation and relapse: results from a prospective longitudinal Australian cohort
Authors: Saxby Karinna , Ireland Andrew , Ghijben Peter , Sweeney Rohan , Sia Kah-Ling , Chen Esa , Farrell Michael , McRobbie Hayden , Courtney Ryan , Petrie Dennis 
Published: January 2022

AbstractAimsTo examine the association between household members and their tobacco smoking behaviour on patterns of smoking cessation and relapse.Design and participantsData was sourced from 19 waves (years 2001 to 2019) of the nationally representative Household Income and Labour Dynamics in Australia (HILDA) survey, with all household members 15 years or older completing the survey annually. The final sample included, on average, 3,056 ex-smokers and 2,612 smokers per wave.MeasurementsSelf-reported annual smoking status was used to construct measures of smoking cessation and relapse. Information on household structure and relationships was then used to develop variables describing the presence of household members and their smoking status by relationship to the individual (i.e., child, parent, spouse, sibling, or other). Multivariate regression analyses were then used to predict the likelihood of smoking cessation and relapse controlling for the presence of other household members and their smoking status, sociodemographic characteristics, number of cigarettes smoked per day, previous quit attempts, and years abstained from smoking.FindingsIndividuals that lived with non-smokers were more likely to quit [OR1.22 (95%CI 1.11;1.34)] relative to those living alone. However, this favourable association was negated if living with another smoker, which was associated with a reduced likelihood of smoking cessation [OR0.77 (95%CI 0.72;0.83)] and a higher likelihood of relapse [1.37 (95%CI 1.22;1.53)]. In particular, living with a spouse or parent that smoked reduced the likelihood of smoking cessation [OR0.71 (95%CI 0.65;0.78) and OR0.71 (95%CI 0.59;0.84), respectively] and increased the likelihood of relapse [OR1.47 (95%CI 1.28;1.69) and OR1.39 (95%CI 1.00;1.94) respectively] relative to living with their non-smoking counterparts.ConclusionsHousehold composition and intrahousehold smoking behaviour should be considered when delivering, or estimating the benefits of, smoking cessation interventions. Interventions which encourage smoking cessation at the household level may assist individuals to quit and abstain from smoking.
‘I don’t know anybody who said, “oh great, let’s get measles”’: a qualitative study of responses to childhood vaccinations (MMRV) among Orthodox Jews in Jerusalem following the 2018-19 measles outbreaks
Authors: Kasstan Ben 
Published: January 2022

AbstractMeasles outbreaks have emerged among religious minorities in the global north, which cross regional and national boundaries and raise implications for measles elimination targets. Yet, studies are ambiguous about the reasons that underlie non-vaccination in religious populations, and whether and how religious “beliefs” influence vaccine decision-making among populations with suboptimal vaccination coverage. In 2018-19, Israel experienced the largest measles outbreaks in a quarter century – the burden of which disproportionately affected Orthodox Jewish neighbourhoods in Jerusalem. The objective of this study was to explore how Orthodox Jewish households in Jerusalem responded to the measles outbreaks in their neighbourhoods and how they viewed childhood vaccination (MMRV) during a public health emergency.Research methods primarily consisted of 25 in-depth semi-structured interviews conducted with 23 household heads, and 2 public health professionals involved in planning and implementation of vaccination services. Thematic analysis generated five key themes, i) where the issue of sub-optimal vaccination uptake was perceived to be located; ii) how responsive people and services were to the measles outbreaks; iii) the sources of information used in vaccine decisions by religious parents; vi) whether vaccination was deemed a religious issue; and v) how vaccination influenced social relations within religious neighbourhoods.Results demonstrate parental investment in protecting child health, with decisions around vaccination reflecting vaccine efficacy and safety, and the risk of measles transmission. Household heads across all Orthodox Jewish backgrounds were not apathetic towards measles transmission. No religious “beliefs” were identified for non-vaccination among the household heads in this cohort. Rather than relegating suboptimal vaccination uptake among religious minorities and populations as an issue of religious “beliefs,” quality social science research should examine – and clearly convey – how religion influences vaccine decision-making. Such clarity can help to avoid stigmatizing religious minorities and populations, and to plan for appropriate vaccination programmes and promotion campaigns.
dsSurvival: Privacy preserving survival models for federated individual patient meta-analysis in DataSHIELD
Authors: Banerjee Soumya , Sofack Ghislain N. , Papakonstantinou Thodoris , Avraam Demetris , Burton Paul , Zöller Daniela , Bishop Tom R.P. 
Published: January 2022

AbstractObjectiveAchieving sufficient statistical power in a survival analysis usually requires large amounts of data from different sites. Sensitivity of individual-level data, ethical and practical considerations regarding data sharing across institutions could be a potential challenge for achieving this added power. Hence we implemented a federated meta-analysis approach of survival models in DataSHIELD, where only anonymous aggregated data are shared across institutions, while simultaneously allowing for exploratory, interactive modelling.In this case, meta-analysis techniques to combine analysis results from each site are a solution, but an analytic workflow involving local analysis undertaken at individual studies hinders exploration. Thus, the aim is to provide a framework for performing meta-analysis of Cox regression models across institutions without manual analysis steps for the data providers.ResultsWe introduce a package (dsSurvival) which allows privacy preserving meta-analysis of survival models, including the calculation of hazard ratios. Our tool can be of great use in biomedical research where there is a need for building survival models and there are privacy concerns about sharing data.
Evaluating Human Mutation Databases for ‘Treatability’ Using Personalized Antisense Oligonucleotides
Authors: Mittal Swapnil , Tang Isaac , Gleeson Joseph G. 
Published: January 2022

AbstractGenome sequencing in the clinic often allows patients to receive a molecular diagnosis. However, variants are most often evaluated for pathogenicity, neglecting potential “treatability”, and thus often yielding limited clinical benefit. Several collaborative efforts now aim to provide a therapy based upon the genetic variants, even if the drug will benefit only a single patient. Antisense oligonucleotide (ASO) therapies, among others, offer attractive “programmable” and relatively safe platforms for individualized therapy. The landscape of “ASO-treatable” variants is largely uncharted, with new developments emerging for loss-of-function (LOF), haploinsufficient, and gain-of-function (GOF) variants. ASOs can access the genome to target splice-gain variants, poison exons, untranslated/regulatory regions, and naturally-occurring antisense transcripts. Many of these approaches have yet to be proven clinically beneficial, and it is unclear if disease in some patients has progressed past the point where benefit could reasonably be expected. Here we mine public variant databases to identify potential future therapeutic targets. We found that the majority of human pathogenic genetic variants have one or more approaches that could be targeted therapeutically, advantaging the many ways that ASOs can regulate gene expression. The future might see medical teams considering “treatability” when interpreting genome sequencing results, to fully realize benefits for patients.
Stem embolism vulnerability curve depends on methods used: is there a fifth mechanism of cavitation?
Authors: Peng Guoquan , Cao Lei , Ren Zhiyang , Liang Zhao , Yu Guo , Yang Dongmei , Tyree Melvin T. 
Published: January 2022

AbstractA long-established ecological paradigm predicts a functional relationship determining vulnerability to cavitation: vulnerability increases with vessel hydraulic efficiency and vessel diameter. Even within a species, big vessels cavitate before small ones.Some centrifuge methods for measuring vulnerability are prone to artifacts due to nano-particles seeding early embolism, as the particles are drawn into vessels during measurements. Both the Sperry and Cochard rotors are prone to early cavitation due to nano-particles drawn into long and wide vessels in Robinia pseudoacacia and Quercus acutissima, whereas extraction centrifuge methods produce vulnerability curves more resistant to cavitation.Sufficient nano-particles pass through the stems to seed early embolism in all rotor designs. For several years, people have thought that early embolism is induced by nano-particles present in laboratory water. One new hypothesis is that the origin of nano-particles is from cut-open living cells but a much bigger study including many species is required to confirm this idea. This paper confirms the hypothesis in comparisons between short-vesselled Acer, and long-vesselled Robinia, and Quercus. Our new results and a review of old results justifies bigger study.Hypothetical nano-particles might explain why different methods for measuring vulnerability curves cause different T50 = tensions causing 50% loss of hydraulic conductivity. Hence the hypothesis for future research should be that the open-vessel artifact is consistent with ‘long’ vessels surrounded by cut open living cells.One sentence SummaryNano-particles induced early cavitation in species with vessel lengths about ¼ the stem length used in all centrifuge rotors, and the origin of nano-particles might be from living cells nearby vessels
Loss of pod strings in common bean is associated with gene duplication, retrotransposon insertion, and overexpression of PvIND
Authors: Parker Travis , Cetz José , de Sousa Lorenna Lopes , Kuzay Saarah , Lo Sassoum , de Oliveira Floriani Talissa , Njau Serah , Arunga Esther , Duitama Jorge , Jernstedt Judy , Myers James R. , Llaca Victor , Herrera-Estrella Alfredo , Gepts Paul 
Published: January 2022

AbstractRegulation of fruit development has been central in the evolution and domestication of flowering plants. In common bean (Phaseolus vulgaris L.), a major global staple crop, the two main economic categories are distinguished by differences in fiber deposition in pods: a) dry beans with fibrous and stringy pods; and b) stringless snap/green beans with reduced fiber deposition, but which frequently revert to the ancestral stringy state. To better understand control of this important trait, we first characterized developmental patterns of gene expression in four phenotypically diverse varieties. Then, using isogenic stringless/revertant pairs of six snap bean varieties, we identified strong overexpression of the common bean ortholog of INDEHISCENT (PvIND) in non-stringy types compared to their string-producing counterparts. Microscopy of these pairs indicates that PvIND overexpression is associated with overspecification of weak dehiscence zone cells throughout the entire pod vascular sheath. No differences in PvIND DNA methylation were correlated with pod string phenotype. Sequencing of a 500 kb region surrounding PvIND in the stringless snap bean cultivar Hystyle revealed that PvIND had been duplicated into two tandem repeats, and that a Ty1-copia retrotransposon was inserted between these tandem repeats, possibly driving PvIND overexpression. Further sequencing of stringless/revertant isogenic pairs and diverse materials indicated that these sequence features had been uniformly lost in revertant types and were strongly predictive of pod phenotype, supporting their role in PvIND overexpression and pod string phenotype.SignificanceFruit dehiscence is a key trait for seed dissemination. In legumes, e.g., common bean, dehiscence relies on the presence of fibers, including pod “strings”. Selections during domestication and improvement have decreased (dry beans) or eliminated (snap beans) fibers, but reversion to the fibrous state occurs frequently in snap beans. In this article, we document that fiber loss or gain is controlled by structural changes at the PvIND locus, a homolog of the Arabidopsis INDEHISCENT gene. These changes include a duplication of the locus and insertion/deletion of a retrotransposon, which are associated with significant changes in PvIND expression. Our findings shed light on the molecular basis of unstable mutations and provide potential solutions to an important pod quality issue.Competing Interest StatementThe authors have no competing interests.
Dissolvable microgel-templated macroporous hydrogels for controlled cell assembly
Authors: Jiang Zhongliang , Lin Fang-Yi , Jiang Kun , Nguyen Han , Chang Chun-Yi , Lin Chien-Chi 
Published: January 2022

ABSTRACTMesenchymal stem cells (MSCs)-based therapies have been widely used to promote tissue regeneration and to modulate immune/inflammatory response. The therapeutic potential of MSCs can be further improved by forming multi-cellular spheroids. Meanwhile, hydrogels with macroporous structures are advantageous for improving mass transport properties for the cell-laden matrices. Herein, we report the fabrication of MSC-laden macroporous hydrogel scaffolds through incorporating rapidly dissolvable spherical cell-laden microgels. Dissolvable microgels were fabricated by tandem droplet-microfluidics and thiol-norbornene photopolymerization using a novel fast-degrading macromer poly(ethylene glycol)-norbornene-dopamine (PEGNB-Dopa). The cell-laden microgels were subsequently encapsulated within another bulk hydrogel matrix, whose porous structure was generated efficiently by the rapid degradation of the PEGNB-Dopa microgels. The cytocompatibility of this in situ pore-forming approach was demonstrated with multiple cell types. Furthermore, adjusting the stiffness and cell adhesiveness of the bulk hydrogels afforded the formation of solid cell spheroids or hollow spheres. The assembly of solid or hollow MSC spheroids led to differential activation of AKT pathway. Finally, MSCs solid spheroids formed in situ within the macroporous hydrogels exhibited robust secretion of HGF, VEGF-A, IL-6, IL-8, and TIMP-2. In summary, this platform provides an innovative method for forming cell-laden macroporous hydrogels for a variety of future biomedical applications.
MvPPT: a highly efficient and sensitive pathogenicity prediction tool for missense variants
Authors: Tong Shi-Yuan , Fan Ke , Zhou Zai-Wei , Liu Lin-Yun , Zhang Shu-Qing , Fu Yinghui , Wang Guang-Zhong , Zhu Ying , Yu Yong-Chun 
Published: January 2022

AbstractNext generation sequencing technologies both boost the discovery of variants in the human genome and exacerbate the challenges of pathogenic variant identification. In this study, we developed mvPPT (Pathogenicity Prediction Tool for missense variants), a highly sensitive and accurate missense variant classifier based on gradient boosting. MvPPT adopts high-confidence training sets with a wide spectrum of variant profiles, and extracts three categories of features, including scores from existing prediction tools, allele, amino acid and genotype frequencies, and genomic context. Compared with established predictors, mvPPT achieved superior performance in all test sets, regardless of data source. In addition, our study also provides guidance for training set and feature selection strategies, as well as reveals highly relevant features, which may further provide biological insights of variant pathogenicity.
A blunted GPR183/oxysterol axis during dysglycemia results in delayed recruitment of macrophages to the lung during M. tuberculosis infection
Authors: Ngo Minh Dao , Bartlett Stacey , Bielefeldt-Ohmann Helle , Foo Cheng Xiang , Sinha Roma , Arachige Buddhika Jayakody , Reed Sarah , Mandrup-Poulsen Thomas , Rosenkilde Mette Marie , Ronacher Katharina 
Published: January 2022

ABSTRACTWe previously reported that the oxidised cholesterol-sensing receptor GPR183 is significantly downregulated in blood from tuberculosis (TB) patients with diabetes compared to TB patients without co-morbidities and that lower GPR183 expression in blood is associated with more severe pulmonary TB on chest-x-ray consistent with observations in dysglycemic mice. To further elucidate the role of this receptor and its endogenous high affinity agonist 7α,25-di-hydroxycholesterol (7α,25-OHC) in the lung, we studied high fat diet (HFD)-induced dysglycemic mice infected with M.tuberculosis.We found that the 7α,25-OHC-producing enzymes cholesterol 25-hydroxylase (CH25H) and cytochrome P450 family 7 subfamily member B1 (CYP7B1) were highly upregulated upon M. tuberculosis infection in the lungs of normoglycemic mice, and this was associated with increased expression of GPR183 indicative of effective recruitment of GPR183-expressing immune cells to the site of infection. We demonstrated that CYP7B1 was predominantly expressed by macrophages in the centre of TB granulomas. Expression of CYP7B1 was significantly blunted in lungs from HFD-fed dysglycemic animals and this coincided with delayed recruitment of macrophages to the lung during early infection and more severe lung pathology. GPR183 deficient mice similarly had reduced macrophage recruitment during early infection demonstrating a requirement of the GPR183/oxysterol axis for macrophage infiltration into the lung in TB.Together our data demonstrate that oxidised cholesterols and GPR183 play an important role in positioning macrophages to the site of M. tuberculosis infection and that this is impaired by HFD-induced dysglycemia, adding a mechanistic explanation to the poorer TB outcomes in patients with diabetes.