bluuebunny/crossref_metadata_2025_split huggingface dataset:
Optimizing the synthesis of clinical trial data using sequential trees
Authors: Emam Khaled El , Mosquera Lucy , Zheng Chaoyi 
Published: September 2020

Abstract

Objective
With the growing demand for sharing clinical trial data, scalable methods to enable privacy protective access to high-utility data are needed. Data synthesis is one such method. Sequential trees are commonly used to synthesize health data. It is hypothesized that the utility of the generated data is dependent on the variable order. No assessments of the impact of variable order on synthesized clinical trial data have been performed thus far. Through simulation, we aim to evaluate the variability in the utility of synthetic clinical trial data as variable order is randomly shuffled and implement an optimization algorithm to find a good order if variability is too high.

Materials and Methods
Six oncology clinical trial datasets were evaluated in a simulation. Three utility metrics were computed comparing real and synthetic data: univariate similarity, similarity in multivariate prediction accuracy, and a distinguishability metric. Particle swarm was implemented to optimize variable order, and was compared with a curriculum learning approach to ordering variables.

Results
As the number of variables in a clinical trial dataset increases, there is a pattern of a marked increase in variability of data utility with order. Particle swarm with a distinguishability hinge loss ensured adequate utility across all 6 datasets. The hinge threshold was selected to avoid overfitting which can create a privacy problem. This was superior to curriculum learning in terms of utility.

Conclusions
The optimization approach presented in this study gives a reliable way to synthesize high-utility clinical trial datasets.
Electoral Competition with Rationally Inattentive Voters
Authors: Matějka Filip , Tabellini Guido 
Published: September 2020

AbstractThis paper studies how voters’ selective ignorance interacts with policy design by political candidates. It shows that the selectivity empowers voters with extreme preferences and small groups, that divisive issues attract most attention, and that public goods are underfunded. Finer granularity of information increases these inefficiencies. Rational inattention can also explain why competing opportunistic candidates do not always converge on the same policy issues.
Opioid-induced constipation in patients with cancer pain in Japan (OIC-J study): a post hoc subgroup analysis of patients with lung cancer
Authors: Imai Hisao , Fumita Soichi , Harada Toshiyuki , Noriyuki Toshio , Gamoh Makio , Okamoto Masaharu , Akashi Yusaku , Kizawa Yoshiyuki , Tokoro Akihiro 
Published: September 2020

AbstractObjectiveTo evaluate the opioid-induced constipation burden in the subgroup of patients with lung cancer who participated in the observational Opioid-Induced Constipation in Patients with Cancer Pain in Japan (OIC-J) study.MethodsThe prospective, observational study, OIC-J, included 212 patients with various tumour types, 33% of whom had lung cancer. The incidence of opioid-induced constipation was evaluated using several diagnostic criteria, as well as the physician’s diagnosis and patient’s subjective assessment. Following initiation of opioids, patients recorded details of bowel movements (i.e. date/time, Bristol Stool Scale form, sensations of incomplete evacuation or anorectal obstruction/blockage and degree of straining) in a diary for 2 weeks. Relationships between patient characteristics and opioid-induced constipation onset and effects of opioid-induced constipation on quality of life were explored.ResultsIn total, 69 patients were included in this post hoc analysis. The incidence of opioid-induced constipation varied (39.1–59.1%) depending on which diagnostic criteria was used. Diagnostic criteria that included a quality component or a patient’s feeling of bowel movement as an evaluation item (i.e. Rome IV, physician’s diagnosis, Bowel Function Index, patient’s assessment) showed higher incidences of opioid-induced constipation than recording the number of spontaneous bowel movements alone. Opioid-induced constipation occurred rapidly after initiating opioids and had a significant impact on Patient Assessment of Constipation Symptoms total score (P = 0.0031). Patient baseline characteristics did not appear to be predictive of opioid-induced constipation onset.ConclusionsIn patients with lung cancer, opioid-induced constipation can occur quickly after initiating opioids and can negatively impact quality of life. Early management of opioid-induced constipation, with a focus on quality-of-life improvement and patient’s assessments of bowel movements, is important for these patients.
Deriving Dual Dimensions of Bias: Preposed Negation Questions with EVEN
Authors: Jeong Sunwoo 
Published: September 2020

AbstractPolar interrogatives with preposed negation (e.g., Didn’t Cam help?) convey positive epistemic bias. Polar interrogatives with even-type expressions, including prosodically stressed NPIs and minimizer NPIs (e.g., Did Cam lift a finger to help?), convey negative epistemic bias and often have a rhetorical flavor. This paper examines hybrid PQ constructions with both preposed negations and even-type expressions (e.g., Didn’t Cam lift a finger to help?; henceforth even-PNQs). It first presents a series of experimental studies which reveal that even-PNQs are characterized by complex, dual dimensions of bias contributed compositionally by both the preposed negation on the one hand and the even-type expression on the other. It then explores the theoretical implications of these results. The emerging data are shown to impose certain constraints on and generate additional desiderata for both the analyses of preposed negation questions and the analyses of even-type questions. Building on this discussion, a compositional analysis of even-PNQs is proposed. The analysis supports the presence of inner vs. outer negation ambiguity in PNQs, and identifies even-PNQs as inner-negation PNQs. It also adopts an informativity-based approach to the meaning contribution of even, formulated around the settledness of alternative issues.
Communicating with residents about 10 years of scientific progress in understanding thyroid cancer risk in children after the Fukushima Dai-ichi Nuclear Power Station accident
Authors: Suzuki Gen 
Published: September 2020

ABSTRACTAfter the Fukushima Dai-ichi Nuclear Power Station (FDNPS) accident in 2011, radiation-related risk of childhood thyroid cancer remains a matter of concern among residents living in areas affected by radioactive plumes. As a countermeasure to that, the Fukushima Prefectural Government—in conjunction with Fukushima Medical University—began the Fukushima Thyroid Examination (FTE) campaign in 2011. As 116 definite or suspected thyroid cancer cases were found after the first round of FTE and the total number of cases was &gt;240 as of June 2020, residents’ concerns have deepened. Some researchers claim that these cases are radiation-induced, while others claim a screening effect (because FTE uses high-resolution ultrasound equipment) and express concern about over-diagnosis. Researchers therefore must address two conflicting issues: one is to elucidate radiation effects on thyroid cancer, which requires continuation of FTE; the other is to solve ethical problems associated with FTE. As to over-diagnosis, surgeons claim that early diagnosis benefits children by reducing the side-effects of treatment and prolonging disease-free survival, while cancer epidemiologists claim that early diagnosis will result in overtreatment without reducing the death rate. ‘To receive FTE or not’ and ‘to stop FTE or not’ are ongoing dilemmas for children (and their parents) and other stakeholders, respectively. To facilitate building a consensus among stakeholders, I overview recent findings about dose reconstruction, the dose–response relationship of thyroid cancer, over-diagnosis, and the natural history of thyroid cancer, all of which contribute to judging the risk–benefit balance of thyroid screening.
Hebrew In The Incantation Bowls and In The Babylonian Vocalization Tradition1
Authors: Frim Daniel J 
Published: September 2020

Abstract
Babylonian Jewish communities possessed a Hebrew vocalization tradition in parallel to the better-known Tiberian and Palestinian traditions. Most of the available evidence regarding Babylonian Hebrew comes from vocalized manuscripts, which were produced during a late period in the history of the dialect. This article examines Jewish Babylonian Aramaic incantation bowls as earlier sources of information regarding the Babylonian Hebrew vocalization tradition. Plene spellings of Hebrew words in these texts, along with other orthographic details, attest to characteristically Babylonian features, such as the preservation of short u, o, e, and i in phonological environments that trigger lowering to ɔ and ε in the Tiberian tradition; the correspondence between Babylonian a-vowels and Tiberian sĕgōl; and non- systematic differences between the Babylonian and Tiberian traditions.
Arabidopsis exoribonuclease USB1 interacts with the PPR-domain protein SOAR1 to negatively regulate abscisic acid signaling
Authors: Ma Yu , Zhang Shang , Bi Chao , Mei Chao , Jiang Shang-Chuan , Wang Xiao-Fang , Lu Zhi John , Zhang Da-Peng 
Published: September 2020

Abstract
Signaling by the phytohormone abscisic acid (ABA) involves pre-mRNA splicing, a key process of post-transcriptional regulation of gene expression. However, the regulatory mechanism of alternative pre-mRNA splicing in ABA signaling remains largely unknown. We previously identified a pentatricopeptide repeat protein SOAR1 (suppressor of the ABAR-overexpressor 1) as a crucial player downstream of ABAR (putative ABA receptor) in ABA signaling. In this study, we identified a SOAR1 interaction partner USB1, which is an exoribonuclease catalyzing U6 production for spliceosome assembly. We reveal that together USB1 and SOAR1 negatively regulate ABA signaling in early seedling development. USB1 and SOAR1 are both required for the splicing of transcripts of numerous genes, including those involved in ABA signaling pathways, suggesting that USB1 and SOAR1 collaborate to regulate ABA signaling by affecting spliceosome assembly. These findings provide important new insights into the mechanistic control of alternative pre-mRNA splicing in the regulation of ABA-mediated plant responses to environmental cues.
Multifaceted roles of RNA polymerase IV in plant growth and development
Authors: Zhang Shuai , Wu Xiao-Qing , Xie Hui-Ting , Zhao Shan-Shan , Wu Jian-Guo 
Published: September 2020

We discuss the latest findings on RNA polymerase IV (Pol IV) in plant growth and development, providing new insights and expanding on new ideas for further, more in-depth research on Pol IV.
Delineating the future of iron biofortification studies in rice: challenges and future perspectives
Authors: Kawakami Yuta , Bhullar Navreet K 
Published: September 2020

Abstract
Iron (Fe) deficiency in humans is a widespread problem worldwide. Fe biofortification of rice (Oryza sativa) is a promising approach to address human Fe deficiency. Since its conceptualization, various biofortification strategies have been developed, some of which have resulted in significant increases in grain Fe concentration. However, there are still many aspects that have not yet been addressed in the studies to date. In this review, we first overview the important rice Fe biofortification strategies reported to date and the complications associated with them. Next, we highlight the key outstanding questions and hypotheses related to rice Fe biofortification. Finally, we make suggestions for the direction of future rice biofortification studies.
The Economic Consequences of Marital Separation for Parents in New Zealand: Insights from a Large Administrative Dataset
Authors: Fletcher Michael , Maré David C , Maloney Tim 
Published: September 2020

Abstract
Marital separation, especially when dependent children are involved, is a significant and disruptive event that often involves considerable changes in living standards. This article uses a newly available dataset to provide, for the first time, estimates of the short- to medium-term economic impacts of marital separation for parents of dependent-aged children in New Zealand. Unlike most similar studies, which are based on relatively small samples of separating individuals drawn from panel surveys, we exploit a large database of longitudinal tax and welfare records. This allows us to examine the economic consequences of separation for approximately 16,000 New Zealand parents and carers of dependent-aged children who separated in a 12-month period. The analysis applies propensity score matching, combined with difference-in-differences estimation, to estimate impacts. We find an average 29 per cent first-year decline in equivalised incomes for separating women and a 15 per cent average rise for men. In both cases, the effects persist to the end of the study period three years after separation. Our results also show a significant rise in poverty rates for both men and women, relatively small changes in employment and earnings, and a large increase in welfare receipts among the women.
Understanding the origin of white dwarf atmospheric pollution by dynamical simulations based on detected three-planet systems
Authors: Maldonado R F , Villaver E , Mustill A J , Chavez M , Bertone E 
Published: September 2020

ABSTRACT
Between 25 and 50 ${{\ \rm per\ cent}}$ of white dwarfs (WD) present atmospheric pollution by metals, mainly by rocky material, which has been detected as gas/dust discs, or in the form of photometric transits in some WDs. Planets might be responsible for scattering minor bodies that can reach stargazing orbits, where the tidal forces of the WD can disrupt them and enhance the chances of debris to fall on to the WD surface. The planet–planet scattering process can be triggered by the stellar mass-loss during the post main-sequence (MS) evolution of planetary systems. In this work, we continue the exploration of the dynamical instabilities that can lead to WD pollution. In a previous work, we explored two-planet systems found around MS stars and here we extend the study to three-planet system architectures. We evolved 135 detected three-planet systems orbiting MS stars to the WD phase by scaling their orbital architectures in a way that their dynamical properties are preserved using the N-body integrator package mercury. We find that 100 simulations (8.6 ${{\ \rm per\ cent}}$) are dynamically active (having planet losses, orbit crossing, and scattering) on the WD phase, where low-mass planets (1–100 M⊕) tend to have instabilities in Gyr time-scales, while high-mass planets (&gt;100 M⊕) decrease the dynamical events more rapidly as the WD ages. Besides, 19 simulations (1.6 ${{\ \rm per\ cent}}$) were found to have planets crossing the Roche radius of the WD, where 9 of them had planet–star collisions. Our three-planet simulations have a slight increase in percentage of simulations that may contribute to the WD pollution than the previous study involving two-planet systems and have shown that planet–planet scattering is responsible of sending planets close to the WD, where they may collide directly to the WD, become tidally disrupted or circularize their orbits, hence producing pollution on the WD atmosphere.
The Completed SDSS-IV extended Baryon Oscillation Spectroscopic Survey: exploring the halo occupation distribution model for emission line galaxies
Authors: Avila S , Gonzalez-Perez V , Mohammad F G , de Mattia A , Zhao C , Raichoor A , Tamone A , Alam S , Bautista J , Bianchi D , Burtin E , Chapman M J , Chuang C-H , Comparat J , Dawson K , Divers T , du Mas des Bourboux H , Gil-Marin H , Mueller E M , Habib S , Heitmann K , Ruhlmann-Kleider V , Padilla N , Percival W J , Ross A J , Seo H J , Schneider D P , Zhao G 
Published: September 2020

ABSTRACT
We study the modelling of the halo occupation distribution (HOD) for the eBOSS DR16 emission line galaxies (ELGs). Motivated by previous theoretical and observational studies, we consider different physical effects that can change how ELGs populate haloes. We explore the shape of the average HOD, the fraction of satellite galaxies, their probability distribution function (PDF), and their density and velocity profiles. Our baseline HOD shape was fitted to a semi-analytical model of galaxy formation and evolution, with a decaying occupation of central ELGs at high halo masses. We consider Poisson and sub/super-Poissonian PDFs for satellite assignment. We model both Navarro–Frenk–White and particle profiles for satellite positions, also allowing for decreased concentrations. We model velocities with the virial theorem and particle velocity distributions. Additionally, we introduce a velocity bias and a net infall velocity. We study how these choices impact the clustering statistics while keeping the number density and bias fixed to that from eBOSS ELGs. The projected correlation function, wp, captures most of the effects from the PDF and satellites profile. The quadrupole, ξ2, captures most of the effects coming from the velocity profile. We find that the impact of the mean HOD shape is subdominant relative to the rest of choices. We fit the clustering of the eBOSS DR16 ELG data under different combinations of the above assumptions. The catalogues presented here have been analysed in companion papers, showing that eBOSS RSD+BAO measurements are insensitive to the details of galaxy physics considered here. These catalogues are made publicly available.
Going back to basics: accelerating exoplanet transit modelling using Taylor-series expansion of the orbital motion
Authors: Parviainen H , Korth J 
Published: September 2020

ABSTRACT
A significant fraction of an exoplanet transit model evaluation time is spent calculating projected distances between the planet and its host star. This is a relatively fast operation for a circular orbit, but slower for an eccentric one. However, because the planet’s position and its time derivatives are constant for any specific point in orbital phase, the projected distance can be calculated rapidly and accurately in the vicinity of the transit by expanding the planet’s x and y positions in the sky plane into a Taylor series at mid-transit. Calculating the projected distance for an elliptical orbit using the four first time derivatives of the position vector (velocity, acceleration, jerk, and snap) is ∼100 times faster than calculating it using the Newton’s method, and also significantly faster than calculating z for a circular orbit because the approach does not use numerically expensive trigonometric functions. The speed gain in the projected distance calculation leads to 2–25 times faster transit model evaluation speed, depending on the transit model complexity and orbital eccentricity. Calculation of the four position derivatives using numerical differentiation takes $\sim 1\, \mu$s with a modern laptop and needs to be done only once for a given orbit, and the maximum error the approximation introduces to a transit light curve is below 1 ppm for the major part of the physically plausible orbital parameter space.
SINEUP long non-coding RNA acts via PTBP1 and HNRNPK to promote translational initiation assemblies
Authors: Toki Naoko , Takahashi Hazuki , Sharma Harshita , Valentine Matthew N Z , Rahman Ferdous-Ur M , Zucchelli Silvia , Gustincich Stefano , Carninci Piero 
Published: September 2020

Abstract
SINEUPs are long non-coding RNAs (lncRNAs) that contain a SINE element, and which up-regulate the translation of target mRNA. They have been studied in a wide range of applications, as both biological and therapeutic tools, although the underpinning molecular mechanism is unclear. Here, we focused on the sub-cellular distribution of target mRNAs and SINEUP RNAs, performing co-transfection of expression vectors for these transcripts into human embryonic kidney cells (HEK293T/17), to investigate the network of translational regulation. The results showed that co-localization of target mRNAs and SINEUP RNAs in the cytoplasm was a key phenomenon. We identified PTBP1 and HNRNPK as essential RNA binding proteins. These proteins contributed to SINEUP RNA sub-cellular distribution and to assembly of translational initiation complexes, leading to enhanced target mRNA translation. These findings will promote a better understanding of the mechanisms employed by regulatory RNAs implicated in efficient protein translation.
METTL3 counteracts premature aging via m6A-dependent stabilization of MIS12 mRNA
Authors: Wu Zeming , Shi Yue , Lu Mingming , Song Moshi , Yu Zihui , Wang Jilu , Wang Si , Ren Jie , Yang Yun-Gui , Liu Guang-Hui , Zhang Weiqi , Ci Weimin , Qu Jing 
Published: September 2020

Abstract
N6-Methyladenosine (m6A) messenger RNA methylation is a well-known epitranscriptional regulatory mechanism affecting central biological processes, but its function in human cellular senescence remains uninvestigated. Here, we found that levels of both m6A RNA methylation and the methyltransferase METTL3 were reduced in prematurely senescent human mesenchymal stem cell (hMSC) models of progeroid syndromes. Transcriptional profiling of m6A modifications further identified MIS12, for which m6A modifications were reduced in both prematurely senescent hMSCs and METTL3-deficient hMSCs. Knockout of METTL3 accelerated hMSC senescence whereas overexpression of METTL3 rescued the senescent phenotypes. Mechanistically, loss of m6A modifications accelerated the turnover and decreased the expression of MIS12 mRNA while knockout of MIS12 accelerated cellular senescence. Furthermore, m6A reader IGF2BP2 was identified as a key player in recognizing and stabilizing m6A-modified MIS12 mRNA. Taken together, we discovered that METTL3 alleviates hMSC senescence through m6A modification-dependent stabilization of the MIS12 transcript, representing a novel epitranscriptional mechanism in premature stem cell senescence.
Case Report: Overwhelming Babesia Parasitemia Successfully Treated Promptly With RBC Apheresis and Triple Therapy With Clindamycin, Azithromycin, and Atovaquone
Authors: Li Yijia , Stanley Susan , Villalba Julian A , Nelson Sandra , Gelfand Jeffrey 
Published: September 2020

AbstractBabesiosis with high-grade parasitemia is life-threatening, especially in asplenic hosts. We report an asplenic patient with parasitemia &gt;50% who was successfully treated with prompt red blood cell apheresis and triple therapy with clindamycin + azithromycin + atovaquone. This regimen may be an alternative to poorly tolerated clindamycin + quinine in severe cases.