bluuebunny/crossref_metadata_2025_split huggingface dataset:
Timing of Delivery in Women with Cardiac Disease
Authors: Rouse Caroline E. , Easter Sarah Rae , Duarte Valeria E. , Drakely Sheila , Wu Fred M. , Valente Anne Marie , Economy Katherine E. 
Published: December 2020

Objective Guidelines do not exist to determine timing of delivery for women with cardiovascular disease (CVD) in pregnancy. The neonatal benefit of a term delivery as compared with an early term delivery is well described. We sought to examine maternal outcomes in women with CVD who delivered in the early term period (370/7 through 386/7 weeks) compared with those who delivered later.
Study Design This is a prospective cohort study examining cardiac and obstetric outcomes in women with CVD delivering between September 2011 and December 2016. The associations between gestational age at delivery and maternal, fetal, and obstetric characteristics were evaluated.
Results Two-hundred twenty-five women with CVD were included, 83 (37%) delivered in the early term period and 142 (63%) delivered at term. While the early term group had significantly higher rates of any hypertension during pregnancy (18.1 vs. 7%, p = 0.01) and intrauterine growth restriction (22.9 vs. 2.8%, p < 0.001), there was no difference in high-risk cardiac or obstetric characteristics. No difference in composite cardiac morbidity was found (4.8 vs. 3.5%, p = 0.24). Women in the early term group were more likely to undergo cesarean delivery than women in the term group (43.4 vs. 24.7%, p = 0.004).
Conclusion There is no maternal benefit of an early term delivery in otherwise healthy women with CVD. Given the known fetal consequences of early term delivery, this study offers support to existing literature suggesting term delivery in these women.
Key Points
Polyethersulfone/MWCNT nanocomposite scaffold for endometrial cell culture: preparation, characterization, and in vitro investigation
Authors: Alavije Ali Alirezaei , Barati Farid , Barati Mohammad , Nazari Hasan , Karimi Iraj 
Published: December 2020

Abstract
Endometrial cell culture is a method for investigating physiological or pathological conditions or simulating in vivo conditions for embryo culture. The natural function of the endometrium depends on a polarized epithelium and 3D stromal compartments. The polymer-based scaffolds of simple polyethersulfone (PES), laser scratched PES (PES-LS), and multiwall carbon nanotubes (MWCNT) composited PES (PES-MWCNT) were prepared and used for bovine endometrial cells (bECs) culture. For better investigation of the relationship between physical structure and cell growth behavior, the surface morphologies of the scaffolds were evaluated by atomic force microscopy (AFM) and field emission scanning electron microscopy (FESEM) techniques. Three synthesized membranes (PES, PES-LS, and PES-MWCNT) were evaluated for the cell morphology, viability and, doubling time. Results showed acceptable physical and chemical fabrication of the polymers with no significant differences in the proportions of live cells to primary cultured cells, dead to live cells, and the cell doubling time among groups during the experiment (P > 0.05). Total cell count (live and dead cells) was significantly different on Day 2 among types of polymers. The results showed the comparable potential of the PES-MWCNT membrane for the bECs culture.
A combined density functional theory and x-ray photoelectron spectroscopy study of the aromatic amino acids
Authors: Regoutz Anna , Wolinska Marta S , Fernando Nathalie K , Ratcliff Laura E 
Published: December 2020

Abstract
Amino acids are essential to all life. However, our understanding of some aspects of their intrinsic structure, molecular chemistry, and electronic structure is still limited. In particular the nature of amino acids in their crystalline form, often essential to biological and medical processes, faces a lack of knowledge both from experimental and theoretical approaches. An important experimental technique that has provided a multitude of crucial insights into the chemistry and electronic structure of materials is x-ray photoelectron spectroscopy. While the interpretation of spectra of simple bulk inorganic materials is often routine, interpreting core level spectra of complex molecular systems is complicated to impossible without the help of theory. We have previously demonstrated the ability of density functional theory to calculate binding energies of simple amino acids, using ΔSCF implemented in a systematic basis set for both gas phase (multiwavelets) and solid state (plane waves) calculations. In this study, we use the same approach to successfully predict and rationalise the experimental core level spectra of phenylalanine (Phe), tyrosine (Tyr), tryptophan (Trp), and histidine (His) and gain an in-depth understanding of their chemistry and electronic structure within the broader context of more than 20 related molecular systems. The insights gained from this study provide significant information on the nature of the aromatic amino acids and their conjugated side chains.
Diamond: a multi-modal DIA mass spectrometry data processing pipeline
Authors: Li Chenxin , Gao Mingxuan , Yang Wenxian , Zhong Chuanqi , Yu Rongshan 
Published: December 2020

Abstract

Summary
Currently, various software tools are used to support two mainstream workflows for data-independent acquisition (DIA) mass spectrometry (MS) data processing, namely, spectrum-centric scoring (SCS) and peptide-centric scoring (PCS). However, a fully automatic, easily reproducible and freely accessible pipeline that simultaneously integrates SCS and PCS strategies and supports both library-free and library-based modes is absent. We developed Diamond, a Nextflow-based, containerized, multi-modal DIA-MS data processing pipeline for peptide identification and quantification. Diamond integrated two mainstream workflows for DIA data analysis, namely, SCS and PCS, for use cases both with and without assay libraries. This multi-modal pipeline serves as a versatile, easy-to-use and easily extendable toolbox for large-scale DIA data processing.

Availability
Diamond is hosted on GitHub (https://github.com/xmuyulab/Diamond) and is released under the highly permissive MIT license to encourage further customization and modification. The Docker image for Diamond is freely accessible at https://hub.docker.com/r/zeroli/diamond.
Surgery following neoadjuvant chemoradiation therapy in clinical N3 esophageal cancer results in improved survival: a propensity-matched analysis
Authors: Alvarado Christine E , Worrell Stephanie G , Bachman Katelynn C , Gray Kelsey , Perry Yaron , Linden Philip A , Towe Christopher W 
Published: December 2020

Abstract
Esophageal cancer patients with extensive nodal metastases have poor survival, and benefit of surgery in this population is unclear. The aim of this study is to determine if surgery after neoadjuvant chemoradiotherapy (nCRT) improves overall survival (OS) in patients with clinical N3 (cN3) esophageal cancer relative to chemoradiation therapy (CRT) alone. The National Cancer Database was queried for all patients with cN3 esophageal cancer between 2010 and 2016. Patients who met inclusion criteria (received multiagent chemotherapy and radiation dose ≥30 Gy) were divided into two cohorts: CRT alone and nCRT + surgery. 769 patients met inclusion criteria, including 560 patients who received CRT alone, and 209 patients who received nCRT + surgery. The overall 5-year survival was significantly lower in the CRT alone group compared to the nCRT + surgery group (11.8% vs 18.0%, P &lt; 0.001). A 1:1 propensity matched cohort of CRT alone and nCRT + surgery patients also demonstrated improved survival associated with surgery (13.11 mo vs 23.1 mo, P &lt; 0.001). Predictors of survival were analyzed in the surgery cohort, and demonstrated that lymphovascular invasion was associated with worse survival (HR 2.07, P = 0.004). Despite poor outcomes of patients with advanced nodal metastases, nCRT + surgery is associated with improved OS. Of those with cN3 disease, only 27% underwent esophagectomy. Given the improved OS, patients with advanced nodal disease should be considered for surgery. Further investigation is warranted to determine which patients with cN3 disease would benefit most from esophagectomy, as 5-year survival remains low (18.0%).
Short- and long-term effects of perinatal phthalate exposures on metabolic pathways in the mouse liver
Authors: Neier Kari , Montrose Luke , Chen Kathleen , Malloy Maureen A , Jones Tamara R , Svoboda Laurie K , Harris Craig , Song Peter X K , Pennathur Subramaniam , Sartor Maureen A , Dolinoy Dana C 
Published: December 2020

Abstract
Phthalates have been demonstrated to interfere with metabolism, presumably by interacting with peroxisome proliferator-activated receptors (PPARs). However, mechanisms linking developmental phthalate exposures to long-term metabolic effects have not yet been elucidated. We investigated the hypothesis that developmental phthalate exposure has long-lasting impacts on PPAR target gene expression and DNA methylation to influence hepatic metabolic profiles across the life course. We utilized an established longitudinal mouse model of perinatal exposures to diethylhexyl phthalate and diisononyl phthalate, and a mixture of diethylhexyl phthalate+diisononyl phthalate. Exposure was through the diet and spanned from 2 weeks before mating until weaning at postnatal day 21 (PND21). Liver tissue was analyzed from the offspring of exposed and control mice at PND21 and in another cohort of exposed and control mice at 10 months of age. RNA-seq and pathway enrichment analyses indicated that acetyl-CoA metabolic processes were altered in diisononyl phthalate-exposed female livers at both PND21 and 10 months (FDR = 0.0018). Within the pathway, all 13 significant genes were potential PPAR target genes. Promoter DNA methylation was altered at three candidate genes, but persistent effects were only observed for Fasn. Targeted metabolomics indicated that phthalate-exposed females had decreased acetyl-CoA at PND21 and increased acetyl-CoA and acylcarnitines at 10 months. Together, our data suggested that perinatal phthalate exposures were associated with short- and long-term activation of PPAR target genes, which manifested as increased fatty acid production in early postnatal life and increased fatty acid oxidation in adulthood. This presents a novel molecular pathway linking developmental phthalate exposures and metabolic health outcomes.
Maximal Differentiability for a General Class of Quasilinear Elliptic Equations with Right-hand Side Measures
Authors: Byun Sun-Sig , Cho Namkyeong , Lee Ho-Sik 
Published: December 2020

Abstract
We prove maximal differentiability for the gradient of solutions to a certain type of nonlinear elliptic equations with a measure on the right-hand side. Our results generalize the limiting case of Calderón–Zygmund theory for an elliptic equation with $p$-growth to the case of Orlicz growth.
Host-Plant Induced Shifts in Microbial Community Structure in Small Brown Planthopper, Laodelphax striatellus (Homoptera: Delphacidae)
Authors: Pan Hai-Bo , Li Mu-Yu , Wu Wei , Wang Zheng-Liang , Yu Xiao-Ping 
Published: December 2020

Abstract
Microbiome associated with insects play vital roles in host ecology and physiology. The small brown planthopper (SBPH), Laodelphax striatellus, is a polyphagous insect pest that caused enormous damage to a wide range of cereal crops. Previous studies have assessed the effects of environmental factors, such as antibiotics, insecticide, and geographical habitat on the bacterial composition of SBPH. However, the influence of host plants on the microbial community in SBPH still unclear. Here, we characterized and compared the microbial community in three SBPH populations feeding on rice, barley, and wheat, respectively, using high-throughput amplicon sequencing. Our observations revealed that the microbiome harbored by SBPH was abundant and diverse. Ten phyla comprising 141 genera of bacteria were annotated, and four fungal phyla consisting of 47 genera were assigned. The bacteria belonging to the phylum Proteobacteria were the most prevalent and the fungi with the highest abundance were from the order Hypocreales. Comparative analysis showed that host plants could significantly induce structural changes of SBPH microbiome. Significant differences in abundance were observed in two main bacterial orders (Rickettsiales and Rhodospirillales) and three fungal classes (Sordariomycetes, an unclassified class in Ascomycota and Eurotiomycetes) among three host-adapted SBPH populations. Our results could broaden our understanding of interactions among SBPH, its microbial associates and host plants, and also represented the basis of future SBPH biological management.
The Association Between Mushroom Sciarid Flies, Cultural Techniques, and Green Mold Disease Incidence on Commercial Mushroom Farms
Authors: Coles Phillip S , Mazin Maria , Nogin Galina 
Published: December 2020

AbstractMany growers on mushroom farms producing white and brown varieties of Agaricus bisporus have noticed a potential association between sciarid fly (Lycoriella ingenua) pest populations and green mold (Trichoderma aggressivum) disease expression, and suspect that in addition to other preventative measures, controlling flies may be important to controlling green mold spread. In this study, we examined the association between L. ingenua populations and green mold disease incidence in commercial mushroom farms. In addition, we studied how relevant variables related to farming practices and farm characteristics may affect fly and disease incidence. Our data show that L. ingenua and green mold incidence are associated and that preventative measures such as sanitation and new technologies to reduce human-substrate contact are correlated with reduced green mold incidence. In addition, data indicated farm characteristics such as the proximity to neighboring farms as well as an organic mushroom growing regime are associated with fly incidence.
The Arecibo Ultra-Deep Survey
Authors: Xi Hongwei , Staveley-Smith Lister , For Bi-Qing , Freudling Wolfram , Zwaan Martin , Hoppmann Laura , Liang Fu-Heng , Peng Bo 
Published: December 2020

ABSTRACT
The Arecibo Ultra-Deep Survey (AUDS) is a blind H i survey aimed at detecting galaxies beyond the local Universe in the 21-cm emission line of neutral hydrogen (H i). The Arecibo L-band Feed Array (ALFA) was used to image an area of 1.35 deg2 to a redshift depth of 0.16, using a total on-source integration time of over 700 h. The long integration time and small observation area makes it one of the most sensitive H i surveys, with a noise level of ∼75 μJy per 21.4 kHz (equivalent to 4.5 km s−1 at redshift z = 0). We detect 247 galaxies in the survey, more than doubling the number already detected in AUDS60. The mass range of detected galaxies is $\log (M_{\rm H\,{\small I}}~[h_{70}^{-2}\, {\rm M}_\odot ]) = 6.32\!-\!10.76$. A modified maximum likelihood method is employed to construct an H i mass function (HIMF). The best fitting Schechter parameters are low-mass slope α = −1.37 ± 0.05, characteristic mass $\log (M^*~[h_{70}^{-2}\, {\rm M}_\odot ]) = 10.15 \pm 0.09$, and density $\Phi _* = (2.41 \pm 0.57) \times 10^{-3} h_{70}^3$ Mpc−3 dex−1. The sample was divided into low- and high-redshift bins to investigate the evolution of the HIMF. No change in low-mass slope α was measured, but an increased characteristic mass M*, was noted in the higher redshift sample. Using Sloan Digital Sky Survey data to define relative galaxy number density, the dependence of the HIMF with environment was also investigated in the two AUDS regions. We find no significant variation in α or M*. In the surveyed region, we measured a cosmic H i density $\Omega _{\rm H\,{\small I}} = (3.55 \pm 0.30) \times 10^{-4}\, h_{70}^{-1}$. There appears to be no evolutionary trend in $\Omega _{\rm H\,{\small I}}$ above 2σ significance between redshifts of 0 and 0.16.
Reconfiguring confined magnetic colloids with tunable fluid transport behavior
Authors: Sheng Zhizhi , Zhang Mengchuang , Liu Jing , Malgaretti Paolo , Li Jianyu , Wang Shuli , Lv Wei , Zhang Rongrong , Fan Yi , Zhang Yunmao , Chen Xinyu , Hou Xu 
Published: December 2020

Abstract
Collective dynamics of confined colloids are crucial in diverse scenarios such as self-assembly and phase behavior in materials science, microrobot swarms for drug delivery and microfluidic control. Yet, fine-tuning the dynamics of colloids in microscale confined spaces is still a formidable task due to the complexity of the dynamics of colloidal suspension and to the lack of methodology to probe colloids in confinement. Here, we show that the collective dynamics of confined magnetic colloids can be finely tuned by external magnetic fields. In particular, the mechanical properties of the confined colloidal suspension can be probed in real time and this strategy can be also used to tune microscale fluid transport. Our experimental and theoretical investigations reveal that the collective configuration characterized by the colloidal entropy is controlled by the colloidal concentration, confining ratio and external field strength and direction. Indeed, our results show that mechanical properties of the colloidal suspension as well as the transport of the solvent in microfluidic devices can be controlled upon tuning the entropy of the colloidal suspension. Our approach opens new avenues for the design and application of drug delivery, microfluidic logic, dynamic fluid control, chemical reaction and beyond.
Mycobacterium abscessus Gastric Band Infection Complicated by Immune Reconstitution Inflammatory Syndrome and Cured in the Context of Allogeneic Hematopoietic Stem Cell Transplantation
Authors: An Noralfazita , Purtill Duncan , Boan Peter 
Published: December 2020

Abstract
We present a case of abdominal gastric band–associated Mycobacterium abscessus infection, manifesting after the onset of acute myeloid leukemia, complicated by immune reconstitution inflammatory syndrome (IRIS), and cured while receiving an allogeneic hematopoietic stem cell transplant. IRIS should be considered in less classical situations where there is unexplained clinical deterioration.
Safety of Irradiated Homologous Costal Cartilage Graft in Cleft Rhinoplasty
Authors: Jenny Hillary E. , Siegel Nicholas , Yang Robin , Redett Richard J. 
Published: December 2020

Background:
Autologous cartilage grafts have a low risk of infection and extrusion in cleft rhinoplasty. However, harvesting autologous cartilage involves donor-site morbidity and increased time under anesthesia. Irradiated homologous costal cartilage grafts may be an effective alternative.

Methods:
A retrospective study was performed on patients with a history of cleft lip who underwent rhinoplasty for cleft nasal deformity at Johns Hopkins Hospital from 2009 to 2018. Patients were excluded if their rhinoplasty did not involve a cartilage graft.

Results:
One hundred sixty-five cleft rhinoplasties (patient age, 2 to 72 years; 52 percent female) were performed. Median follow-up time was 256 days; 30 percent were revision operations. Ninety-six procedures (58 percent) used irradiated homologous costal cartilage grafts, with the remaining using autologous cartilage. Complications resulted from 18 procedures (11 percent), seven (10 percent) involving autologous cartilage and 11 (12 percent) involving irradiated homologous costal cartilage. Most autologous cartilage complications (86 percent) required operative intervention, versus seven of 11 (64 percent) for irradiated homologous costal cartilage. Complications associated with irradiated homologous costal cartilage included infection (n = 5), warping (n = 2), and extrusion (n = 1), while two patients with autologous cartilage experienced collapse and one each experienced resorption, warping, and hypertrophic donor-site scarring. There was no difference between groups regarding complication rate or complications requiring operative intervention (p = 0.3 and p = 0.5, respectively).

Conclusions:
Irradiated homologous costal cartilage grafts are equally safe and effective as autologous cartilage for use in cleft rhinoplasty. These grafts are readily available and eliminate donor-site morbidity.

CLINICAL QUESTION/LEVEL OF EVIDENCE:
Therapeutic, III.
Expression, purification and crystallization of the N-terminal Solanaceae domain of the Sw-5b NLR immune receptor
Authors: Li Jia , Xin Jian , Zhao Xinyan , Zhao Yaqian , Wang Tongkai , Xing Weiman , Tao Xiaorong 
Published: December 2020

Plant nucleotide-binding domain and leucine-rich repeat receptors (NLRs) play crucial roles in recognizing pathogen effectors and activating plant immunity. The tomato NLR Sw-5b is a coiled-coil NLR (CC-NLR) immune receptor that confers resistance against tospoviruses, which cause serious economic losses in agronomic crops worldwide. Compared with other CC-NLRs, Sw-5b possesses an extended N-terminal Solanaceae domain (SD). The SD of Sw-5b is critical for recognition of the tospovirus viral movement protein NSm. An SD is also frequently detected in many NLRs from Solanaceae plants. However, no sequences homologous to the SD have been detected in animals or in plants other than Solanaceae. The properties of the SD protein are largely unknown, and thus 3D structural information is vital in order to better understand its role in pathogen perception and the activation of immune receptors. Here, the expression, purification and crystallization of Sw-5b SD (amino acids 1–245) are reported. Native and selenomethionine-substituted crystals of the SD protein belonged to space group P3112, with unit-cell parameters a = 81.53, b = 81.53, c = 98.44 Å and a = 81.63, b = 81.63, c = 98.80 Å, respectively. This is the first report of a structural study of the noncanonical SD domain of the NLR proteins from Solanaceae plants.
The fifth-place metamorphosis: the impact of the outbreak of COVID-19 on typologies of places in post-pandemic Cairo
Authors: Abd Elrahman Ahmed S. 
Published: December 2020

PurposeThe world has recently faced the outbreak of an existential threat. Since December 2019, many aspects of life have changed owing to a devastating pandemic, COVID-19. The second wave started spreading in different parts of the globe. This article focuses on the impact of COVID-19 on Cairo city, regarding three upper-middle-class districts as a case study. Based on a literature review, a theoretical framework is proposed to analyse how residents changed their living, work, and leisure time habits during the outbreak of the pandemic.Design/methodology/approachA retrospective survey was conducted among the residents of three districts to investigate the new living model of adaptive, spontaneous urban and architecture design tactics that transfer people’s actual life, work, and leisure arrangements into future planning considerations.FindingsThe results reveal relevant observations about the adaptation of the existing environments of home, work, and leisure activities. From these results, different considerations and new norms emerge for housing typologies in post-pandemic Cairo.Originality/valueThe conclusions of this study introduced the new term “the fifth place” as a space-time place that could serve as a motivation for urban designers and architects to design space typologies considering the emerging circumstances.