bluuebunny/crossref_metadata_2025_split huggingface dataset:
Imaging of multiple fluorescent proteins in canopies enables synthetic biology in plants
Authors: Rigoulot Stephen B. , Schimel Tayler M. , Lee Jun Hyung , Sears Robert G. , Brabazon Holly , Layton Jessica S. , Li Li , Meier Kerry A. , Poindexter Magen R. , Schmid Manuel J. , Seaberry Erin M. , Brabazon Jared W. , Madajian Jonathan A. , Finander Michael J. , DiBenedetto John , Occhialini Alessandro , Lenaghan Scott C. , Stewart C. Neal 
Published: November 2020

SummaryReverse genetics approaches have revolutionized plant biology and agriculture. Phenomics has the prospect of bridging plant phenotypes with genes, including transgenes, to transform agricultural fields. Genetically encoded fluorescent proteins (FPs) have revolutionized plant biology paradigms in gene expression, protein trafficking and plant physiology. While the first instance of plant canopy imaging of green fluorescent protein (GFP) was performed over 25 years ago, modern phenomics has largely ignored fluorescence as a transgene expression device despite the burgeoning FP colour palette available to plant biologists. Here, we show a new platform for stand‐off imaging of plant canopies expressing a wide variety of FP genes. The platform—the fluorescence‐inducing laser projector (FILP)—uses an ultra‐low‐noise camera to image a scene illuminated by compact diode lasers of various colours, coupled with emission filters to resolve individual FPs, to phenotype transgenic plants expressing FP genes. Each of the 20 FPs screened in plants were imaged at >3 m using FILP in a laboratory‐based laser range. We also show that pairs of co‐expressed fluorescence proteins can be imaged in canopies. The FILP system enabled a rapid synthetic promoter screen: starting from 2000 synthetic promoters transfected into protoplasts to FILP‐imaged agroinfiltrated Nicotiana benthamiana plants in a matter of weeks, which was useful to characterize a water stress‐inducible synthetic promoter. FILP canopy imaging was also accomplished for stably transformed GFP potato and in a split‐GFP assay, which illustrates the flexibility of the instrument for analysing fluorescence signals in plant canopies.
Co‐transplantation of bone marrow‐derived mesenchymal stem cells with hematopoietic stem cells does not improve transplantation outcome in class III beta‐thalassemia major: A prospective cohort study with long‐term follow‐up
Authors: Rostami Tahereh , Maleki Nasrollah , Kasaeian Amir , Nikbakht Mohsen , Kiumarsi Azadeh , Asadollah Mousavi Seyed , Ghavamzadeh Ardeshir 
Published: November 2020

AbstractBone marrow transplantation is the only curative treatment for beta‐thalassemia major. Data on the co‐transplantation of MSCs with HSCs in beta‐thalassemia major patients are scarce. We aimed to investigate the outcomes of thalassemia major patients who underwent bone marrow‐derived MSC co‐transplantation with HSCs compared with those who only received HSCs. This prospective randomized study included patients with class III thalassemia major undergoing HSCT divided randomly into two groups: Thirty‐three patients underwent co‐transplantation of bone marrow‐derived MSCs with HSCs, and 26 patients only received HSCs. Five‐year OS, TFS, TRM, graft rejection rate, and GVHD were estimated. The 5‐year OS was 66.54% (95% CI, 47.8% to 79.9%) in patients who underwent co‐transplantation of MSCs with HSCs vs 76.92% (95% CI, 55.7% to 88.9%) in patients who only received HSCs (P = .54). No significant difference was observed in the 5‐year TFS between the two groups (59.1% vs 69.2%; P = .49). The 5‐year cumulative incidence of TRM was not statistically significant among patients who underwent co‐transplantation of MSCs with HSCs (27.27%) vs those who only received HSCs (19.23%; P = .61). There was no statistically significant difference in graft rejection, acute GvHD, and chronic GvHD between the two groups. Based on our findings, the co‐transplantation of MSCs and HSCs to class III thalassemia major patients does not alter their transplantation outcomes including OS, TFS, rejection rate, transplant‐related mortality, and GvHD.
Coping with inclement weather conditions due to high temperature and water deficit in rice: An insight from genetic and biochemical perspectives
Authors: Rabara Roel C. , Msanne Joseph , Basu Supratim , Ferrer Marilyn C. , Roychoudhury Aryadeep 
Published: November 2020

AbstractClimatic fluctuations, temperature extremes, and water scarcity are becoming increasingly unpredictable with the passage of time. Such environmental atrocities have been the scourge of agriculture over the ages, bringing with them poor harvests and threat of famine. Rice production, owing to its high‐water requirement for cultivation, is highly vulnerable to the threat of changing climate, particularly prolonged drought and high temperature, individually or in combination. Amidst all the abiotic stresses, heat and drought are considered as the most important concurrent stressors, largely affecting rice yield and productivity under the current scenario. Such threats heighten the need for new breeding and cultivation strategies in generating abiotic stress‐resilient rice varieties with better yield potential. Responses of rice to these stresses can be categorized at the morphological, physiological and biochemical levels. This review examines the physiological and molecular mechanism, in the form of up regulation of several defense machineries of rice varieties to cope with drought stress (DS), high temperature stress (HTS), and their combination (DS‐HTS). Genotypic differences among rice varieties in their tolerance ability have also been addressed. The review also appraises research studies conducted in rice regarding various phenotypic traits, genetic loci and response mechanisms to stress conditions to help craft new breeding strategies for improved tolerance to DS and HTS, singly or in combination. The review also encompasses the gene regulatory networks and transcription factors, and their cross‐talks in mediating tolerance to such stresses. Understanding the epigenetic regulation, involving DNA methylation and histone modification during such hostile situations, will also play a crucial role in our comprehensive understanding of combinatorial stress responses. Taken together, this review consolidates current research and available information on promising rice cultivars with desirable traits as well as advocates synergistic and complementary approaches in molecular and systems biology to develop new rice breeds that favorably respond to DS‐HTS‐induced abiotic stress.
Exploring the new dimensions of selenium research to understand the underlying mechanism of its uptake, translocation, and accumulation
Authors: Raina Meenakshi , Sharma Akanksha , Nazir Muslima , Kumari Punam , Rustagi Anjana , Hami Ammarah , Bhau Brijmohan Singh , Zargar Sajad Majeed , Kumar Deepak 
Published: November 2020

AbstractSelenium (Se) is a vital mineral for both plants and animals. It is widely distributed on the earth's crust and is taken up by the plants as selenite or selenate. Plants substantially vary in their physiological response to Se. The amount of Se in edible plants is genetically controlled. Its availability can be determined by measuring its phytoavailability in soil. The low concentration of Se in plants can help them in combating stress, whereas higher concentrations can be detrimental to plant health and in most cases it is toxic. Thus, solving the double‐edged sword problem of nutritional Se deficiency and its elevated concentrations in environment requires a better understanding of Se uptake and metabolism in plants. The studies on Se uptake and metabolism can help in genetic biofortification of Se in plants and also assist in phytoremediation. Moreover, Se uptake and transport, especially biochemical pathways of assimilation and incorporation into proteins, offers striking mechanisms of toxicity and tolerance. These developments have led to a revival of Se research in higher plants with significant break throughs being made in the previous years. This review explores the new dimensions of Se research with major emphasis on key research events related to Se undertaken in last few years. Further, we also discussed future possibilities in Se research for crop improvement.
Prednisolone and tacrolimus versus prednisolone and cyclosporin A to treat polymyositis/dermatomyositis‐associated ILD: A randomized, open‐label trial
Authors: Fujisawa Tomoyuki , Hozumi Hironao , Kamiya Yosuke , Kaida Yusuke , Akamatsu Taisuke , Kusagaya Hideki , Satake Yasuomi , Mori Kazutaka , Mikamo Masashi , Matsuda Hiroyuki , Yokomura Koshi , Koshimizu Naoki , Toyoshima Mikio , Imokawa Shiro , Yasui Hideki , Suzuki Yuzo , Karayama Masato , Furuhashi Kazuki , Enomoto Noriyuki , Nakamura Yutaro , Inui Naoki , Suda Takafumi 
Published: November 2020

ABSTRACTBackground and objectiveThe efficacy of combination therapy with corticosteroids and CNI, TAC and CsA, for PM/DM‐ILD has been described retrospectively. However, it remains unknown which CNI treatment regimens, TAC or CsA regimens, are more effective as initial treatments for patients with PM/DM‐ILD.MethodsWe conducted a prospective multicentre, open‐label, randomized, 52‐week phase 2 trial. Patients with PM/DM‐ILD were randomly allocated to receive PSL plus TAC (TAC group) or PSL plus CsA (CsA group). The primary endpoint was PFS rate in the intention‐to‐treat population at 52 weeks. The secondary endpoints were OS rate at 52 weeks, changes in pulmonary function tests from baseline to 52 weeks and AE.ResultsFifty‐eight patients were randomly assigned to the TAC group (n = 30) and the CsA group (n = 28). The PFS rates at 52 weeks were 87% in the TAC group and 71% in the CsA group (P = 0.16). The OS rates at 52 weeks were 97% in the TAC group and 93% in the CsA group (P = 0.50). The %FVC at 52 weeks in the per‐protocol populations significantly increased in both groups. None of the patients discontinued the treatment due to AE.ConclusionPSL plus TAC treatment may achieve a better short‐term PFS rate compared with PSL plus CsA treatment. Further studies must be conducted to evaluate the long‐term efficacy and safety of such treatment.
Specification and Testing of Hierarchical Ordered Response Models with Anchoring Vignettes
Authors: Greene William H. , Harris Mark N. , Knott Rachel J. , Rice Nigel 
Published: November 2020

AbstractCollection and analysis of self-reported information on an ordered Likert scale is ubiquitous across the social sciences. Inference from such analyses is valid where the response scale employed means the same thing to all individuals. That is, if there is no differential item functioning (DIF) present in the data. A priori this is unlikely to hold across all individuals and cohorts in any sample of data. For this reason, anchoring vignettes have been proposed as a way to correct for DIF when individuals self-assess their health (or well-being, or satisfaction levels, or disability levels, etc.) on an ordered categorical scale. Using an example of self-assessed pain, we illustrate the use of vignettes to adjust for DIF using the compound hierarchical ordered probit model (CHOPIT). The validity of this approach relies on the two underlying assumptions of response consistency (RC) and vignette equivalence (VE). Using a minor amendment to the specification of the standard CHOPIT model, we develop easy-to-implement score tests of the null hypothesis of RC and VE both separately and jointly. Monte Carlo simulations show that the tests have good size and power properties in finite samples. We illustrate the use of the tests by applying them to our empirical example. The tests should aid more robust analyses of self-reported survey outcomes collected alongside anchoring vignettes.
Fathers' lived experiences of caring for their preterm infant at the neonatal unit and in neonatal home care after the introduction of a parental support programme: A phenomenological study
Authors: Hemle Jerntorp Sofia , Sivberg Bengt , Lundqvist Pia 
Published: November 2020

AimTo describe fathers’ lived experiences of caring for their preterm infant at the neonatal unit and in hospital‐based neonatal home care after the introduction of an individualised parental support programme.MethodSeven fathers from a larger study were included due to their rich narrative interviews about the phenomenon under study. The interviews took place after discharge from neonatal home care. The theoretical perspective was descriptive phenomenology. Giorgi’s outlines for phenomenological analysis were used. Findings The general structure of the phenomenon was described by the following four themes: The partner was constantly present in the fathers’ minds; The fathers’ were occupied by worries and concerns; The fathers felt that they were an active partner to the professionals and Getting the opportunity to take responsibility. The fathers were satisfied with the support and treatment during their infant’s hospitalisation. However, there were times when they felt excluded and not fully responsible for their infant. The fathers prioritised the mother, thus ignoring their own needs. Furthermore, they worried about their infant’s health and the alteration of their parental role. Neonatal home care was experienced as a possibility to regain control over family life.ConclusionThe general structure of fathers’ experiences highlights the importance of professionals becoming more responsive to fathers’ needs and to tailoring support to fathers by focusing on their individual experiences and needs.
Reduced sensitivity of PLASMIC and French scores for the diagnosis of thrombotic thrombocytopenic purpura in older individuals
Authors: Liu Angela , Dhaliwal Noor , Upreti Harshvardhan , Kasmani Jamil , Dane Kathryn , Moliterno Alison , Braunstein Evan , Brodsky Robert , Chaturvedi Shruti 
Published: November 2020

AbstractBackgroundThrombotic thrombocytopenic purpura (TTP) is a life‐threatening disorder characterized by thrombocytopenia, microangiopathic hemolysis, and ischemic organ failure. The PLASMIC and French TTP scores can help guide clinical decisions when ADAMTS13 testing is not immediately available. Older individuals often present atypically, but the impact of age on these tools is not known.Study Design and MethodsWe calculated the sensitivity and specificity of the PLASMIC and French TTP scores in patients enrolled in the Johns Hopkins thrombotic microangiopathy (TMA) registry.ResultsOf 257 patients with TMA enrolled in the registry, we excluded patients less than 18 years of age (n = 19), with prior TMA (n = 81) or who initially presented at another hospital (n = 25). The remaining 132 patients (75 with TTP and 57 with other TMA) were analyzed. Sensitivity of a French score of 2 decreased with age and was 72.2%, 61.5%, and 46.2% for ages 18 to 39, 40 to 59, and ≥ 60 years old, respectively. A PLASMIC score ≥ 5 had higher sensitivity than the French score but this also decreased with age; sensitivity was 91.4% (95% confidence interval [CI], 76.9‐98.2), 78.3% (95% CI, 56.3‐92.5), and 76.9% (95% CI, 46.2‐95.0) for patients 18 to 39, 40 to 59, and ≥ 60 years old, respectively. Older patients had higher platelet counts and serum creatinine than the youngest group, contributing to the loss in sensitivity.ConclusionThe PLASMIC and French TTP scores have reduced sensitivity at age ≥ 60 years and are less reliable in identifying TTP in older patients. A high index of suspicion and availability of rapid ADAMTS13 assays is required to correctly diagnose all patients with TTP.
Concatenated data and dense taxon sampling clarify phylogeny and ecological transitions within Hypotricha
Authors: Xu Jiahui , Wilkinson Mark , Chen Miaoying , Zhang Qi , Yang Ran , Yi Zhenzhen 
Published: November 2020

AbstractCiliates are single‐cell eukaryotes playing important roles in various ecosystems. Phylogenetic relationships within Hypotricha, one of the most polymorphic and highly derived ciliate groups, remain uncertain. Previous studies suggested that low genetic divergence might be the reason for poorly supported SSU rDNA tree topologies, despite the high morphological diversity of this group. In this study, we substantially increase the number of available hypotrich LSU rDNA gene sequences by the addition of 857 environmental sequences, and we investigate whether a more divergent gene and dense taxon sampling could better resolve the phylogeny of Hypotricha and shed light on the patterns of ecological transitions in the evolutionary history of the group. Pairwise distances of LSU rDNA sequences are generally higher than those for SSU rDNA within each order of Hypotricha, and both concatenated rDNA and LSU rDNA trees provide more resolution for hypotrich phylogenetics. Three traditional (morphology based) hypotrich orders, Stichotrichida, Sporadotrichida and Urostylida, are polyphyletic, but a monophyletic core Urostylida are found in our trees. A brackish/marine environment is inferred as ancestral within Hypotricha, with subsequent ecological diversification into freshwater, soil environments before the origin of major clades and some transitions back to the marine. However, inferred ecological transitions in Hypotricha are influenced by genes, methods and taxa.
Ordered discrete and continuous Z-numbers
Authors: Abdullahi Mujahid , Ahmad Tahir , Ramachandran Vinod 
Published: November 2020

Both discrete and continuous Z-numbers are pairs of discrete and continuous fuzzy numbers. Even though the later are ordered, this do not simply imply the discrete and continuous Z-numbers are ordered as well. This paper proposed the idea of ordered discrete and continuous Z-numbers, which are necessary properties for constructing temporal Z-numbers. Linear ordering relation, , is applied between set of discrete or continuous Z-numbers and any arbitrary ordered subset of to obtain the properties.
Symptoms, adverse events, and outcomes in the use of medicinal cannabis in children and adolescents with autism spectrum disorder: a scoping review protocol
Authors: Fletcher Sarah , Pawliuk Colleen , Ip Angie , Oberlander Tim , Siden Harold 
Published: November 2020

ABSTRACT

Objective:
The objective of this scoping review is to map and identify the symptoms, adverse events, and outcomes in the use of medicinal cannabis in children and adolescents with autism spectrum disorder.

Introduction:
Autism spectrum disorder is a neurodevelopmental disorder that impacts social communication and social interaction, and is associated with restrictive and repetitive behaviors and interests. Medicinal cannabis has become a potential area of interest for parents for the treatment of autism spectrum disorder symptoms in their children. There is some evidence that cannabinoids may be involved in autism spectrum disorder, laying a potential foundation for medicinal cannabis utility; however, previous reviews did not identify any clinical research on this topic.

Inclusion criteria:
This scoping review will consider all published and unpublished studies that investigate the use of medicinal cannabis in autism spectrum disorder, where at least 50% of the participants have a diagnosis of autism spectrum disorder and at least 50% of the study population is 0 to 18 years of age, or where pediatric data are reported separately. Studies undertaken in any context (hospital or community) and in any geographic location will be included.

Methods:
We will search MEDLINE, Embase, CINAHL, PsycINFO, Web of Science, and Google Scholar, and the gray literature sources for studies. Two independent team members will screen titles and abstracts, review full texts for potential inclusion, and extract data for all studies. The results will be presented as a narrative synthesis and in tabular form.
Stress Concentration Factors at Welded Connections Between Tubular Sections and a Transverse Plate
Authors: Lotsberg Inge 
Published: November 2020

Abstract
Welded connections between tubulars and transverse plates are used to build together part structures such as support of flare towers and wind turbines and deck structures on foundation structures. They are used in traditional jacket structures for oil and gas production and in support structures for wind turbines. These welded connections are typically made from the outside resulting in a weld root on the inside and a weld toe on the outside. Different S–N curves apply to these positions; therefore, stresses both on the inside and the outside are needed for fatigue assessment. From the actual design, it is noted that the thicknesses of the tubulars being connected can be different. Also, the diameters of the tubulars can be different. In addition, the fabrication is associated with some fabrication tolerances that provide local eccentricity moments to be transferred through these connections. In this paper, analytical expressions for stress concentration factors for these connections are presented based on classical shell theory. The stress concentration is dependent on the radial restraint from the transverse plate and the eccentricity of the neutral axes in the tubular thickness of one tubular relative to the other tubular. The superposition principle is used to derive resulting stress concentration factors for the inside weld root and the outside weld toe.
Simulation-Driven Deep Learning Approach for Wear Diagnostics in Hydrodynamic Journal Bearings
Authors: Gecgel Ozhan , Dias João Paulo , Ekwaro-Osire Stephen , Alves Diogo Stuani , Machado Tiago Henrique , Daniel Gregory Bregion , de Castro Helio Fiori , Cavalca Katia Lucchesi 
Published: November 2020

Abstract
Early diagnosis in rotating machinery has been a challenge when looking toward the concept of intelligent machines. A crucial and critical component in these systems is the lubricated journal bearing, subjected to wear fault by abrasive removing of material in its inner wall, mainly during run-ups and run-downs. In extreme conditions, wear faults can cause unexpected shutdowns in rotating systems. Consequently, advanced condition monitoring is an essential procedure in the wear diagnosis of journal bearings. Although an increasing number of data-driven condition monitoring approaches for rotating machines have been proposed in the past decade, they mostly rely on substantial amounts of experimental data for training, which is expensive and time-consuming to obtain. The objective of this work is to develop a framework using a deep learning algorithm to classify wear faults in hydrodynamic journal bearings using simulated vibrations signals. Numerically simulated data sets under different wear severity levels and operating conditions were used to train and test the diagnostics framework. The results show that the proposed framework can be a promising tool to diagnose wear faults in journal bearings.