bluuebunny/crossref_metadata_2025_split huggingface dataset:
Hypoglossal Nerve Stimulator Explantation: A Case Series
Authors: Patel Anuj U. , Yalamanchi Pratyusha , Peddireddy Nithin S. , Hoff Paul T. 
Published: June 2022

Hypoglossal nerve stimulation (HGNS) has emerged as a successful surgical treatment strategy for moderate to severe obstructive sleep apnea in patients failing first‐line positive airway pressure therapy. HGNS explantation due to adverse events such as pain and infection is rare and has yet to be well described. Here, our correspondence describes the first case series of patients who have undergone explantation of the Inspire HGNS system. Five patients were identified who underwent HGNS explantation. Three patients underwent explantation due to magnetic resonance imaging (MRI) incompatibility. One patient underwent explantation due to poor cosmesis. One patient underwent explantation due to surgical site infection. Average operative explant time was 163 minutes. MRI incompatibility, poor cosmesis, and device‐related infection are reasons for HGNS explantation. Future need for MRI or chest wall surgery should be considered in patients being evaluated for HGNS implants.
Characterisation of the progression of salts in walls of earthen architecture heritage
Authors: Tavares Alice , Magalhães M. Clara F. , Soares Rosário , Costa Aníbal 
Published: June 2022

AbstractTwo hundred years (1750–1950) of earthen architecture represents an important period of construction in the central region of Portugal. Earthen architecture is usually built close to the coast or to rivers and placed in sandy ground. The impact of rising damp is a general problem and efflorescences are a common cause of damage decay. This problem was studied in a building with two types of earthen construction, adobe masonry walls and formed masonry walls. The aim of this research was to characterise the conditions for the appearance and phase transitions of thénardite and mirabilite, and determine how to prevent progression of salt effects in the two types of wall to support future conservation measures. Laboratory capillarity and porosimetry tests with dolomitic air lime mortar and hygrothermal monitoring were pursued along within situtests. Visual assessment showed that the progression of salts depends on the composition of the earthen materials. To understand these differences, all crystalline solid phases were analysed by powder X-ray diffraction, and building interior hygrothermal conditions were monitored. An investigation into the influence of surface lime water painting and sacrificial mortar application on the crystallisation of sodium sulfates concluded that these also depend on the wall's composition. Data allowed us to conclude that inside the building the temperature and humidity [relative humidity (RH = 100pw/p°w> 70)] conditions led to the adobe breakdown by the fast conversion from thénardite to mirabilite. Therefore, contact with wet atmospheres should be avoided and interior hygrothermal conditions should be controlled. Laboratory andin situtests showed that the environmental conditions of the spaces had effects on the results. The results contribute to understanding of the salt progression and pattern of decay, as well as supporting future recommendations for building conservation, based on the identification of environmental conditions proper to their occurrence.
Enasidenib vs conventional care in older patients with late-stage mutant-IDH2 relapsed/refractory AML: a randomized phase 3 trial
Authors: de Botton Stéphane , Montesinos Pau , Schuh Andre C. , Papayannidis Cristina , Vyas Paresh , Wei Andrew H. , Ommen Hans , Semochkin Sergey , Kim Hee-Je , Larson Richard A. , Koprivnikar Jaime , Frankfurt Olga , Thol Felicitas , Chromik Jörg , Byrne Jenny , Pigneux Arnaud , Thomas Xavier , Salamero Olga , Vidriales Maria Belen , Doronin Vadim , Döhner Hartmut , Fathi Amir T. , Laille Eric , Yu Xin , Hasan Maroof , Martin-Regueira Patricia , DiNardo Courtney D. 
Published: June 2022

Abstract
This open-label, randomized, phase 3 trial (NCT02577406) compared enasidenib, an oral IDH2 (isocitrate dehydrogenase 2) inhibitor, with conventional care regimens (CCRs) in patients aged ≥60 years with late-stage, mutant-IDH2 acute myeloid leukemia (AML) relapsed/refractory (R/R) to 2 or 3 prior AML-directed therapies. Patients were first preselected to a CCR (azacitidine, intermediate-dose cytarabine, low-dose cytarabine, or supportive care) and then randomized (1:1) to enasidenib 100 mg per day or CCR. The primary endpoint was overall survival (OS). Secondary endpoints included event-free survival (EFS), time to treatment failure (TTF), overall response rate (ORR), hematologic improvement (HI), and transfusion independence (TI). Overall, 319 patients were randomized to enasidenib (n = 158) or CCR (n = 161). The median age was 71 years, median (range) enasidenib exposure was 142 days (3 to 1270), and CCR was 36 days (1 to 1166). One enasidenib (0.6%) and 20 CCR (12%) patients received no randomized treatment, and 30% and 43%, respectively, received subsequent AML-directed therapies during follow-up. The median OS with enasidenib vs CCR was 6.5 vs 6.2 months (HR [hazard ratio], 0.86; P = .23); 1-year survival was 37.5% vs 26.1%. Enasidenib meaningfully improved EFS (median, 4.9 vs 2.6 months with CCR; HR, 0.68; P = .008), TTF (median, 4.9 vs 1.9 months; HR, 0.53; P &lt; .001), ORR (40.5% vs 9.9%; P &lt;.001), HI (42.4% vs 11.2%), and red blood cell (RBC)-TI (31.7% vs 9.3%). Enasidenib safety was consistent with prior reports. The primary study endpoint was not met, but OS was confounded by early dropout and subsequent AML-directed therapies. Enasidenib provided meaningful benefits in EFS, TTF, ORR, HI, and RBC-TI in this heavily pretreated older mutant-IDH2 R/R AML population.
A Novel Method for Type Synthesis of Parallel Mechanism Without Parasitic Motion Based on 2R1T Parallel Mechanism with Rotational Bifurcation
Authors: Qin Jinghan , Yu Chunzhan , Sun Zhibo , Cao Lei 
Published: June 2022

AbstractThe parasitic motion has been widely recognized as the major drawback of the parallel mechanism. Therefore a class of 2R1T PMs (parallel mechanism) without parasitic motion has been synthesized. However, these PMs can only rotate around two axes in sequential order. It decreases the performance of the balancing adjustment of the end-effector. In this paper, a family of 2R1T PMs without parasitic motion was reconstructed by using a novel method based on the remarkable properties of rotational bifurcation mechanisms, which can rotate in sequential order. Furthermore, some PMs rotating around two continuous axes in an arbitrary order are established by adding single joints. Taking the practicability of these structures into consideration, the workspace of 3-PRPS PM was analyzed as an example. Moreover, this study explores the practical application of the PMs without parasitic motion in developing balance mechanisms in rough-terrain fire-fighting robots. During the climbing process, the tank is adjusted to be parallel to the horizontal plane in real-time. It is proved that this kind of structure realizes continuous rotation around two rotation axes on the premise of no parasitic motion.
CRISPR/Cas9 gene editing: a new approach for overcoming drug resistance in cancer
Authors: Vaghari-Tabari Mostafa , Hassanpour Parisa , Sadeghsoltani Fatemeh , Malakoti Faezeh , Alemi Forough , Qujeq Durdi , Asemi Zatollah , Yousefi Bahman 
Published: June 2022

AbstractThe CRISPR/Cas9 system is an RNA-based adaptive immune system in bacteria and archaea. Various studies have shown that it is possible to target a wide range of human genes and treat some human diseases, including cancers, by the CRISPR/Cas9 system. In fact, CRISPR/Cas9 gene editing is one of the most efficient genome manipulation techniques. Studies have shown that CRISPR/Cas9 technology, in addition to having the potential to be used as a new therapeutic approach in the treatment of cancers, can also be used to enhance the effectiveness of existing treatments. Undoubtedly, the issue of drug resistance is one of the main obstacles in the treatment of cancers. Cancer cells resist anticancer drugs by a variety of mechanisms, such as enhancing anticancer drugs efflux, enhancing DNA repair, enhancing stemness, and attenuating apoptosis. Mutations in some proteins of different cellular signaling pathways are associated with these events and drug resistance. Recent studies have shown that the CRISPR/Cas9 technique can be used to target important genes involved in these mechanisms, thereby increasing the effectiveness of anticancer drugs. In this review article, studies related to the applications of this technique in overcoming drug resistance in cancer cells will be reviewed. In addition, we will give a brief overview of the limitations of the CRISP/Cas9 gene-editing technique.
A new approach fits multivariate genomic prediction models efficiently
Authors: Xavier Alencar , Habier David 
Published: June 2022

AbstractBackgroundFast, memory-efficient, and reliable algorithms for estimating genomic estimated breeding values (GEBV) for multiple traits and environments are needed to make timely decisions in breeding. Multivariate genomic prediction exploits genetic correlations between traits and environments to increase accuracy of GEBV compared to univariate methods. These genetic correlations are estimated simultaneously with GEBV, because they are specific to year, environment, and management. However, estimating genetic parameters is computationally demanding with restricted maximum likelihood (REML) and Bayesian samplers, and canonical transformations or orthogonalizations cannot be used for unbalanced experimental designs.MethodsWe propose a multivariate randomized Gauss–Seidel algorithm for simultaneous estimation of model effects and genetic parameters. Two previously proposed methods for estimating genetic parameters were combined with a Gauss–Seidel (GS) solver, and were calledTilde-Hat-GS (THGS) andPseudo-Expectation-GS (PEGS). Balanced and unbalanced experimental designs were simulated to compare runtime, bias and accuracy of GEBV, and bias and standard errors of estimates of heritabilities and genetic correlations of THGS, PEGS, and REML. Models with 10 to 400 response variables, 1279 to 42,034 genetic markers, and 5990 to 1.85 million observations were fitted.ResultsRuntime of PEGS and THGS was a fraction of REML. Accuracies of GEBV were slightly lower than those from REML, but higher than those from the univariate approach, hence THGS and PEGS exploited genetic correlations. For 500 to 600 observations per response variable, biases of estimates of genetic parameters of THGS and PEGS were small, but standard errors of estimates of genetic correlations were higher than for REML. Bias and standard errors decreased as sample size increased. For balanced designs, GEBV and estimates of genetic correlations from THGS were unbiased when only an intercept and eigenvectors of genotype scores were fitted.ConclusionsTHGS and PEGS are fast and memory-efficient algorithms for multivariate genomic prediction for balanced and unbalanced experimental designs. They are scalable for increasing numbers of environments and genetic markers. Accuracy of GEBV was comparable to REML. Estimates of genetic parameters had little bias, but their standard errors were larger than for REML. More studies are needed to evaluate the proposed methods for datasets that contain selection.
miRNA-mRNA analysis of sheep adrenal glands reveals the network regulating reproduction
Authors: Chen Yulin , Liu Yufang , Chu Mingxing 
Published: June 2022

Abstract
Background
The adrenal gland participates in the process of sheep reproduction. MicroRNAs (miRNAs), endogenous small noncoding RNAs, regulate gene expression at the posttranscriptional level. However, the miRNA-mRNA network profile of adrenal glands relating to reproduction in sheep is still not well-studied. As sheep with FecBBB genotype show higher lambing number compare with the sheep with FecB++ genotype. This research aims to compare gene expression by small RNA-seq in adrenal tissues at follicular (F) and luteal (L) phases in FecBBB (MM) and FecB++ (ww) sheep. After analysis of gene expression, significant differentially expressed microRNAs (DEMs) and corresponding target genes were identified.

Results
A total of 180 miRNAs were found in this study, of which 19 DEMs were expressed in the four comparison groups (MM_F_A vs. MM_L_A, MM_F_A vs. ww_F_A, MM_L_A vs. ww_L_A, ww_F_A vs. ww_L_A). Subsequently, 354 target genes of 19 DEMs were predicted by integrated analysis. Cluster analysis was performed by K_means_cluster, and the expression patterns of these DEMs were separated into four subclusters. Functional analysis of target genes was performed by Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG). The results indicated that the target genes were involved mainly in the Notch signaling pathway, signal transduction, cell communication, innate immune response and amino acid metabolism. Specifically, the Notch signaling pathway, biosynthetic process and metabolic process of pyrimidine nucleotide and amino acid metabolism appear to play key regulatory roles in the sheep fertility trait. Furthermore, miRNA-mRNA interaction networks were constructed by differentially expressed genes combined with our previous study of transcriptome data. The results showed that several key genes, including TDRD3, ANAPC7, CCNL2, BRD2 and MUT, were related to the transformation from the follicular phase to the luteal phase. PLAC8L1, NFAT5, DDX24 and MBD1 were related to the high fecundity of small tail Han sheep.

Conclusions
In this study, the miRNA transcriptome profile was identified, and miRNA-mRNA interaction networks were constructed in adrenal gland tissue of small tail Han sheep, the interaction between miR-370-3p and its targets were considered to play a major role in the reproduction regulation process. The results enriched the number of known miRNAs in adrenal glands and provided novel ideas and further information to demonstrate posttranscriptional regulation mechanisms at follicular and luteal phases in different genotypes of small tail Han sheep.
The extensive transgenerational transcriptomic effects of ocean acidification on the olfactory epithelium of a marine fish are associated with a better viral resistance
Authors: Cohen-Rengifo Mishal , Danion Morgane , Gonzalez Anne-Alicia , Bégout Marie-Laure , Cormier Alexandre , Noël Cyril , Cabon Joëlle , Vitré Thomas , Mark Felix C. , Mazurais David 
Published: June 2022

Abstract
Background
Progressive CO2-induced ocean acidification (OA) impacts marine life in ways that are difficult to predict but are likely to become exacerbated over generations. Although marine fishes can balance acid–base homeostasis efficiently, indirect ionic regulation that alter neurosensory systems can result in behavioural abnormalities. In marine invertebrates, OA can also affect immune system function, but whether this is the case in marine fishes is not fully understood. Farmed fish are highly susceptible to disease outbreak, yet strategies for overcoming such threats in the wake of OA are wanting. Here, we exposed two generations of the European sea bass (Dicentrarchus labrax) to end-of-century predicted pH levels (IPCC RCP8.5), with parents (F1) being exposed for four years and their offspring (F2) for 18 months. Our design included a transcriptomic analysis of the olfactory rosette (collected from the F2) and a viral challenge (exposing F2 to betanodavirus) where we assessed survival rates.

Results
We discovered transcriptomic trade-offs in both sensory and immune systems after long-term transgenerational exposure to OA. Specifically, RNA-Seq analysis of the olfactory rosette, the peripheral olfactory organ, from 18-months-old F2 revealed extensive regulation in genes involved in ion transport and neuronal signalling, including GABAergic signalling. We also detected OA-induced up-regulation of genes associated with odour transduction, synaptic plasticity, neuron excitability and wiring and down-regulation of genes involved in energy metabolism. Furthermore, OA-exposure induced up-regulation of genes involved in innate antiviral immunity (pathogen recognition receptors and interferon-stimulated genes) in combination with down-regulation of the protein biosynthetic machinery. Consistently, OA-exposed F2 challenged with betanodavirus, which causes damage to the nervous system of marine fish, had acquired improved resistance.

Conclusion
F2 exposed to long-term transgenerational OA acclimation showed superior viral resistance, though as their metabolic and odour transduction programs were altered, odour-mediated behaviours might be consequently impacted. Although it is difficult to unveil how long-term OA impacts propagated between generations, our results reveal that, across generations, trade-offs in plastic responses is a core feature of the olfactory epithelium transcriptome in OA-exposed F2 offspring, and will have important consequences for how cultured and wild fish interacts with its environment.
Genetic diversity and population structure of Caryopteris mongholica revealed by reduced representation sequencing
Authors: Ji Ruoxuan , Yu Xiao , Ren Tianmeng , Chang Yuan , Li Zheng , Xia Xinli , Yin Weilun , Liu Chao 
Published: June 2022

Abstract
Background
Caryopteris mongholica Bunge is a rare broad-leaved shrub distributed in the desert and arid regions of Mongol and North China. Due to land reclamation, natural habitat deterioration and anthropogenic activities in recent years, the wild resources have sharply reduced. To effectively protect and rationally use it, we investigated the genetic diversity and population structure from 18 populations across the range of C. mongholica in China by reduced representation sequencing technology.

Results
We found the overall average values of observed heterozygosity (Ho), expected heterozygosity (He), and average nucleotide diversity (π) were 0.43, 0.35 and 0.135, respectively. Furthermore, the NM17 population exhibited higher genetic diversity than other populations. The phylogenetic tree, principal component analysis (PCA) and structure analysis showed the sampled individuals clustered into two main groups. The NM03 population, with individuals clustered in both groups, may be a transitional population located between the two groups. In addition, most genetic variation existed within populations (90.97%) compared to that among the populations (9.03%). Interestingly, geographic and environmental distances were almost equally important to the observed genetic differences. Redundancy analysis (RDA) identified optical radiation (OR), minimum temperature (MIT) and mean annual precipitation (MAP) related variables as the most important environment factors influencing genetic variation, and the importance of MIT was also confirmed in the latent factor mixed models (LFMM).

Conclusions
The results of this study facilitate research on the genetic diversity of C. mongholica. These genetic features provided vital information for conserving and sustainably developing the C. mongholica genetic resources.
Anatomy of diagnosis in a clinical encounter: how clinicians discuss uncertainty with patients
Authors: Khazen Maram , Sullivan Erin E. , Ramos Jason , Mirica Maria , Linzer Mark , Schiff Gordon D. , Olson Andrew P. J. 
Published: June 2022

Abstract
Background
Studies consider the clinical encounter as linear, comprising six phases (opening, problem presentation, history-taking, physical examination, diagnosis, treatment and closing). This study utilizes formal conversation analysis to explore patient-physician interactions and understanding diagnostic utterances during these phases.

Methods
This study is a qualitative sub-analysis that explores how the diagnosis process, along with diagnostic uncertainty, are addressed during 28 urgent care visits. We analyzed physicians’ hypothesis-generation process by focusing on: location of diagnostic utterances during the encounter; whether certain/uncertain diagnostic utterances were revised throughout the encounter; and how physicians tested their hypothesis-generation and managed uncertainty. We recruited 7 primary care physicians (PCPs) and their 28 patients from Brigham and Women’s Hospital (BWH) in 3 urgent care settings. Encounters were audiotaped, transcribed, and coded using NVivo12 qualitative data analysis software. Data were analyzed inductively and deductively, using formal content and conversation analysis.

Results
We identified 62 diagnostic communication utterances in 12 different clinical situations. In most (24/28, 86%) encounters, the diagnosis process was initiated before the diagnosis phase (57% during history taking and 64% during physical examination). In 17 encounters (61%), a distinct diagnosis phase was not observed. Findings show that the diagnosis process is nonlinear in two ways. First, nonlinearity was observed when diagnostic utterances occurred throughout the encounter, with the six encounter phases overlapping, integrating elements of one phase with another. Second, nonlinearity was noted with respect to the resolution of diagnostic uncertainty, with physicians acknowledging uncertainty when explaining their diagnostic reasoning, even during brief encounters.

Conclusions
Diagnosis is often more interactive and nonlinear, and expressions of diagnostic assessments can occur at any point during an encounter, allowing more flexible and potentially more patient-centered communication. These findings are relevant for physicians’ training programs and helping clinicians improve their communication skills in managing uncertain diagnoses.
Streptococcal and Staphylococcus aureus prosthetic joint infections: are they really different?
Authors: Kherabi Yousra , Zeller Valérie , Kerroumi Younes , Meyssonnier Vanina , Heym Beate , Lidove Olivier , Marmor Simon 
Published: June 2022

Abstract
Background
Staphylococci and streptococci are the most frequent pathogens isolated from prosthetic joint infections (PJIs). The aim of this study was to analyze the outcome of streptococcal and methicillin-susceptible Staphylococcus aureus (MSSA) PJIs.

Methods
All monomicrobial streptococcal and MSSA PJIs managed in a French Referral Center (2010–2017) were sampled from the prospective PJIs cohort study. The primary outcome of interest was the cumulative reinfection-free survival at a 2-year follow-up.

Results
Two hundred and nine patients with 91 streptococcal and 132 staphylococcal infections were analyzed. Patients with streptococcal PJI were older, and infection was more frequently hematogenous. Reinfection-free survival rates at 2-years after all treatment strategies were higher for patients with streptococcal PJI (91% vs 81%; P = .012), but differed according to the strategy. After exchange arthroplasty, no outcome differences were observed (89% vs 93%; P = .878); after debridement, antibiotics and implant retention (DAIR), the reinfection-free survival rate was higher for patients with streptococcal PJI (87% vs 60%; P = .062). For patients managed with prolonged suppressive antibiotic therapy (SAT) alone, those with streptococcal PJIs had a 100% infection-free survival (100% vs 31%; P < .0001).

Conclusions
Reinfection-free survival after DAIR and SAT was better for patients with streptococcal than those with MSSA PJIs. No difference was observed after prosthesis exchange.