bluuebunny/crossref_metadata_2025_split huggingface dataset:
Genome-wide identification, phylogenetic and expression pattern analysis of HSF family genes in the Rye (Secale cereale L.)
Authors: Ren Yanyan , Ma Rui , Fan Yue , Feng Liang , Xie Muhua , Chen Long , Yang Hao , Wei Xiaobao , Wang Xintong , Liu Kouhan , Cheng Peng , Wang Baotong 
Published: March 2023

Abstract
Background
Heat shock factor (HSF), a typical class of transcription factors in plants, has played an essential role in plant growth and developmental stages, signal transduction, and response to biotic and abiotic stresses. The HSF genes families has been identified and characterized in many species through leveraging whole genome sequencing (WGS). However, the identification and systematic analysis of HSF family genes in Rye is limited.
Results
In this study, 31 HSF genes were identified in Rye, which were unevenly distributed on seven chromosomes. Based on the homology of A. thaliana, we analyzed the number of conserved domains and gene structures of ScHSF genes that were classified into seven subfamilies. To better understand the developmental mechanisms of ScHSF family during evolution, we selected one monocotyledon (Arabidopsis thaliana) and five (Triticum aestivum L., Hordeum vulgare L., Oryza sativa L., Zea mays L., and Aegilops tauschii Coss.) specific representative dicotyledons associated with Rye for comparative homology mapping. The results showed that fragment replication events modulated the expansion of the ScHSF genes family. In addition, interactions between ScHSF proteins and promoters containing hormone- and stress-responsive cis-acting elements suggest that the regulation of ScHSF expression was complex. A total of 15 representative genes were targeted from seven subfamilies to characterize their gene expression responses in different tissues, fruit developmental stages, three hormones, and six different abiotic stresses.
Conclusions
This study demonstrated that ScHSF genes, especially ScHSF1 and ScHSF3, played a key role in Rye development and its response to various hormones and abiotic stresses. These results provided new insights into the evolution of HSF genes in Rye, which could help the success of molecular breeding in Rye.
The gut microbiota in gallstone patients during the perioperative period
Authors: Lai Zhiyong , Cheng Meng , Niu Zhiqiang , Zhang Haiyang , Huo Chenda , Bai Zhongyuan , Xue Jiajun , Wei Zhigang , Li Huiyu , Xu Jun 
Published: March 2023

Abstract
Cholelithiasis disease is a worldwide problem, and many patients undergo surgery yearly. The perioperative period's pathophysiological alterations may have an impact on the features of gut microbial populations. We examined the gut fecal microbial community signatures by conducting 16S rRNA sequencing. The samples were analyzed to assess the alpha and beta diversities of different groups and compared the abundance of bacteria at different levels among the groups. There was less of an antagonistic effect on the inferior bacteria in gallstone patients due to the dominant bacteria losing their advantages in the gut. Genus Escherichia-Shigella, Enterococcus, and Erysipelatoclostridium, which multiplied in the intestines, showed the notable modifications. There were low abundances of genus such as Faecalibacterium, Lachnospira, and Roseburia. Compared the intestinal flora of laparoscopic common bile duct exploration two months with the preoperative period, Bacteroides was significantly lower, while Escherichia-Shigella was higher. The microbial composition is markedly altered from that prior to surgery after two months after laparoscopic common bile duct exploration, but there is no clear hallmark of microbiota linked to the other perioperative phase. The intestinal flora of patients after cholecystectomy did not differ significantly from that of colorectal cancer patients.
Impact of voluntary testing on infectious disease epidemiology: A game theoretic approach
Authors: Pepiot Amandine , Supervie Virginie , Breban Romulus 
Published: March 2023

Abstract
The World Health Organization recommends test-and-treat interventions to curb and even eliminate epidemics of HIV, viral hepatitis, and sexually transmitted infections (e.g., chlamydia, gonorrhea, syphilis and trichomoniasis). Epidemic models show these goals are achievable, provided the participation of individuals in test-and-treat interventions is sufficiently high. We combine epidemic models and game theoretic models to describe individual’s decisions to get tested for infectious diseases within certain epidemiological contexts, and, implicitly, their voluntary participation to test-and-treat interventions. We develop three hybrid models, to discuss interventions against HIV, HCV, and sexually transmitted infections, and the potential behavioral response from the target population. Our findings are similar across diseases. Particularly, individuals use three distinct behavioral patterns relative to testing, based on their perceived costs for testing, besides the payoff for discovering their disease status. Firstly, if the cost of testing is too high, then individuals refrain from voluntary testing and get tested only if they are symptomatic. Secondly, if the cost is moderate, some individuals will test voluntarily, starting treatment if needed. Hence, the spread of the disease declines and the disease epidemiology is mitigated. Thirdly, the most beneficial testing behavior takes place as individuals perceive a per-test payoff that surpasses a certain threshold, every time they get tested. Consequently, individuals achieve high voluntary testing rates, which may result in the elimination of the epidemic, albeit on temporary basis. Trials and studies have attained different levels of participation and testing rates. To increase testing rates, they should provide each eligible individual with a payoff, above a given threshold, each time the individual tests voluntarily.
Mock-Lie bialgebras and mock-Lie analogue of the classical Yang-Baxter equation
Authors: Benali Karima , Chtioui Taoufik , Hajjaji Atef , Mabrouk Sami 
Published: March 2023

Abstract
The aim of this paper is to introduce the notion of a mock-Lie bialgebra which is equivalent to a Manin triple of mock-Lie algebras. The study of a special case called coboundary mock-Lie bialgebra leads to the introduction the mock-Lie Yang-Baxter equation on a mock-Lie algebra which is an analogue of the classical Yang-Baxter equation on a Lie algebra. Note that a skew-symmetric solution of mock-Lie Yang-Baxter equation gives a mock-Lie bialgebra. Finally, the notation of O-operators are studied to construct skew-symmetric solution of mock-Lie Yang-Baxter equation.
M. S. C (2020):16W10, 16T10, 16T15, 16T25, 17B38.
Cellular Automata Simulations of the Sintering behavior of Ceramics driven by Surface Energy reduction
Authors: Garrido-Regife Laura , Jiménez-Morales Francisco , González-Sánchez Manuela , Rivero-Antúnez Pedro , Morales-Flórez Víctor 
Published: March 2023

Abstract
A Cellular Automata model has been developed to study the sintering behavior of ceramic particles. In this model, the only physical rule that drives the evolution of the system is to reduce the energy at the interface between the mass cells and the void cells. The meaning of several computational parameters, such as particle size or compuntational temperature, were researched. Experiments of partial sintering of spherical particles of silica were performed and it was verified that this model successfully mimics the neck formation. Moreover, other experimental evidences of the stages of the densification, such as the formation of the intermediate vermicular microstructure or the dependence of porosity with temperature, were also qualitatively simulated.
Risk Factors of Unintentional Piecemeal Resection in Endoscopic Mucosal Resection for Colorectal Polyps ≥ 10 mm
Authors: Ishikawa Tsubasa , Okimoto Kenichiro , Matsumura Tomoaki , Ogasawara Sadahisa , Fukuda Yoshihiro , Kitsukawa Yoshio , Yokoyama Yuya , Kanayama Kengo , Akizue Naoki , Iino Yotaro , Ohta Yuki , Ishigami Hideaki , Taida Takashi , Tsuchiya Shin , Saito Keiko , Kamezaki Hidehiro , Kobayashi Akitoshi , Kikuchi Yasuharu , Tada Minoru , Shiko Yuki , Ozawa Yoshihito , Kato Jun , Yamaguchi Taketo , Kato Naoya 
Published: March 2023

Abstract
This study aimed to investigate the lesion and endoscopist factors associated with unintentional endoscopic piecemeal mucosal resection (uniEPMR) of colorectal lesions ≥ 10 mm. uniEPMR was defined from the medical record as anything other than a preoperatively planned EPMR. Factors leading to uniEPMR were identified by retrospective univariate and multivariate analyses of lesions ≥ 10 mm (adenoma and carcinoma) that were treated with endoscopic mucosal resection (EMR) at three hospitals. Additionally, a questionnaire survey was conducted to determine the number of cases treated by each endoscopist. A learning curve (LC) was created for each lesion size based on the number of experienced cases and the percentage of uniEPMR. Of 2557 lesions, 327 lesions underwent uniEPMR. Multivariate analysis showed that lesion diameter ≥ 30 mm (odds ratio 11.83, 95% confidence interval 6.80–20.60, p < .0001) was the most associated risk factor leading to uniEPMR. In the LC analysis, the proportion of uniEPMR decreased for lesion sizes of 10–19 mm until 160 cases. The proportion of uniEPMR decreased with the number of experienced cases in the 20–29 mm range, while there was no correlation between the number of experienced cases and the proportion of uniEPMR ≥ 30 mm. These results suggest that 160 cases seem to be the minimum number of cases needed to be proficient in en bloc EMR. Additionally, while lesion sizes of 10–29 mm are considered suitable for EMR, lesion sizes ≥ 30 mm are not applicable for en bloc EMR from the perspective of both lesion and endoscopist factors.
The role of microbiota - oral - brain axis in anxiety and depression
Authors: Lou Fangzhi , Luo Shihong , Long Huiqing , Yang Lu , Wang Haiyang , Liu Yiyun , Pu Juncai , Yan Li , Ji Ping , Jin Xin 
Published: March 2023

Abstract
Background: The gut microbiota plays a vital role in mental disorders, and the gut-brain axis has also been studied in the pathogenesis of depression. Furthermore, studies show the presence of the oral-gut microbiome axis. Oral microbiota dysbiosis is linked with mental disorders, suggesting that pathologic bacteria from the oral cavity may contribute to the development of mental disorders. However, whether independent oral microbiome that do not depend on gut microbes impacts the progression of depression, andthe presence and mechanism underlying about the microbiota-oral-brain axis in depression remains unclear. Here, saliva microbiota transplantation in germ-free mice used to study the impacts and mechanism of oral microbes on depression. 16S rRNA sequencing and liquid chromatography/mass spectrometry were performed on saliva, stool and serum to investigate alterations in microbiota and metabolites.
Results: It was observed that differential shaping effect of oral and intestinal microbiota on depression. Moreover, germ-free mice transplanted with saliva from chronic restraint stress (CRS)-exposed mice displayed emotional impairment and oral microbial dysbiosis with significant differential abundance of bacterial species including the enrichment of Pseudomonas, Pasteurellaceae and Muribacter and depletion of Streptococcus. Metabolomic analysis showed the alternation of metabolites in the serum of CRS-exposed germ-free mice, especially Eicosapentaenoic Acid. Furthermore, ectopic colonization of oral microbiome induced by CRS in the intestine impaired gut barrier function, which is associated with increased blood-brain barrier permeability. Pseudomonas supplementation exacerbated depression-like behavior, while Eicosapentaenoic Acid treatment conferred protection against depression-like states in mice.
Conclusions: These results suggest the external shaping process of gut microbiota by oral microbiome and indicate the great value of oral saliva samples in monitoring and assessing depression progression in clinical settings.
Circulating long noncodingRNAs in Mild Cognitive Impairment patients’ blood
Authors: De Felice Bruna , Coppola Cinzia , Bonavita Simona , Signoriello Elisabetta , Montanino Concetta 
Published: March 2023

Abstract
Mild cognitive impairment (MCI) generally signifies a transitional clinical stage prior to dementia.
Cognitive working is a dynamic process where both functional decline and functional improvement are mutual. Patients with amnestic MCI have a high risk to progress toward Alzheimer’s disease.
Both amnestic mild cognitive impairment and sporadic Alzheimer’s disease are multifactorial disorders consequential from a multifaceted cross-talk among molecular and biological processes.
Non-coding RNAs play an important role in the regulation of gene expression, mainly long non-coding RNAs (lncRNAs), that regulate other RNA transcripts through binding microRNAs. Cross-talk between RNAs, including coding RNAs and non-coding RNAs, produces a significant regulatory network all through the transcriptome. The relationship of genes and non-codingRNAscould improve the knowledge of the genetic factors contributing to the predisposition and pathophysiology of MCI.
The objective of this study was to identify the expression patterns and relevant lncRNA-associated
miRNA regulatory axes in blood of MCI patients, which includes lncRNA- HAR1A, lncRNA- HAR1B, lncRNA-MEG9, lncRNA-ST7-AS1, and lncRNA-TUNAR. Microarray investigations have demonstrated modifications in the expression of long non-coding RNAs (lncRNA) in blood of patients with MCI compared with control samples. This is the first study to explore lncRNA profiles in Mild Cognitive Impairment blood. Our study proposals RNAs targets involved in molecular pathways connected to the pathogenesis of MCI.
Development of an eco-friendly HPLC method for the stability indicating assay of binary mixture of ibuprofen and phenylephrine
Authors: Kelani Khadiga M. , Fayez Yasmin M. , Abdel-Raoof Ahmed M. , Fekry Reham A. , Hassan Said A. 
Published: March 2023

Abstract
The development and validation of the stability indicating HPLC technique has contributed to the understanding of the stability profile of ibuprofen (IBU) and phenylephrine (PHE). Stability profile was achieved for PHE, the drug was found to be liable to be influenced by stress oxidative conditions. Two oxidative degradates were formed and their structures were confirmed using IR and mass spectrometry. The drugs and degradation products were successfully separated using a a gradient elution method on YMC-C8 column with 0.1% hexanesulfonic acid and acetonitrile as solvents at pH 6.6. The flow rate was 1.0 mL.min− 1, and a diode array detector operating at 220 nm was used for UV detection. The proposed technique has been validated using ICH guidelines and its greenness was assessed according to Analytical Eco Scale metric.
Perfusion computed tomography as a screening tool for pending delayed cerebral ischemia in comatose patients after aneurysmal subarachnoid hemorrhage: a retrospective cohort study
Authors: Busse Thor Löwe , Munthe Sune , Ketharanathan Baskaran , Bülow Karsten , Jóhannsson Bjarni , Diaz Anabel , Nielsen Troels Halfeld 
Published: March 2023

Abstract
Background/Objective
Delayed cerebral ischemia (DCI) after aneurysmal subarachnoid hemorrhage (aSAH) is a severe complication often attributed to vasospasm. Endovascular rescue therapies (ERT) are available; however, pending DCI is difficult to diagnose in comatose patients. Therefore, symptomatic vasospasms (sVS) on perfusion computed tomography (P-CT) is often used as a surrogate.
The overarching aim of this retrospective cohort study was to evaluate P-CT as a screening modality for pending DCI on days four- and eight after aSAH in comatose patients. The specific objectives were (i) to explore the modality's validity by comparing the proportion of patients who received ERT due to sVS to patients developing DCI, and (ii) to explore the modality’s ability to risk-stratify patients by calculating the negative predictive value (NPV) of a patient with normal screening not developing DCI and by comparing the negative post-test probability (NPP) of developing DCI to the presumed incidence of DCI.
Methods
Records from 56 comatose aSAH patients Jan. 2019 to Dec. 2021 receiving 98 P-CT screening scans were retrospectively reviewed. With DCI, sVS and ERT as primary outcome measures, event rate analysis was undertaken, and NPP and NPV was calculated. sVS was defined as arterial narrowing with corresponding hypoperfusion on P-CT. DCI was defined as new cerebral infarct, not attributable to other causes, occurring >48 hours <6 weeks post aSAH.
Results
The incidence of DCI was 40%. sVS was detected in 9% of P-CTs, involving six patients. Positive P-CTs were followed by digital subtraction angiography (DSA) in five patients with ERT eligible in three patients. The combined NPV of screening on days four- and eight was 0,65. Days four and eight had an isolated NPV of 0,63 and 0,61, respectively. The NPP was 0,35 for negative scans combined on days four- and eight. Days four and eight had a NPP of 0,37 and 0,39, respectively. Seven (13%) patients had manifest DCI on day 4 P-CT, and 12 (21%) on day 8 P-CT.
Conclusions
Screening for pending DCI with P-CT on days four- and eight often resulted in late detection and had a poor prognostic certainty. The negative post-test probability of developing DCI was approximately equal to the incidence. Based on our analysis, we cannot recommend using P-CT as a screening modality on days four and eight alone for screening purposes in this group of patients. There is a need for continuous monitoring modalities to timely predict sVS and prevent DCI
Parafoveal syntactic processing from word N+2 during reading: The case of gender-specific German articles
Authors: Schwalm Laura , Radach Ralph 
Published: March 2023

Abstract
Previous research has suggested that some syntactic information such as word class can be processed parafoveally during reading. However, it is still unclear to what extent early syntactic cueing within noun phrases can facilitate word processing during dynamic reading. Two experiments (total N=72) were designed to address this question using a gaze-contingent boundary change paradigm to manipulate the syntactic fit within a nominal phrase. Either the article (experiment 1) or the noun (experiment 2) was manipulated in the parafovea, resulting in a syntactic mismatch, depending on the condition. Results indicated a substantial elevation of viewing times on both parts of the noun phrase when conflicting syntactic information had been present in the parafovea. In experiment 1, the article was also fixated more often in the syntactic mismatch condition. These results provide direct evidence of parafoveal syntactic processing. Based on the early time-course of this effect, it can be concluded that grammatical gender is used to generate constraints for the processing of upcoming nouns. To our knowledge, these results also provide the first evidence that syntactic information can be extracted from a parafoveal word N+2. Results also support the notion that a minimal noun phrase can serve as a basic functional unit of information processing during reading.
Synthesize Extremely High-dimensional Longitudinal Electronic Health Records via Hierarchical Autoregressive Language Model
Authors: Theodorou Brandon , Xiao Cao , Sun Jimeng 
Published: March 2023

Abstract
Synthetic electronic health records (EHRs) that are both realistic and preserve privacy can serve as an alternative to real EHRs for machine learning (ML) modeling and statistical analysis. However, generating high-fidelity and granular electronic health record (EHR) data in its original, highly-dimensional form poses challenges for existing methods due to the complexities inherent in high-dimensional data. In this paper, we propose Hierarchical Autoregressive Language mOdel (HALO) for generating longitudinal high-dimensional EHR, which preserve the statistical properties of real EHR and can be used to train accurate ML models without privacy concerns. Our HALO method, designed as a hierarchical autoregressive model, generates a probability density function of medical codes, clinical visits, and patient records, allowing for the generation of realistic EHR data in its original, unaggregated form without the need for variable selection or aggregation. Additionally, our model also produces high-quality continuous variables in a longitudinal and probabilistic manner.
We conducted extensive experiments and demonstrate that HALO can generate high-fidelity EHR data with high-dimensional disease code probabilities (d ≈ 10,000), disease code co-occurrence probabilities within a visit (d ≈ 1,000,000), and conditional probabilities across consecutive visits (d ≈ 5,000,000) and achieve above 0.9 R2 correlation in comparison to real EHR data. In comparison to the leading baseline, HALO improves predictive modeling by over 17% in its predictive accuracy and perplexity on a hold-off test set of real EHR data. This performance then enables downstream ML models trained on its synthetic data to achieve comparable accuracy to models trained on real data (0.938 area under the ROC curve with HALO data vs. 0.943 with real data). Finally, using a combination of real and synthetic data enhances the accuracy of ML models beyond that achieved by using only real EHR data.
Pediatric craniocerebral firearm injuries: literature review, best practices in medical and surgical management, and case report.
Authors: Calame Dylan , Riaz Muhammad 
Published: March 2023

AbstractIntroduction: Civilian craniocerebral firearm injuries are extremely lethal. Management includes aggressive resuscitation, early surgical intervention when indicated, and management of intracranial pressure. Patient neurological status and imaging features should be used to guide management and the degree of intervention. Pediatric craniocerebral firearm injuries have a higher survival rate, but are much rarer, especially in children under 15 years old. This paucity of data underscores the importance of reviewing pediatric craniocerebral firearm injuries to determine best practices in surgical and medical management. Case presentation: A two-year-old female was admitted after suffering a gunshot wound to the left frontal lobe. Upon initial evaluation, the patient displayed agonal breathing and fixed pupils with a GCS score of 3. CT imaging showed a retained ballistic projectile in the right temporal-parietal region with bifrontal hemorrhages, subarachnoid blood, and a 5-mm midline shift. The injury was deemed nonsurvivable and non-operable, thus treatment was primarily supportive. Upon removal of the endotracheal tube, the patient began breathing spontaneously and improved clinically to a GCS score of 10–12. On hospital day 8, she underwent cranial reconstruction with neurosurgery. Her neurological status continued to improve, and she was able to communicate and follow commands but retained notable left sided hemiplegia with some left sided movement. On hospital day 15, she was deemed safe for discharge to acute rehabilitation.