Miracle-dz/UniFAR-FTUs huggingface dataset:
Genome-Wide Analysis of Myeloblastosis-Related Genes in Brassica napus L. and Positive Modulation of Osmotic Tolerance by BnMRD107

Myeloblastosis (MYB)-related transcription factors comprise a large subfamily of the MYB family. They play significant roles in plant development and in stress responses. However, MYB-related proteins have not been comprehensively investigated in rapeseed (Brassica napus L.). In the present study, a genome-wide analysis of MYB-related transcription factors was performed in rapeseed. We identified 251 Brassica napus MYB (BnMYB)-related members, which were divided phylogenetically into five clades. Evolutionary analysis suggested that whole genome duplication and segmental duplication events have played a significant role in the expansion of BnMYB-related gene family. Selective pressure of BnMYB-related genes was estimated using the Ka/Ks ratio, which indicated that BnMYB-related genes underwent strong purifying selection during evolution. In silico analysis showed that various development-associated, phytohormone-responsive, and stress-related cis-acting regulatory elements were enriched in the promoter regions of BnMYB-related genes. Furthermore, MYB-related genes with tissue or organ-specific, stress-responsive expression patterns were identified in B. napus based on temporospatial and abiotic stress expression profiles. Among the stress-responsive MYB-related genes, BnMRD107 was strongly induced by drought stress, and was therefore selected for functional study. Rapeseed seedlings overexpressing BnMRD107 showed improved resistance to osmotic stress. Our findings not only lay a foundation for further functional characterization of BnMYB-related genes, but also provide valuable clues to determine candidate genes for future genetic improvement of B. napus.
Driving β2- While Suppressing α-Adrenergic Receptor Activity Suppresses Joint Pathology in Inflammatory Arthritis

Objective Hypersympathetic activity is prominent in rheumatoid arthritis, and major life stressors precede onset in ~80% of patients. These findings and others support a link between stress, the sympathetic nervous system and disease onset and progression. Here, we extend previous research by evaluating how selective peripherally acting α/β2-adrenergic drugs affect joint destruction in adjuvant-induced arthritis. Methods Complete Freund’s adjuvant induced inflammatory arthritis in male Lewis rats. Controls received no treatment. Arthritic rats then received vehicle or twice-daily treatment with the α-adrenergic antagonist, phentolamine (0.5 mg/day) and the β2-adrenergic agonist, terbutaline (1200 µg/day, collectively named SH1293) from day (D) of disease onset (D12) through acute (D21) and severe disease (D28). Disease progression was assessed in the hind limbs using dorsoplantar widths, X-ray analysis, micro-computed tomography, and routine histology on D14, D21, and D28 post-immunization. Results On D21, SH1293 significantly attenuated arthritis in the hind limbs, based on reduced lymphocytic infiltration, preservation of cartilage, and bone volume. Pannus formation and sympathetic nerve loss were not affected by SH1293. Bone area and osteoclast number revealed high- and low-treatment-responding groups. In high-responding rats, treatment with SH1293 significantly preserved bone area and decreased osteoclast number, data that correlated with drug-mediated joint preservation. SH1293 suppressed abnormal bone formation based on reduced production of osteophytes. On D28, the arthritic sparing effects of SH1293 on lymphocytic infiltration, cartilage and bone sparing were maintained at the expense of bone marrow adipocity. However, sympathetic nerves were retracted from the talocrural joint. Conclusion and Significance Our findings support a significant delay in early arthritis progression by treatment with SH1293. Targeting sympathetic neurotransmission may provide a strategy to slow disease progression.
Impact of Interleukin 10 Deficiency on Intestinal Epithelium Responses to Inflammatory Signals

Interleukin 10 (IL-10) is a pleiotropic, anti-inflammatory cytokine that has a major protective role in the intestine. Although its production by cells of the innate and adaptive immune system has been extensively studied, its intrinsic role in intestinal epithelial cells is poorly understood. In this study, we utilised both ATAC sequencing and RNA sequencing to define the transcriptional response of murine enteroids to tumour necrosis factor (TNF). We identified that the key early phase drivers of the transcriptional response to TNF within intestinal epithelium were NFκB transcription factor dependent. Using wild-type and Il10−/− enteroid cultures, we showed an intrinsic, intestinal epithelium specific effect of IL-10 deficiency on TNF-induced gene transcription, with significant downregulation of identified NFκB target genes Tnf, Ccl20, and Cxcl10, and delayed overexpression of NFκB inhibitor encoding genes, Nfkbia and Tnfaip3. IL-10 deficiency, or immunoblockade of IL-10 receptor, impacted on TNF-induced endogenous NFκB activity and downstream NFκB target gene transcription. Intestinal epithelium-derived IL-10 appears to play a crucial role as a positive regulator of the canonical NFκB pathway, contributing to maintenance of intestinal homeostasis. This is particularly important in the context of an inflammatory environment and highlights the potential for future tissue-targeted IL-10 therapeutic intervention.
Genomic and Phenotypic Characterization of Chloracidobacterium Isolates Provides Evidence for Multiple Species

Chloracidobacterium is the first and until now the sole genus in the phylum Acidobacteriota (formerly Acidobacteria) whose members perform chlorophyll-dependent phototrophy (i.e., chlorophototrophy). An axenic isolate of Chloracidobacterium thermophilum (strain BT) was previously obtained by using the inferred genome sequence from an enrichment culture and diel metatranscriptomic profiling analyses in situ to direct adjustments to the growth medium and incubation conditions, and thereby a defined growth medium for Chloracidobacterium thermophilum was developed. These advances allowed eight additional strains of Chloracidobacterium spp. to be isolated from microbial mat samples collected from Mushroom Spring, Yellowstone National Park, United States, at temperatures of 41, 52, and 60°C; an axenic strain was also isolated from Rupite hot spring in Bulgaria. All isolates are obligately photoheterotrophic, microaerophilic, non-motile, thermophilic, rod-shaped bacteria. Chloracidobacterium spp. synthesize multiple types of (bacterio-)chlorophylls and have type-1 reaction centers like those of green sulfur bacteria. Light harvesting is accomplished by the bacteriochlorophyll a-binding, Fenna-Matthews-Olson protein and chlorosomes containing bacteriochlorophyll c. Their genomes are approximately 3.7 Mbp in size and comprise two circular chromosomes with sizes of approximately 2.7 Mbp and 1.0 Mbp. Comparative genomic studies and phenotypic properties indicate that the nine isolates represent three species within the genus Chloracidobacterium. In addition to C. thermophilum, the microbial mats at Mushroom Spring contain a second species, tentatively named Chloracidobacterium aggregatum, which grows as aggregates in liquid cultures. The Bulgarian isolate, tentatively named Chloracidobacterium validum, will be proposed as the type species of the genus, Chloracidobacterium. Additionally, Chloracidobacterium will be proposed as the type genus of a new family, Chloracidobacteriaceae, within the order Blastocatellales, the class Blastocatellia, and the phylum Acidobacteriota.
Behavioral Intention to Use a Smartphone Usage Management Application Between a Non-Problematic Smartphone Use Group and a Problematic Use Group

Despite the many advantages of smartphone in daily life, there are significant concerns regarding their problematic use. Therefore, several smartphone usage management applications have been developed to prevent problematic smartphone use. The purpose of this study is to investigate the factors of users' behavioral intention to use smartphone usage management applications. Participants were divided into a smartphone use control group and a problematic use group to find significant intergroup path differences. The research model of this study is fundamentally based on the Technology Acceptance Model and Expectation-Confirmation Theory. Based on this theorem, models were modified to best suit the case of problematic smartphone use intervention by smartphone application. We conducted online surveys on 511 randomly selected smartphone users aged 20–60 in South Korea, in 2018. The Smartphone Addiction Proneness Scale was used to measure participants' smartphone dependency. Descriptive statistics were used for the demographic analysis and collected data were analyzed using IBM SPSS Statistics 24.0 and Amos 24.0. We found that in both non-problematic smartphone use group and problematic smartphone use group, facilitating factors and perceived security positively affect the intentions of users to use the application. One distinct difference between the groups was that the latter attributed a lower importance to perceived security than the former. Some of our highlighted unique points are envisioned to provide intensive insights for broadening knowledge about technology acceptance in the field of e-Addictology.
Tailoring the Input to Children's Needs: The Use of Fine Lexical Tuning in Speech Directed to Normally Hearing Children and Children With Cochlear Implants

Purpose: The aim of the present study was to explore fine lexical tuning in Dutch infant-directed speech (IDS) addressed to congenitally deaf infants who received a cochlear implant (CI) early in life (<2 years of age) in comparison with children with normal hearing (NH). The longitudinal pattern of parents' utterance length in the initial stages of the child's lexical development was examined. Parents' utterances containing the words the children eventually acquired in the earliest developmental stages were selected and their MLU (Mean Length of Utterance) was measured. Method: Transcriptions of monthly recordings of spontaneous interactions of 10 CI children and 30 NH children with their parents were analyzed. The children with CI were followed from the moment their device was switched on, and the NH children from the age of 6 months onwards. A total of 57,846 utterances of parents of CI children and 149,468 utterances of parents of NH children were analyzed. Results: IDS addressed to children with NH and children with CI exhibits fine lexical tuning: parents adjust the MLU of the utterances that contain the words that children are on the verge of producing themselves. More specifically, the parents' mean length of those utterances decreased in relation to the point when the children began using the item. Consequently, the number of occurrences in isolation of the lexical item increased. The speech addressed to all the children exhibited this phenomenon, but it was significantly more strongly present in speech addressed to the children with CI. Conclusions: The speech addressed to children with NH and CI is characterized by fine lexical tuning and a high incidence of single-word utterances in the period leading up to the children's first use of words in speech production. Notwithstanding striking commonalities, IDS addressed to children with a hearing impairment is markedly different, which suggests that parents take this specific character of the children into account.
Comprehensive Landscape of Ovarian Cancer Immune Microenvironment Based on Integrated Multi-Omics Analysis

Epithelial ovarian cancer has a low response rate to immunotherapy and a complex immune microenvironment that regulates its treatment outcomes. Understanding the immune microenvironment and its molecular basis is of great clinical significance in the effort to improve immunotherapy response and outcomes. To determine the characteristics of the immune microenvironment in ovarian cancer, we stratified ovarian cancer patients into three immune subtypes (C1, C2, and C3) using immune-related genes based on gene expression data from The Cancer Genome Atlas and found that these three subtypes had significant differences in immune characteristics and prognosis. Methylation and copy number variant analysis showed that the immune checkpoint genes that influenced immune response were significantly hypermethylated and highly deleted in the immunosuppressive C3 subtype, suggesting that epigenetic therapy may be able to reverse the efficacy of immunotherapy. In addition, the mutation frequencies of BRCA2 and CDK12 were significantly higher in the C2 subtype than in the other two subtypes, suggesting that mutation of DNA repair-related genes significantly affects the prognosis of ovarian cancer patients. Our study further elucidated the molecular characteristics of the immune microenvironment of ovarian cancer, which providing an effective hierarchical method for the immunotherapy of ovarian cancer patients, and has clinical relevance to the design of new immunotherapies and a reasonable combination strategies.
Identifying Potential Neoantigens for Cervical Cancer Immunotherapy Using Comprehensive Genomic Variation Profiling of Cervical Intraepithelial Neoplasia and Cervical Cancer

Cervical cancer (CC) is one of the most common gynecological malignant tumors. The 5-year survival rate remains poor for the advanced and metastatic cervical cancer for the lack of effective treatments. Immunotherapy plays an important role in clinical tumor therapy. Neoantigens derived from tumor-specific somatic mutations are prospective targets for immunotherapy. Hence, the identification of new targets is of great significance for the treatment of advanced and metastatic cervical cancer. In this study, we performed whole-exome sequencing in 70 samples, including 25 cervical intraepithelial neoplasia (CINs) with corresponding blood samples and 10 CCs along with paired adjacent tissues to identify genomic variations and to find the potential neoantigens for CC immunotherapy. Using systematic bioinformatics pipeline, we found that C>T transitions were in both CINs and CCs. In contrast, the number of somatic mutations in CCs was significantly higher than those in CINs (t-test, P = 6.60E-04). Meanwhile, mutational signatures analysis revealed that signature 6 was detected in CIN2, CIN3, and CC, but not in CIN1, while signature 2 was only observed in CCs. Furthermore, PIK3CA, ARHGAP5 and ADGRB1 were identified as potential driver genes in this report, of which ADGRB1 was firstly reported in CC. Based on the genomic variation profiling of CINs and CCs, we identified 2586 potential neoantigens in these patients, of which 45 neoantigens were found in three neoantigen-related databases (TSNAdb, IEDB, and CTDatabase). Our current findings lay a solid foundation for the study of the pathogenesis of CC and the development of neoantigen-targeted immunotherapeutic measures.
Interval Valued T-Spherical Fuzzy Soft Average Aggregation Operators and Their Applications in Multiple-Criteria Decision Making

This paper deals with uncertainty, asymmetric information, and risk modelling in a complex power system. The uncertainty is managed by using probability and decision theory methods. Multiple-criteria decision making (MCDM) is a very effective and well-known tool to investigate fuzzy information more effectively. However, the selection of houses cannot be done by utilizing symmetry information, because enterprises do not have complete information, so asymmetric information should be used when selecting enterprises. In this paper, the notion of soft set (SftS) and interval-valued T-spherical fuzzy set (IVT-SFS) are combined to produce a new and more effective notion called interval-valued T-spherical fuzzy soft set (IVT−SFSftS). It is a more general concept and provides more space and options to decision makers (DMs) for making their decision in the field of fuzzy set theory. Moreover, some average aggregation operators like interval-valued T-spherical fuzzy soft weighted average (IVT−SFSftWA) operator, interval-valued T-spherical fuzzy soft ordered weighted average (IVT−SFSftOWA) operator, and interval-valued T-spherical fuzzy soft hybrid average (IVT−SFSftHA) operators are explored. Furthermore, the properties of these operators are discussed in detail. An algorithm is developed and an application example is proposed to show the validity of the present work. This manuscript shows how to make a decision when there is asymmetric information about an enterprise. Further, in comparative analysis, the established work is compared with another existing method to show the advantages of the present work.
Characterizing and Leveraging Granger Causality in Cybersecurity: Framework and Case Study

Causality is an intriguing concept that once tamed, can have many applications. While having been widely investigated in other domains, its relevance and usefulness in the cybersecurity domain has received little attention. In this paper, we present a systematic investigation of a particular approach to causality, known as Granger causality (G-causality), in cybersecurity. We propose a framework, dubbed Cybersecurity Granger Causality (CGC), for characterizing the presence of G-causality in cyber attack rate time series and for leveraging G-causality to predict (i.e., forecast) cyber attack rates. The framework o ﬀ ers a range of research questions, which can be adopted or adapted to study G-causality in other kinds of cybersecurity time series data. In order to demonstrate the usefulness of CGC, we present a case study by applying it to a particular cyber attack dataset collected at a honeypot. From this case study, we draw a number of insights into the usefulness and limitations of G-causality in the cybersecurity domain.
Behavior of the Free Surface of Two-Phase Fluid Flow Near the Taphole in a Tank

The present study numerically investigated the deformation of the free-surface of twophase fluid flow in a tank which is considered as a simplified blast furnace hearth. Actually, the fluids existing in a blast furnace hearth are gas, slag and hot metal from top to bottom. However, the present study considered only gas and cold molten iron in the tank. The porosity is considered as a substitute for void volume formed by the packed bed of the particles such as cokes. The single-phase flow and two-phase fluids flow without the porosity are analyzed for comparison. The porosity contributed the free surface to forming a viscous finger near the taphole. The axi-symmetry nature of the interface of two-phase fluids flow in the cylindrical tank is broken by viscous finger as the interface instability by the gas entrainment into taphole, which has been identified by the visualization of the free surface formation. The acceleration of the free surface falling velocity and the outflow near the taphole are associated by the viscous finger by the gas entrainment. The dimensionless gas break-through time is linear with respect to the porosity magnitude.
APL\?

This paper describes a version of APL based upon the dictionary [1], but significantly simplified and enhanced, and directly usable on any machine that provides ASCII characters. It also describes salient features of a C implementation that has been tested on several machines, and is available as freeware. There have been four primary motivations for this work:To provide an APL system for use in teaching mathematics and related topics that is modern, free, and transportable. To devise a spelling scheme based on the ASCII alphabet that preserves the major advantages of the one-letter words based on the special alphabet commonly used in APL. To exploit the advantages of breaking from the strict conformance with earlier APL that is normally obligatory in commercial systems. To explore an unusual style of C programming that makes heavy use of pre-processing facilities. Examples of the use of the language in a variety of topics are provided in an appendix. We are indebted to a number of colleagues for advice and help: Anthony Howe, David Steinbrook, Bob Bernecky, Mark Czerwinski, L.J. Dickey, Jiri Dvorak, James Hui, Eric Iverson, Paul Jackson, and Roland Pesch.
Efficacy of treat-and-repair strategy for atrial septal defect with pulmonary arterial hypertension

Objective Therapeutic strategies for atrial septal defect (ASD) with severe pulmonary arterial hypertension (PAH) are controversial. This study aimed to evaluate the efficacy of PAH-specific medications and subsequent transcatheter closure (ie, treat-and-repair strategy) on clinical outcomes. Methods We enrolled 42 patients who were referred to 13 institutions for consideration of ASD closure with concomitant PAH and underwent the treat-and-repair strategy. The endpoint was cardiovascular death or hospitalisation due to heart failure or exacerbated PAH. Results At baseline prior to PAH-specific medications, pulmonary to systemic blood flow ratio (Qp:Qs), pulmonary vascular resistance (PVR), and mean pulmonary artery pressure (PAP) were 1.9±0.8, 6.9±3.2 Wood units and 45±15 mm Hg. Qp:Qs was increased to 2.4±1.2, and PVR and mean PAP were decreased to 4.0±1.5 Wood units and 35±9 mm Hg at the time of transcatheter ASD closure after PAH-specific medications. Transcatheter ASD closure was performed without any complications. During a median follow-up period of 33 months (1–126 months) after transcatheter ASD closure, one older patient died and one patient was hospitalised due to heart failure, but the other patients survived with an improvement in WHO functional class. PAP was further decreased after transcatheter ASD closure. Conclusions The treat-and-repair strategy results in low complication and mortality rates with a reduction in PAP in selected patients with ASD complicated with PAH who have a favourable response of medical therapy.
Characteristics of prehydrolysis-kraft pulp fibers from Scots pine

Abstract To clarify the influence of prehydrolysis on fiber characteristics, Scots pine (Pinus sylvestris L.) wood chips were subjected to pressurized hot-water and dilute-acid prehydrolysis (0.5% H2SO4) prior to kraft pulping to partially remove hemicelluloses as hydrolyzate. After the prehydrolysis, the wood chips were submitted to kraft pulping and the pulp was fully bleached in oxygen (O), chlorine dioxide (D), alkaline extraction (E) and chlorine dioxide (D)-sequence. Measurements with an automated optical fiber analyzer showed that prehydrolysis prior to kraft pulping caused significant changes in the fiber dimensions and morphology of the final bleached pulp. Especially, a decrease in fiber width and an increase in fiber deformations were observed compared to a reference kraft pulp. The scanning electron microscopy of handsheets supported the morphology analyses and revealed alterations also in the fiber ultrastructure. The changes in both chemical and physical fiber characteristics require attention when considering the correct processing and end-use of prehydrolysis-kraft pulp fibers.
Comparing mmWave Channel Simulators in Vehicular Environments

With the emerging 5G solutions for vehicular networking, the spectrum of radio communication technologies also extends into the mmWave band. This is further supported by the recent move towards RADar based COMmunication (RADCOM), i.e., the deeply integrated use of the 77 GHz band for communication and sensing. mmWave communication has widely been explored both analytically as well as in experiments, particularly for indoor usage and semi-stationary outdoor scenarios. In this paper, we explore the capabilities of existing simulators for the vehicular use case. We selected WinProp using deterministic ray-tracing techniques and NYUSIM relying on stochastic simulation of the channel. We compare both with a strong focus on simulation accuracy, usability, and computational performance.