Miracle-dz/UniFAR-FTUs huggingface dataset:
Correlation of Breast cancer Prognostic and Predictive indicators in Saudi patients: A 20 years retrospective observational study.

Introduction Breast cancer is the most common cancer in women in Saudi Arabia and the world (WHO 2020). Several studies have been published, worldwide, about the prognostic indicators of breast cancer, many of them showed a characteristic distribution according to certain geographical areas Methods Over 20 years (1998-2018), the results of 498 patients diagnosed with breast cancer, have been collected from the archive of the pathology department at King Fahd University Hospital (KFHU). Results This study included 498 patients diagnosed with breast cancer at King Fahd University Hospital over 20 years period (1998-2018), 58.4% (n=291) were Saudis. Data analysis showed a wide age distribution of breast cancers among eastern Saudi patients; however, most cases were seen in the 3rd and 4th decades. Luminal B was the most common subtype followed by triple-negative and luminal-A. Statistical analysis revealed a significant negative relationship between Saudi patients' age at diagnosis and Her2 expression (P= .030), interestingly, this association was not significant in none-Saudi patients (P= .528). Discussion/Conclusion. Our data revealed that breast cancer in Eastern Province had similar prognostics to international findings, however, Her2 profile and molecular subtype among Eastern Saudi women showed a minor deviation from worldwide published data.
Modelling optimal vaccination strategy for SARS-CoV-2 in the UK

The COVID-19 outbreak has highlighted our vulnerability to novel infections. Faced with this threat and no effective treatment, most countries adopted some form of enforced social distancing (lockdown) to reduce transmission - in most cases successfully reducing the reproductive number,R, below one. However, given the large pool of susceptible individuals that remain, complete relaxation of controls is likely to generate a substantial second wave. Vaccination remains the only foreseeable means of both containing the infection and returning to normal interactions and behaviour. Here, we consider the optimal targeting of vaccination with the aim of minimising future deaths or quality adjusted life year (QALY) losses. We show that, for a range of assumptions on the action and efficacy of the vaccine, targeting older age groups first is optimal and can avoid a second wave if the vaccine prevents transmission as well as disease.
Gene Flow and Individual Relatedness Suggest Population Spatial Connectivity of Sinogastromyzon sichangensis (Cypriniformes: Balitoridae) in the Chishui River, China

Sinogastromyzon sichangensis is a hillstream loach endemic to the upper Yangtze River, China. It is unclear whether this fish lives in a very restricted area or may be dispersed over a long distance. In the present study spatial connectivity of populations of S. sichangensis was investigated based on 343 individuals collected from 12 sites of Chishui River and employing 22 microsatellite loci. The results of genetic diversity analysis showed that observed heterozygosity (HO) and polymorphism information content (PIC) ranged from 0.5653 to 0.6999 and 0.8513 to 0.8819, respectively. Population structure analysis suggested that S. sichangensis had an unclear genetic structure. AMOVA showed that 69.36% of genetic variation was attributed to differentiation within individuals and all the pairwise genetic differentiation indices (FST) were low (mean FST = 0.0344), indicating weak differentiation among these populations. Estimation of gene flow showed frequent flow among populations, and contemporary levels (mean contemporary migration rate, mc = 0.0131) were approximately equal to historical levels (mean historical migration rate, mh = 0.0147). Individual relatedness analysis revealed a high level of sibship within and among different populations. The frequent gene flow and widespread sibship were due to S. sichangensis laying drifting eggs which travel for a long distance until hatching, after which the juveniles or adults migrate upstream. The results of unclear geographic structure and frequent exchange also indicate that it is necessary to decrease the negative impacts of anthropogenic activities on the connectivity of rivers to protect the migration routes of S. sichangensis.
Does Crowd Support Drive the Home Advantage in Professional Football? Evidence from German Ghost Games during the COVID-19 Pandemic

This paper examines the relation between crowd support and home advantage in men’s professional football in making use of a unique “natural experiment” induced by restrictions due to the COVID-19 pandemic: the so-called ghost games in the top three German football divisions at the end of the 2019/2020 season. We find that there is a reduced home advantage in the first division, whereas no change is observed in the second and third divisions. Our regression analysis indicates that the decrease in the home advantage and the heterogeneity across divisions are not sensitive to a variety of performance, location, and team covariates and are best explained through the lower occupancy rate in the stadia. Hence, the decrease in occupancy to zero at the ghost games has been less dramatic for teams that have been used to low occupancy rates. We cannot find strong evidence for a change in referee behavior or teams’ tactics as main impact channels of occupancy rates on the home advantage. Hence, we argue that psychological reasons are of higher importance.
Bacteriocytes and Blattabacterium Endosymbionts of the German Cockroach Blattella germanica, the Forest Cockroach Blattella nipponica, and Other Cockroach Species

Cockroaches are commonly found in human residences and notorious as hygienic and nuisance pests. Notably, however, no more than 30 cockroach species are regarded as pests, while the majority of 4,500 cockroaches in the world are living in forest environments with little relevance to human life. Why some cockroaches have exceptionally adapted to anthropic environments and established pest status is of interest. Here we investigated the German cockroach Blattella germanica, which is a cosmopolitan pest species, and the forest cockroach Blattella nipponica, which is a wild species closely related to B. germanica. In contrast to easy rearing of B. germanica, laboratory rearing of B. nipponica was challenging—several trials enabled us to keep the insects for up to three months. We particularly focused on the distribution patterns of specialized cells, bacteriocytes, for harboring endosymbiotic Blattabacterium, which has been suggested to contribute to host's nitrogen metabolism and recycling, during the postembryonic development of the insects. The bacteriocytes were consistently localized to visceral fat bodies filling the abdominal body cavity, where a number of single bacteriocytes were scattered among the adipocytes, throughout the developmental stages in both females and males. The distribution patterns of the bacteriocytes were quite similar between B. germanica and B. nipponica, and also among other diverse cockroach species, plausibly reflecting the highly conserved cockroach-Blattabacterium symbiotic association over evolutionary time. Our study lays a foundation to experimentally investigate the origin and the processes of urban pest evolution, on account of possible involvement of microbial associates.
Neuroplasticity in Post-Stroke Aphasia: A Systematic Review and Meta-Analysis of Functional Imaging Studies of Reorganization of Language Processing

Recovery from aphasia is thought to depend on neural plasticity, that is, the functional reorganization of surviving brain regions such that they take on new or expanded roles in language processing. We carried out a systematic review and meta-analysis of all articles published between 1995 and early 2020 that have described functional imaging studies of six or more individuals with post-stroke aphasia, and have reported analyses bearing on neuroplasticity of language processing. Each study was characterized and appraised in detail, with particular attention to three critically important methodological issues: task performance confounds, contrast validity, and correction for multiple comparisons. We identified 86 studies describing a total of 561 relevant analyses. We found that methodological limitations related to task performance confounds, contrast validity, and correction for multiple comparisons have been pervasive. Only a few claims about language processing in individuals with aphasia are strongly supported by the extant literature: First, left hemisphere language regions are less activated in individuals with aphasia than in neurologically normal controls; and second, in cohorts with aphasia, activity in left hemisphere language regions, and possibly a temporal lobe region in the right hemisphere, is positively correlated with language function. There is modest, equivocal evidence for the claim that individuals with aphasia differentially recruit right hemisphere homotopic regions, but no compelling evidence for differential recruitment of additional left hemisphere regions or domain-general networks. There is modest evidence that left hemisphere language regions return to function over time, but no compelling longitudinal evidence for dynamic reorganization of the language network.
Facilitated NaCl Uptake in the Highly Developed Bundle of the Nephron in Japanese Red Stingray Hemitrygon akajei Revealed by Comparative Anatomy and Molecular Mapping

Batoidea (rays and skates) is a monophyletic subgroup of elasmobranchs that diverged from the common ancestor with Selachii (sharks) about 270 Mya. A larger number of batoids can adapt to low-salinity environments, in contrast to sharks, which are mostly stenohaline marine species. Among osmoregulatory organs of elasmobranchs, the kidney is known to be dedicated to urea retention in ureosmotic cartilaginous fishes. However, we know little regarding urea reabsorbing mechanisms in the kidney of batoids. Here, we performed physiological and histological investigations on the nephrons in the red stingray (Hemitrygon akajei) and two shark species. We found that the urine/plasma ratios of salt and urea concentrations in the stingray are significantly lower than those in cloudy catshark (Scyliorhinus torazame) under natural seawater, indicating that the kidney of stingray more strongly reabsorbs these osmolytes. By comparing the three-dimensional images of nephrons between stingray and banded houndshark (Triakis scyllium), we showed that the tubular bundle of stingray has a more compact configuration. In the compact tubular bundle of stingray kidney, the distal diluting tubule was highly developed and frequently coiled around the proximal and collecting tubules. Furthermore, co-expression of NKAα1 (Na+/K +-ATPase) and NKCC2 (Na+- K+-2Cl– cotransporter 2) mRNAs was prominent in the coiled diluting segment. These findings imply that NaCl reabsorption is greatly facilitated in the stingray kidney, resulting in a higher reabsorption rate of urea. Lowering the loss of osmolytes in the glomerular filtrate is likely favorable to the adaptability of batoids to a wide range of environmental salinity.
Exploratory Data Analysis of Multi-label Classification Tasks with Formal Context Analysis

We introduce a new framework, Formal Context Analysis (F x A), for the exploratory analysis of data tasks cast in the guise of formal contexts. F x A gathers a number of results from Formal Concept Analysis, Formal Independence Analysis and Formal Equivalence Analysis to enhance the establishment and processing of hypothesis about data. We apply this framework to the study of the Multi-label Classiﬁ-cation (MLC) task and obtain a number of results of technical nature about how the induction mechanism for MLC classiﬁers should proceed. The application is based on an analysis of multilabel classiﬁcation from the standpoint of F x A.
Dynamics of Word Production in the Transition from Adolescence to Adulthood

Changes in word production occur across the lifespan. Previous studies have shown electrophysiological, temporal, and functional differences between children and adults accompanying behavioral changes in picture-naming tasks (Laganaro, Tzieropoulos, Fraunfelder, & Zesiger, 2015). Thus, a shift toward adult-like processes in referential word production occurs somewhere between the ages of 13 and 20. Our aim was to investigate when and how children develop adult-like behavior and brain activation in word production. Toward this aim, performance and event-related potentials (ERP) in a referential word production task were recorded and compared for two groups of adolescents (aged 14 to 16 and 17 to 18), children (aged 10 to 13), and young adults (aged 20 to 30). Both groups of adolescents displayed adult-like production latencies, which were longer only for children, while accuracy was lower in the younger adolescents and in children, compared to adults. ERP waveform analysis and topographic pattern analysis revealed significant intergroup differences in key time-windows on stimulus-locked ERPs, both early (150–220 ms)—associated with pre-linguistic processes—and late (280–330 ms)—associated with lexical processes. The results indicate that brain activation underlying referential word production is completely adult-like in 17-year-old adolescents, whereas an intermediate pattern is still observed in adolescents aged 14 to 16 years old, although their production speed, but not their accuracy, is already adult-like.
Muse cell spheroids have therapeutic effect on corneal scarring wound in mice and tree shrews

Corneal stromal cells differentiated from Muse spheroids had therapeutic effects on wounded corneas in mice and tree shrews. aMUSEment in sight Scars from corneal injuries are a major cause of blindness. Stem cell therapy holds promises for treating corneal scarring; however, selecting the source of stem cells is critical for the positive outcome of the cell transplant. Here, Guo et al. evaluated the therapeutic potential of corneal stromal cells (CSCs) derived from multilineage-differentiating stress-enduring (Muse) cells isolated from lipoaspirate. Muse cells showed high stemness, activity, and proliferation. Transplant of Muse-derived CSCs promoted tissue regeneration and reduced scarring in models of corneal injury in mice and tree shrews. The results suggest that Muse-CSCs have therapeutic potential for treating corneal diseases. Stem cell therapy holds promises for treating corneal scarring. Here, we use multilineage-differentiating stress-enduring (Muse) cells to study their differentiation and therapeutic potential for treating corneal injury. Muse cells were isolated from lipoaspirate, which presented biphenotype properties of both pluripotent stem cells and some mesenchymal stem cells. Muse cells expanded by about 100-fold from the initial seeding cell number to Muse spheroids with the maintenance of the Muse cell phenotype and high cell viability at 33 days by static spheroid culture. We revealed that Muse spheroids were activated by the dynamic rotary cell culture system (RCCS), as characterized by increased stemness, improved activity, and enhanced adherence. Gene and protein expression of the pluripotent markers OCT3/4, SOX2, and NANOG and of the proliferation marker KI67 in Muse spheroids cultured under RCCS were higher than those in the static group. These activated Muse spheroids enabled ready differentiation into corneal stromal cells (CSCs) expressing characteristic marker genes and proteins. Furthermore, implantation of Muse cells–differentiated CSCs (Muse-CSCs) laden assembled with two orthogonally stacked stretched compressed collagen (cell-SCC) in mouse and tree shrew wounded corneas prevented the formation of corneal scarring, increased corneal re-epithelialization and nerve regrowth, and reduced the severity of corneal inflammation and neovascularization. cell-SCC retained the capacity to suppress corneal scarring after long-distance cryopreserved transport. Thus, Muse cell therapy is a promising avenue for developing therapeutics for treating corneal scarring.
Infectious complications of rheumatoid arthritis and psoriatic arthritis during targeted and biological therapies: a viewpoint in 2020

Biological therapies have improved the outcomes of several major inflammatory, autoimmune and also neoplastic disorders. Those directed towards cytokines or other soluble mediators, cell-surface molecules or receptors or various components of intracellular signalling pathways may be associated with the occurrence of infections whose diversity depends on the particular immune target. In this context and following a keynote lecture given by one of us at the European League Against Rheumatism meeting on June 2018, a multidisciplinary group of experts deeply involved in the use of targeted and biological therapies in rheumatoid and psoriatic arthritis decided to summarise their recent vision of the immunological basis and epidemiology of infections occurring during targeted and biological therapies, and provide useful indications for their management and prevention.
Resuscitation of non-vigorous neonates born through meconium-stained amniotic fluid: post policy change impact analysis

Background We investigated the impact of policy change in delivery room resuscitation from routine endotracheal (ET) suctioning of non-vigorous neonates born through meconium-stained amniotic fluid (MSAF) to immediate non-invasive respiratory support. Design Single-centre cohort study. Prospective group (October 2016–September 2017)—non-vigorous neonates born through MSAF managed according to the current (2015) guidance of commencing respiratory support without prior suctioning. Retrospective group (August 2015–July 2016)—non-vigorous neonates born through MSAF who underwent routine ET suctioning. Results 1138 neonates born through MSAF were analysed. No differences in the incidence of meconium aspiration syndrome (MAS), requirement of mechanical ventilation, inhaled nitric oxide or surfactant therapy were found between groups. Less neonatal intensive care unit (NICU) admissions were necessary in the prospective cohort compared with the retrospective group (19.1% vs 55.6%, respectively; p<0.05). Conclusion The policy change towards not routinely suctioning non-vigorous neonates born through MSAF at birth was not associated with an increase in the local incidence of MAS and was associated with fewer NICU admissions.
Nuclear DNA ITS sequence analysis of Asparagus cochinchinensis from different geographical regions in China

Objective The nuclear DNA ITS sequence variation and its correlation to geographical distribution of Asparagus cochinchinensis from different populations in China were studied,the aims were to reveal the difference among different populations and determine the genuineness of A.cochinchinensis. Methods The ITS fragments of 75 samples from 25 populations were amplified and bidirectional sequenced.And they were analyzed using the software of DNAMAN and MEGA 4.Results ITS sequences of three samples from the same areas were almost the same and ITS sequence of 25 populations were different from each other.The variation of ITS2 sequences was bigger than that of ITS1sequences.ITS sequences of Guizhou Province had bigger genetic differentiation and more variable sites and information sites than other provinces had.Clustering results based ITS sequences showed three samples from the same area firstly clustered and then populations from a province clustered.All populations were divided into two branches based on North latitude of 24.6°—36.6°and 22.2°—24.4°,the first branch included the populations of Qinghai,Hunan,and Guizhou Provinces,the second branch included the populations of Zhejiang,Guangdong,Yunnan and Guangxi Province.Conclusion ITS sequences could identify the different populations of A.cochinchinensis. Guizhou Province is the place of genuineness of A.cochinchinensis. Clustering the different populations of A.cochinchinensis primarily relates to the latitude while has little relationship with the longitude.
The impact of Yangtze River discharge on the genetic structure of a population of the rock bream, Oplegnathus fasciatus

ABSTRACT As a rocky reef species, Oplegnathus fasciatus displays significant geographic differences that may be congruent with patterns of molecular variation. We used 10 polymorphism microsatellite loci to characterize the genetic structure and test the impact of ocean currents and the Yangtze River on the population genetic connectivity of the rock bream, O. fasciatus, sampled from Jiaonan (JN), Zhoushan (ZS) and Taiwan (TW). The average number of alleles was 17.78, with a total of 160 alleles, and the average allele value in the East China Sea (ZS = 13.70) was higher than that in the Yellow Sea (JN = 6.70). The individuals at the ZS location showed the highest expected heterozygosity (He = 0.86), Nei's genetic diversity (H = 0.84) and Shannon genetic diversity (I = 2.21). Genetic bottleneck tests showed that individuals had experienced a recent bottleneck effect in the JN location. AMOVA analysis showed that 12.19% of genetic variation existed among populations, indicating significant population genetic differentiation in the species. The values of the population pairwise differentiation index (Fst and Φpt) ranged from 0.01 to 0.29. The UPGMA tree showed two diverged genealogical branches corresponding to sampling localities (Clade A = JN, Clade B = ZS and TW) in the species. The AMOVA and STRUCTURE analyses suggested that O. fasciatus may be composed of two stocks in the examined range, and the freshwater discharge from the Yangtze River might act as a physical barrier to genetic exchange between north and south China stocks of the species.
Adenosine monophosphate kinase (AMPK) expression and activity in the lung

AMPK activity has been implicated in endothelial cell death and vascular smooth muscle proliferation in hypoxia, suggesting that this metabolic sensor participates in vascular pathology. However, molecular mechanisms of AMPK signaling in the lung are poorly understood. Initial studies revealed that the 2 isoforms of AMPK (AMPKα1 and AMPKα2) are expressed at low levels in the rat lung but that hypoxia induces AMPK expression in an isoform‐ and location‐dependent manner. AMPKα1 expression is predominantly induced in the lung periphery and is associated with capillaries while AMPKα2 is expressed in larger vessels. Selective expression of AMPK isoforms extends to distinct pulmonary cell types: pulmonary artery endothelial cells (PAECs) express AMPKα2 while pulmonary microvascular endothelial cells (PMVECs) express AMPKα1. Smooth muscle cells (SMCs) and columnar epithelia express both isoforms. Studies using PAEC, PMVEC, and SMC cultures revealed that AMPK inhibition increases SMC growth and attenuates PMVEC growth. Immunochemical staining indicated that AMPK α1 co‐localizes with the cell adhesion molecule N‐cadherin near regions of cell‐cell contact in PMVECs, results confirmed in co‐immunoprecipitation assays. In conclusion, AMPK expression and function in the lung exhibits both isoform and cell‐type specificity. Supported by research and training grants from NIH.