Miracle-dz/UniFAR-FTUs huggingface dataset:
Geometric Inductive Matrix Completion: A Hyperbolic Approach with Unified Message Passing

Collaborative filtering is a central task in a broad range of recommender systems. As traditional methods train latent variables for user/item individuals under a transductive setting, it requires re-training for out-of-sample inferences. Inductive matrix completion (IMC) solves this problem by learning transformation functions upon engineered features, but it sacrifices model expressiveness and highly depends on feature qualities. In this paper, we propose Geometric Inductive Matrix Completion (GIMC) by introducing hyperbolic geometry and a unified message passing scheme into this generic task. The proposed method is the earliest attempt utilizing capacious hyperbolic space to enhance the capacity of IMC. It is the first work defining continuous explicit feedback prediction within non-Euclidean space by introducing hyperbolic regression for vertex interactions. This is also the first to provide comprehensive evidence that edge semantics can significantly improve recommendations, which is ignored by previous works. The proposed method outperforms the state-of-the-art algorithms with less than 1% parameters compared to its transductive counterparts. Extensive analysis and ablation studies are conducted to reveal the design considerations and practicability for a positive impact to the research community.
Historical Contingency Drives Compensatory Evolution and Rare Reversal of Phage Resistance

Bacteria and lytic viruses (phages) engage in highly dynamic coevolutionary interactions over time, yet we have little idea of how transient selection by phages might shape the future evolutionary trajectories of their host populations. To explore this question, we generated genetically diverse phage-resistant mutants of the bacterium Pseudomonas syringae. We subjected the panel of mutants to prolonged experimental evolution in the absence of phages. Some populations re-evolved phage sensitivity, while others acquired compensatory mutations that reduced the costs of resistance without altering resistance levels. To ask whether these outcomes were driven by the initial genetic mechanisms of resistance, we next evolved independent replicates of each mutant lineage in the absence of phages. We found a strong signature of historical contingency: some mutations were highly reversible across replicate populations, while others were highly entrenched. Through whole-genome sequencing of bacteria over time, we also found that populations with resistance mutations in the same gene acquired more parallel sets of mutations than populations with resistance mutations in different genes, suggesting that compensatory adaptation is also contingent on how resistance initially evolved. Our study identifies an evolutionary ratchet in bacteria-phage coevolution, and may explain previous observations that resistance persists over time in some bacterial populations but is lost in others. We add to a growing body of work describing the key role of phages in the ecological and evolutionary dynamics of their host communities. Beyond this specific trait, our study provides new insight into the genetic architecture of historical contingency, a crucial component of interpreting and predicting evolution.
ARTIGO: A GESTÃO ESTRATÉGICA DO CONHECIMENTO E A RELUTÂNCIA DOS PROFISSIONAIS EM COMPARTILHAR O CONHECIMENTO ORGANIZACIONAL. THE STRATEGICAL MANAGEMENT OF THE KNOWLEDGE AND THE RELUCTANCE OF THE PROFESSIONALS IN SHARING ORGANIZATIONAL KNOWLEDGE

This article articulates the management capacity of push the existing human potential in the organizations to the natural reluctance of the professionals in sharing the knowledge, aiming at to excite this problematic so present one in the organizations and that as much harms the enterprise success. How much to the methodology it is characterized as an eminently bibliographical research, where the methodological procedures involve the inquiry, analysis, synthesis and systematization of ideas from excellent literature, getting information on the current situation of the problem, as well as approaching its different aspects. The findings of this study corroborate the agreement of that in the age of the knowledge and of the inevitable changes, the central point of the enterprise philosophy must be the understanding of that the people are really the resource most important. However, one of the great impediments to the sharing of the knowledge is the trend of the people in wanting to excessively keep to its knowledge, making it difficult the act of the sharing. In the truth, without the appropriate strategical management, hardly the knowledge could be considered a competitive differential. In this direction, the controlling must act efficiently, acquiring knowledge the employees of the importance of this so beneficial attitude, stimulating them and rewarding them for sharing knowledge. With effect, when two people change knowledge between itself, both gain growth linear of information and experiences, however, if both to share its new knowledge with other people, each one giving feedback with questions and improvements, the benefits if become exponential.
Employee involvement in decision making and workers’ performance in selected organizations in ashanti region of Ghana

Employee involvement in decision making plays an important role in organizations because it affects workers’ performance. The study investigated the involvement of employees in decision making and its effect on workers’ performance. Four (4) organizations were selected by simple random sampling technique. They were stratified into two (2) production and two (2) service organizations. Through proportional allocation method of the stratified sampling technique, a total of 500 respondents were selected. Questionnaires were either self-administered or through the face-to-face interview. The data was edited and analyzed with the aid of SPSS software programme. Both descriptive and inferential statistics were used in the analysis. The study found out that employee involvement in decision making impacted positively on workers’ commitment and performance. It was therefore recommended that management should involve employees in decision making on matters which affected the workers and the organizations as a whole.
Fitness costs of pfhrp2 and pfhrp3 deletions underlying diagnostic evasion in malaria parasites

Rapid diagnostic tests based on detection of histidine rich proteins (HRP) are widely used for malaria diagnosis, but parasites carrying pfhrp deletions can evade detection and are increasing in frequency in some countries. Models aim to predict conditions under which pfhrp2 and/or pfhrp3 deletions will increase, but a key parameter – the fitness cost of deletions – is unknown Methods We removed pfhrp2 and/or pfhrp3 from a Malawian parasite clone using CRISPR/Cas9 and measured fitness costs by conducting pairwise competition experiments. Results We observed significant fitness costs of 0.087 ± 0.008 (1 s.e.) per asexual cycle for pfhrp2 deletion and 0.113 ± 0.008 (1 s.e.) for the pfhrp2/3 double deletion, relative to the unedited progenitor parasite. The results demonstrate ∼10% reduced survival of parasites bearing deletions of these loci. Conclusions Prior modelling suggested that diagnostic selection may drive increased frequency of pfhrp2 and pfhrp3 deletions when fitness costs are ≤10%. Our laboratory competition experiments are consistent with costs of pfhrp2/3 deletions lying at this critical tipping point. These results may inform future modelling efforts and help us to understand why pfhrp2/3 deletions are increasing in some locations (Ethiopia/Eritrea) but not in others (Mekong region).
High-Resolution Tandem Mass Spectrometry Indicates Rubisco Activase is Associated with PS I-LHC I-LHC II Membranes

During proteomic investigations examining the mobile LHC II chlorophyll antenna complex associated with Photosystem I (PS I), we identified, with very high confidence, the association of Rubisco Activase with PS I-LHC I-LHC II membranes. Using very rigorous criteria (p-values ≤ 10-5), a total of fifty-three high-quality Rubisco Activase peptides were identified by high resolution tandem mass spectrometry in two biological replicates, each digested with either trypsin or chymotrypsin, independently. Using these criteria, and searching the entire spinach proteome, only proteins previously known to be associated with PS I (the PS I subunits PsaD and PsaL, Lhca1-4, Lhcb1-3), the monomeric Lhcb proteins, Lhcb4-6 (which will be discussed elsewhere), and Rubisco Activase were identified. The presence of Rubisco Activase closely associated with PS I has important implications with respect to the activation of this enzyme and, consequently, the Calvin cycle by PS I, which will be discussed.
Genetic analysis of Caenorhabditis elegans Haspin-like genes shows that hasp-1 plays multiple roles in the germline

Haspin is a histone kinase that promotes error-free chromosome segregation by recruiting the Chromosomal Passenger Complex (CPC) to mitotic and meiotic chromosomes. Haspin remains less well studied than other M-phase kinases and the models explaining Haspin function have been developed primarily in mitotic cells. Here, we generate new mutations in the C. elegans Haspin homologs hasp-1 and hasp-2 and characterize their phenotypes. We show that hasp-1 is responsible for all predicted functions of Haspin and that loss of function of hasp-1 using classical and conditional alleles produces defects in germline stem cell proliferation, spermatogenesis, and confirms its role in oocyte meiosis. Genetic analysis suggests hasp-1 acts downstream of the Polo-like kinase plk-2 and shows synthetic interactions between hasp-1 and two genes expected to promote recruitment of the CPC by a parallel pathway that depends on the kinase Bub1. This work adds to the growing understanding of Haspin function by characterizing a variety of roles in an intact animal. Summary statement We characterize new mutations in the C. elegans homologs of the histone kinase Haspin and show roles in spermatogenesis, germline proliferation and genetic interactions during oocyte meiosis.
Um Método para Extração e Refinamento de Políticas de Acesso baseado em Árvore de Decisão e Algoritmo Genético

O controle de acesso baseado em atributos (ABAC) está cada vez mais popular. No entanto, sua adoção possui uma série de desaﬁos a serem enfrentados. Dentre eles, a deﬁnição e manutenção das políticas de acesso se mostra como um dos maiores desaﬁos, pois essas são tarefas complexas. Este artigo propõe um método de mineração de políticas que utiliza registros de acesso para simpliﬁcar o processo de criação e manutenção de políticas de acesso no ABAC. A proposta utiliza um algoritmo de aprendizado de máquina supervisionado para gerar uma árvore de decisão, que será utilizada para identiﬁcar padrões presentes no registro e gerar uma política de acesso. Esse trabalho também apresenta um método de reﬁnamento das políticas através de um algoritmo genético que insere distorções controladas na política para melhorar os resultados da política. A avaliação foi realizada com dados sintéticos e reais. Os resultados mostram que o método proposto é capaz de gerar políticas corretas, com uma acurácia 10% superior em relação ao estado da arte. Os autores agradecem o apoio da UFPR e auxílio ﬁnanceiro do CNPq e da CAPES, processo número 426701/2018-6, 313844/2020-8 e 432204/2018-0.
Fatiamento Dinâmico de Redes em Computação em Névoa para Usuários Móveis

A Computação em Névoa é responsável por prover recursos computacionais na borda da rede a usuários com diferentes características e demandas. Por meio da virtualização de seus recursos, é possível criar múltiplas Redes Virtuais, ou Fatias de Rede, sobre uma mesma arquitetura física, cada uma atendendo um grupo de usuários. Nesse contexto, avaliar o desempenho de tais redes em diferentes cenários se torna primordial para identiﬁcar pontos fortes e fracos a serem considerados no desenvolvimento de mecanismos para gerenciar a rede. Este artigo apresenta uma análise de desempenho de diferentes abordagens de alocação de Fatias de Rede com o objetivo de otimizar o processo de migração de serviços na névoa. Resultados obtidos no simulador MobFogSim apontam que, devido a variações de demanda, o desempenho da alocação estática dessas redes pode se degradar ao longo do tempo. A alocação dinâmica de fatias de rede se apresentou como uma solução para esse cenário, a depender do custo computacional necessário para a reconﬁguração dessas redes.
Triptolide Shows High Sensitivity and Low Toxicity Against Acute Myeloid Leukemia Cell Lines Through Inhibiting WSTF-RNAPII Complex

Triptolide exhibits superior and broad-spectrum antitumor activity. However, the narrow safety window caused by the toxicity of triptolide limits its clinical applications. Although several characterized targets for triptolide are reported, the association between triptolide and its targets in cancer therapy is not fully understood. Here, we show that acute myeloid leukemia (AML) cell lines are sensitive to triptolide by constructing an in vitro cell and in vivo xenograft models. Meanwhile, the triptolide-induced hepatotoxicity increases with increasing dosages within the xenograft models. Additionally, the expression levels of WSTF-RPB1 are strongly associated with the sensitivity to triptolide in hematological cancer cells and can be downregulated in a dose and time-dependent manner. Finally, we show that optimizing dosing regimens can achieve the same pharmaceutical effect and reduce toxicity. In summary, this study aims to search for triptolide-sensitive cell lines as well as the underlying molecular mechanisms in order to broaden the safety window of triptolide; thus, increasing its clinical utility.
Screening and Validation of p38 MAPK Involved in Ovarian Development of Brachymystax lenok

Brachymystax lenok (lenok) is a rare cold-water fish native to China that is of high meat quality. Its wild population has declined sharply in recent years, and therefore, exploring the molecular mechanisms underlying the development and reproduction of lenoks for the purposes of artificial breeding and genetic improvement is necessary. The lenok comparative transcriptome was analyzed by combining single molecule, real-time, and next generation sequencing (NGS) technology. Differentially expressed genes (DEGs) were identified in five tissues (head kidney, spleen, liver, muscle, and gonad) between immature [300 days post-hatching (dph)] and mature [three years post-hatching (ph)] lenoks. In total, 234,124 and 229,008 full-length non-chimeric reads were obtained from the immature and mature sequencing data, respectively. After NGS correction, 61,405 and 59,372 non-redundant transcripts were obtained for the expression level and pathway enrichment analyses, respectively. Compared with the mature group, 719 genes with significantly increased expression and 1,727 genes with significantly decreased expression in all five tissues were found in the immature group. Furthermore, DEGs and pathways involved in the endocrine system and gonadal development were identified, and p38 mitogen-activated protein kinases (MAPKs) were identified as potentially regulating gonadal development in lenok. Inhibiting the activity of p38 MAPKs resulted in abnormal levels of gonadotropin-releasing hormone, follicle-stimulating hormone, and estradiol, and affected follicular development. The full-length transcriptome data obtained in this study may provide a valuable reference for the study of gene function, gene expression, and evolutionary relationships in B. lenok and may illustrate the basic regulatory mechanism of ovarian development in teleosts.
Genome-Wide Characterization of Serine/Arginine-Rich Gene Family and Its Genetic Effects on Agronomic Traits of Brassica napus

Serine/arginine-rich (SR) proteins are indispensable factors for RNA splicing, and they play important roles in development and abiotic stress responses. However, little information on SR genes in Brassica napus is available. In this study, 59 SR genes were identified and classified into seven subfamilies: SR, SCL, RS2Z, RSZ, RS, SR45, and SC. In each subfamily, the genes showed relatively conserved structures and motifs, but displayed distinct expression patterns in different tissues and under abiotic stress, which might be caused by the varied cis-acting regulatory elements among them. Transcriptome datasets from Pacbio/Illumina platforms showed that alternative splicing of SR genes was widespread in B. napus and the majority of paralogous gene pairs displayed different splicing patterns. Protein-protein interaction analysis indicated that SR proteins were involved in the regulation of the whole lifecycle of mRNA, from synthesis to decay. Moreover, the association mapping analysis suggested that 12 SR genes were candidate genes for regulating specific agronomic traits, which indicated that SR genes could affect the development and hence influence the important agronomic traits of B. napus. In summary, this study provided elaborate information on SR genes in B. napus, which will aid further functional studies and genetic improvement of agronomic traits in B. napus.
Predictive Factors of Cerebral Aneurysm Rerupture After Clipping

Background We aimed to estimate the risk of rerupture after first-time aneurysmal clipping surgery, explore the possible related factors, and assess long-term physical functionality. We hypothesized that the modified Rankin scale (mRS) could serve as an effective substitute for Hunter and Hess scale. Methods This retrospective study included 171 patients with cerebral aneurysmal rupture who had completed aneurysmal clipping treatment and collected their demographic data and medical records. The outcome assessments include neuroimaging records, Hunter and Hess scale, and the mRS scale during hospitalization and follow-up after discharge. The mean length of follow-up was 4.28 years. Results After aneurysmal clipping treatment, 83 patients (48.5%) had subsequently ruptured aneurysms. The scores of the reruptured group on the Hunt and Hess scale and mRS were significantly higher than those of the non-reruptured group. Multiple Cox proportional-hazards regression also showed that postoperative mRS >2, smoking, and two or more aneurysms were potentially important risk factors leading to aneurysm rupture again [the corresponding hazard ratios (HRs) were 5.209, 2.109, and 2.775, respectively] in patients. In addition, the location of an aneurysm on the anterior cerebral artery (ACA) or the posterior communicating (Pcom) artery had a higher risk of rerupture (the corresponding HRs were 1.996 and 2.934, respectively). Conclusions Nearly half of the collected participants experienced the rerupture episode, who had undergone the second-time clipping surgery. Smoking and multiple aneurysms are potential risk factors for aneurysmal rerupture. Most aneurysms are located along the ICA, but aneurysms located at the ACA or Pcom site are most likely to rerupture. As compared with the Hunter and Hess scale, the mRS scale does not have inferior predicting power in following patients' long-term functionalities.
An Epigenetic Alphabet of Crop Adaptation to Climate Change

Crop adaptation to climate change is in a part attributed to epigenetic mechanisms which are related to response to abiotic and biotic stresses. Although recent studies increased our knowledge on the nature of these mechanisms, epigenetics remains under-investigated and still poorly understood in many, especially non-model, plants, Epigenetic modifications are traditionally divided into two main groups, DNA methylation and histone modifications that lead to chromatin remodeling and the regulation of genome functioning. In this review, we outline the most recent and interesting findings on crop epigenetic responses to the environmental cues that are most relevant to climate change. In addition, we discuss a speculative point of view, in which we try to decipher the “epigenetic alphabet” that underlies crop adaptation mechanisms to climate change. The understanding of these mechanisms will pave the way to new strategies to design and implement the next generation of cultivars with a broad range of tolerance/resistance to stresses as well as balanced agronomic traits, with a limited loss of (epi)genetic variability.
Breadth and Specificity in Pleiotropic Protein Kinase A Activity and Environmental Responses

Protein Kinase A (PKA) is an essential kinase that is conserved across eukaryotes and plays fundamental roles in a wide range of organismal processes, including growth control, learning and memory, cardiovascular health, and development. PKA mediates these responses through the direct phosphorylation of hundreds of proteins–however, which proteins are phosphorylated can vary widely across cell types and environmental cues, even within the same organism. A major question is how cells enact specificity and precision in PKA activity to mount the proper response, especially during environmental changes in which only a subset of PKA-controlled processes must respond. Research over the years has uncovered multiple strategies that cells use to modulate PKA activity and specificity. This review highlights recent advances in our understanding of PKA signaling control including subcellular targeting, phase separation, feedback control, and standing waves of allosteric regulation. We discuss how the complex inputs and outputs to the PKA network simultaneously pose challenges and solutions in signaling integration and insulation. PKA serves as a model for how the same regulatory factors can serve broad pleiotropic functions but maintain specificity in localized control.
Non-invasive Vagus Nerve Stimulation in Cerebral Stroke: Current Status and Future Perspectives

Stroke poses a serious threat to human health and burdens both society and the healthcare system. Standard rehabilitative therapies may not be effective in improving functions after stroke, so alternative strategies are needed. The FDA has approved vagus nerve stimulation (VNS) for the treatment of epilepsy, migraines, and depression. Recent studies have demonstrated that VNS can facilitate the benefits of rehabilitation interventions. VNS coupled with upper limb rehabilitation enhances the recovery of upper limb function in patients with chronic stroke. However, its invasive nature limits its clinical application. Researchers have developed a non-invasive method to stimulate the vagus nerve (non-invasive vagus nerve stimulation, nVNS). It has been suggested that nVNS coupled with rehabilitation could be a promising alternative for improving muscle function in chronic stroke patients. In this article, we review the current researches in preclinical and clinical studies as well as the potential applications of nVNS in stroke. We summarize the parameters, advantages, potential mechanisms, and adverse effects of current nVNS applications, as well as the future challenges and directions for nVNS in cerebral stroke treatment. These studies indicate that nVNS has promising efficacy in reducing stroke volume and attenuating neurological deficits in ischemic stroke models. While more basic and clinical research is required to fully understand its mechanisms of efficacy, especially Phase III trials with a large number of patients, these data suggest that nVNS can be applied easily not only as a possible secondary prophylactic treatment in chronic cerebral stroke, but also as a promising adjunctive treatment in acute cerebral stroke in the near future.