Miracle-dz/UniFAR-FTUs huggingface dataset:
Micro-RNAs: Perspectivas atuais da regulação da expressão gênica em eucariotos.

Os micro-RNAs (miRNAs) constituem uma familia de pequenos RNAs endogenos naocodificadores de proteinas, de aproximadamente 21-24 nucleotideos de comprimento, que regulam a expressao genica atraves da repressao traducional ou degradacao dos seus mRNAs complementares. Sao oriundos de pequenas estruturas precursoras endogenas do tipo stem-loop e funcionam como reguladores de diversos processos dos eucariotos como proliferacao, diferenciacao, desenvolvimento e morte celular, imunidade, interacao entre virus e celula hospedeira, metabolismo, conformacao cromossomica, oncogenese, entre outros. Diversos estudos demonstram que a expressao dos miRNAs e tecido e estagio-especifica, ou seja, os miRNAs sao expressos de forma temporal dependo do estagio de desenvolvimento celular e/ou tissular, alem de serem expressos tambem de forma bem particular nos mais variados tecidos. Ainda, muitas doencas humanas mostram-se associadas a superexpressao ou a deficiencia na expressao de determinados miRNAs. Desse modo, essa revisao de literatura tem por objetivo elucidar os mecanismos envolvidos na biogenese e funcionalismo destas pequenas moleculas, suas implicacoes em estados fisiologicos normais e anomalos, e discutir suas possiveis utilidades clinicas como ferramentas diagnosticas, prognosticas e terapeuticas de muitas doencas nas quais os mesmos estao envolvidos, uma vez que pouco se conhece ainda sobre esse novo universo da regulacao genica.
In-situ synthesis of aluminum/nano-quasicrystalline Al-Fe-Cr composite by using selective laser melting

In this research, Al-Fe-Cr quasicrystal (QC) reinforced Al-based metal matrix composites were in-situ manufactured by using selective laser melting (SLM) from the powder mixture. The parametrical optimization based on our previous work was performed with focus on laser scanning speed. From the optimized parameters, an almost dense (99.7%) free-crack sample was fabricated with an ultra-fine microstructure. A phase transition from decagonal QC Al65Cu25Fe10Cr5 to icosahedral QC Al91Fe4Cr5 could be observed as laser scanning speed decreases. Differential scanning calorimetry curves show that the QC phase is quiet stable until 500 °C. And then, the effects of annealing temperature on the microstructural and mechanical properties were determined. The results indicate that the recrystallization and growth behavior of α-Al grains could be prevented by QC particle during annealing. Furthermore, the growth of QC particle, which tends to form a porous structure, leads an improvement of Young modulus and decline of ductility.
Genome Informatics for High-Throughput Sequencing Data Analysis

This thesis introduces three different algorithmical and statistical strategies for the analysis of high-throughput sequencing data. First, we introduce a heuristic method based on enhanced suffix arrays to map short sequences to larger reference genomes. The algorithm builds on the idea of an error-tolerant traversal of the suffix array for the reference genome in conjunction with the concept of matching statistics introduced by Chang and a bitvector based alignment algorithm proposed by Myers. In practice, for some suffix i of a read of length m, the suffix array is traversed until a mismatch occurs or all m− i+ 1 characters of the suffix have been matched. In the latter case, the matching continues with the subsequent suffix i+ 1. Otherwise, the algorithm evaluates alternative branches along the matching path of suffix i. The longest path will be selected as a seed alignment and the mapping continues with the suffix i + 1. The use of suffix link intervals helps to avoid remapping of characters that have already been matched in the traversal for suffix i. Note that a matching path does not necessarily end in a singleton interval, i.e. a leaf of the equivalent suffix tree. This implicitly allows multiple seed matches. In this way, it is possible to generate m− l seed alignments in O(m) time, where l is a predefined minimum seed length. The seed alignments are subsequently used to trigger a number of bitvector based dynamic programming alignments. While this algorithm has quadratic complexity in theory, the encoding of characters as bitvectors leads to a linear runtime in practice. Based on user defined parameters either all read-reference alignments below a given error threshold or only the best read-reference alignments are reported. The algorithm supports paired-end and mate-pair alignments and the implementation offers methods for primer detection, primer and poly-A trimming. In our own benchmarks as well as independent benchmarks this tool outcompetes other currently available tools with respect to sensitivity and specificity in simulated and real data sets for a large number of sequencing protocols. Second, we introduce a novel dynamic programming algorithm for the spliced alignment problem. The advantage of this algorithm is its capability to not only detect co-linear splice events, i.e. local splice events on the same genomic strand, but also circular and other non-collinear splice events. This succinct and simple algorithm handles all these cases at the same time with a high accuracy. While it is at par with other stateof-the-art methods for collinear splice events, it outcompetes other tools for many non-collinear splice events. The application of this method to publically available sequencing data led to the identification of a novel isoform of the tumor suppressor gene p53. Since this gene is one of the
Kinetics of thermal degradation of unsaturated polyester resin and their composite with porcelain powder: determination of activation energy

The thermal degradation of an unsaturated polyester resin and the composite fabricated with porcelain powder obtained from ceramic waste and the resin was studied under non isothermal conditions in argon atmosphere. For kinetic analysis, the TGA/DTG data obtained at three different heating rates were processed by Friedman, Kissinger-Akahira-Sunose and Flynn-Wall-Ozawa methods. The analysis indicates a complex mechanism of degradation of composite.
Testing the link between perceived and actual risk of predation: mosquito oviposition site selection and egg predation by native and introduced fish

Summary According to the threat-sensitivity hypothesis, prey avoidance behaviour should reflect the magnitude of predation risk. Since predation can strongly affect reproduction success, ovipositing females are expected to adaptively adjust their predator avoidance response, or local breeding patch selectivity, in accordance with the perceived level of threat posed for their progeny by specific predators. However, association between avoidance and predation can be disrupted when the prey and the predator lack spatiotemporal opportunities to co-evolve, such as in cases of non-native predator introductions. We examined the interactions between mosquitoes (from the genus Culex) and three species of sympatric predaceous freshwater fish, a native cyprinid Barbus paludinosus, a cichlid Pseudocrenilabrus philander and an introduced poeciliid, the western mosquitofish Gambusia affinis. In an outdoor mesocosm experiment, we quantified patterns of Culex oviposition site selection across fish species using free-roaming, caged and fish-free treatments. In a complementary laboratory experiment, we tested the effectiveness of each fish species as predators of mosquito eggs and larvae. Synthesis and applications. We found evidence for: (i) mosquito egg raft predation by free-roaming fish; (ii) fish-specific avoidance by ovipositing Culex; and (iii) a positive association between fish-specific oviposition avoidance and fish-specific efficiency as an egg predator. These results contribute towards a better understanding of predator–prey co-evolution, predator-borne cue recognition, and suggest local native fish, the southern mouthbrooder Pseudocrenilabrus philander, as an alternative to Gambusia for the biocontrol of Culex mosquitoes.
Advances in the use of endolysins: general remarks, structure, applications, genetic modifications and perspectives

The increase in the number of multirresistant bacteria to antibiotics makes necessary to find alternatives for the control and/or prevention of infectious diseases. Bacteriophages and their enzymes constitute one of such alternatives. The bacteriophages enzymes that cause death of bacteria by digestion of peptidoglycan are known as endolysins which can be used as enzybiotics. Endolysins have been used successfully as antimicrobial agents in areas like human medicine, veterinary medicine, agricultural sector and industry. Unlike conventional antibiotics, that are not cell selective, endolysins destroy only the target pathogenic bacterium for which the original bacteriophage was specific, without affecting the natural microflora of the organism, food or environment in which they are used. Generally endolysins structure consists of two functional domains, comprising the catalytic domain at the N-terminal end, and the cell wall recognition domain, at the C-terminal end. This allows endolysins to have enough plasticity to be the subject of genetic engineering modifications in such a way to increase its catalytic activity, stability and host range. All these features make endolysins a promising option for the biocontrol of pathogenic bacteria.
Analysis of the Current Status of Korea's Informatics Education in 2017

: This study analyzed the current status of Korea Informatics education and the results of the SW education effectiveness of SW Education Research School in 2017. As a result of analyzing the current operation status of the SW Education Research School, SW education devices and labs in middle and high schools were extremely poor compared to elementary schools. In the pre-and post-test results of SW education computational thinking-related problem-solving ability, elementary and middle schools showed an overall improvement in the post-test compared to the pre-test, whereas the improvement level in high schools was low even though annual SW training time was the greatest. The purpose of this study is to suggest the implications for the stable settlement of Informatics education through quantitative analysis although this analysis didn’t reflect the environment or background of each school.
Swift and accurate-investigation of remote laser cutting for open cell foams

It is well known that the global climate change is the largest challenge for the society of the 21th century. For managing the resulting consequences, innovative materials become more and more important for energy efficient applications. Open cell metal foam contributes promising solutions to the light weight design, battery applications and renewable energy harvesting. Still, challenges are present concerning the cutting into a defined shape. The remote laser cutting offers a solution for decreasing the production costs as well as the needed component accuracy. Our investigations consider that this technique has a high potential concerning cutting speed, which was increased more than 500% compared to state of the art laser separation. Next to that, the contour accuracy was improved as well, resulting in tolerances with less than 60 μm. This paper offers insight into the viability of remote laser cutting in overcoming the challenges dealing with mechanical milling or grinding. Investigating the process concerning thermal stress input as well as particle attachments will be the next steps in the future.
Applying Integrating Testing of Microservices in Airline Ticketing System

Microservices have been applied on several major systems including airlines. The characteristics of microservices which are independent and also interconnected need to be tested. The testing is done to preserve the system’s sequential stage processes, especially the online ticket reservation. Four features which are the search, booking, payment, and booking info feature are tested. This research performed three stages of testing on the microservices, those are unit testing, integrity testing, and end-to-end testing. Unit testing was conducted to test every function on every nodule, integrity testing was done to test interconnection between microservices, and end-to-end testing was to test the final results obtained after the unit test and integrity test were carried out. The three stages of testing must be done sequentially. The system on the airline provides the valid or correct response. Three stages of testing can be applied on other airlines by obtaining a legal API and can be accessed publicly.
Spatio‐temporal development of vegetation die‐off in a submerging coastal marsh

In several places around the world, coastal marsh vegetation is converting to open water through the formation of pools. This is concerning, as vegetation die‐off is expected to reduce the marshes' capacity to adapt to sea level rise by vegetation‐induced sediment accretion. Quantitative analyses of the spatial and temporal development of marsh vegetation die‐off are scarce, although these are needed to understand the bio‐geomorphic feedback effects of vegetation die‐off on flow, erosion, and sedimentation. In this study, we quantified the spatial and temporal development of marsh vegetation die‐off with aerial images from 1938 to 2010 in a submerging coastal marsh along the Blackwater River (Maryland, U.S.A). Our results indicate that die‐off begins with conversion of marsh vegetation into bare open water pools that are relatively far (> 75 m) from tidal channels. As vegetation die‐off continues, pools expand, and new pools emerge at shorter and shorter distances from channels. Consequently larger pools are found at larger distances from the channels. Our results suggest that the size of the pools and possibly the connection of pools with the tidal channel system have important bio‐geomorphic implications and aggravate marsh deterioration. Moreover, we found that the temporal development of vegetation die‐off in moderately degraded marshes is similar as the spatial die‐off development along a present‐day gradient, which indicates that the contemporary die‐off gradient might be considered a chronosequence that offers a unique opportunity to study vegetation die‐off processes.
Classificadores e Multi-classificadores para a Predição de Promotores em Bacillus subtilis

Um dos principais objetivos da bioinformática é a identificação de genes em seqüências descaracterizadas de DNA. A melhoria de técnicas de predição de promotores pode ser um avanço significativo para o desenvolvimento de métodos mais eficientes de predição de genes (ab initio). Neste trabalho, apresentamos uma comparação empírica de técnicas individuais de aprendizado de máquina (Naive Bayes, Árvores de Decisão, Máquinas de Vetores de Suporte, Redes Neurais do tipo VotedPerceptron, PART e k-Vizinhos Mais Próximos) e sistemas multiclassificadores (Bagging e Adaboosting) à tarefa de predição de promotores em Bacillus subtilis. Para isso, foi construída uma base de dados com seqüências de promotores e nãopromotores desse organismo.
DiD 48

The present paper deals with the analysis of spoken and written english produced by non-native speakers, namely, Lithuanian eFL (english as a foreign language) learners. The aims of the article are twofold. First, it introduces two corpora of english that represent the spoken (corpus LinDsei-LiTH) and the written language (corpus LiCLe) of Lithuanian learners, both corpora being the first electronic databases of Lithuanian learners of english. second, the article demonstrates how a contrastive study of spoken and written learner language may contribute to a better understanding of mother tongue influence in the process of foreign language learning. specifically, the paper will present findings of a case study of learner language, focused on the analysis of participial -ing clauses. The linguistic findings are seen as a starting point for a further discussion of linguistic and pedagogical implications and applications of learner corpus research.
Phytochrome, Gibberellins, and Hypocotyl Crowth

The possible involvement of gibberellins (CAs) in the regulation of hypocotyl elongation by phytochrome was examined. Under white light the tal1 long hypocotyl (Ih) cucumber (Cucumis sativus L.) mutant, deficient in a type B-like phytochrome, shows an increased "responsiveness" (defined as response capability) to applied CA, (the main endogenous active CA) compared to the wild type. Supplementing far-red irradiation results in a similar increase in responsiveness in the wild type. Experiments involving application of the precursor GA, and of an inhibitor of CA, inactivation suggest that both the GA, activation and inactivation steps are phytochrome independent. Endogenous CA levels of whole seedlings were analyzed by combined gas chromatography-mass spectrometry using deuterated interna1 standards. The levels of GA, (and those of CA,,, the inactivated CA,) were lower in the //I mutant under low-irradiance fluorescent light compared with the wild type, similar to wild type under higher irradiance light during the initial hypocotyl extension phase, and higher during the phase of sustained growth, in which extension involved an increase in the number of cells in the upper region. In all cases, growth of the Ih mutant was more rapid than that of the wild type. It is proposed that CA, and phytochrome control cell elongation primarily through separate mechanisms that interact at a step close to the terminal response.
HOPF BIFURCATION OF FPSO MOORED SYSTEMS WITH TERMS OF TYPE V|V|: AN ANALYSIS USING THE CENTRAL MANIFOLD THEOREM AND INTEGRAL AVERAGING TECHNIQUES

this kind are common in mechanics, particularly in those involving viscous fluid forces that appear in mechanical, aeronautical and ocean engineering. Nowadays the current use of computer simulators enables the analyst to address the problem under an exhaustive non-linear time domain approach. Alternatively, some other techniques of Applied Mathematics as the Central Manifold Theorem (CMT) and the Integral Averaging Method (IAM) may be proper to qualify and quantify Hopf bifurcation scenarios. For systems with terms of type x x & &
Regulation of CNGA1 Channel Gating by Interactions with the Membrane*

Cyclic nucleotide-gated (CNG) channels are expressed in rod photoreceptors and open in response to direct binding of cyclic nucleotides. We have previously shown that potentiation of CNGA1 channels by transition metals requires a histidine in the A′ helix following the S6 transmembrane segment. Here, we used transition metal ion FRET and patch clamp fluorometry with a fluorescent, noncanonical amino acid (3-(6-acetylnaphthalen-2-ylamino)-2-aminopropanoic acid (Anap)) to show that the potentiating transition metal Co2+ binds in or near the A′ helix. Adding high-affinity metal-binding sites to the membrane (stearoyl-nitrilotriacetic acid (C18-NTA)) increased potentiation for low Co2+ concentrations, indicating that the membrane can coordinate metal ions with the A′ helix. These results suggest that restraining the A′ helix to the plasma membrane potentiates CNGA1 channel opening. Similar interactions between the A′ helix and the plasma membrane may underlie regulation of structurally related hyperpolarization-activated cyclic nucleotide-gated (HCN) and voltage-gated potassium subfamily H (KCNH) channels by plasma membrane components.
Recent developments in methods intracellulary localizing glutathione within plant tissues and cells (a minireview)

This article reviews the current knowledge of the intracellular distribution of glutathione (GSH and t-GSH) in different plants and plant tissues under various abiotic and biotic stress situations and artificial modulations of glutathione contents. Monochlorobimane fluorescence of GSH is described for light microscopical investigations allowing GSH in cytoplasm and in the nucleus to be distinguished. Further, a specific antibody, which recognizes t-GSH, was used in order to demonstrate the distribution of glutathione in different cell compartments for light and electron microscopical investigations. The labeling shows different glutathione contents in the cell compartments with high staining intensity in mitochondria.
Ischemic Injury Elicits the Unconventional Secretion of Protein Hallmarks of Alzheimer’s Disease Onset as Seeds for Interneuronal Propagation

Objectives: Understanding the ischemic injury contribution to Alzheimer’s disease (AD) onset, pinpointing to post-translational modifi cations, turnover alterations, and secretion of proteins and networks identified as AD hallmarks. Materials: Neuronal cultures prepared from hippocampi of E18-E19 embryos from pregnant Sprague Dawley rats. 5%CO2: 95%N2 gaseous mixtures (Sapio); hypoxia chamber (BillupsRothenberg). Methods: DIV8 neurons were subjected to oxygen and glucose deprivation (OGD). After medium replacement with a glucose-free balanced salt solution (ogR), cells were incubated for 3 hours in the chamber saturated with the gaseous mixture. The restoration solution (glucose and B27) was administrated to neurons (ogR) for one hour (R1h) or overnight (R16h). Results: We observed Tau and amyloid precursor protein (APP) post-translational and protein level modifi cations after OGD/ogR. Tau cleavage and secretion occurs at R1h through microvesicles (MVs) population, including LC3 and/or LAMP1 positive vesicles, marker of autophagy-mediated secretion (exophagy). In MVs extract we also identified αand β-C-terminal fragments (CTFs) of APP, and the peptidyl prolyl cis/trans isomerase Pin1. Discussion: MVs represent an intercellular communication delivering multiple cargo with benefi cial or harmful messages [1]. Thus, differences in MVs contents after OGD/ogR suggest that ischemia leads to a robust upheaval with the autophagic mechanisms activation resultant in neuron-to-neuron transfer of material with neurodegenerative potential. Conclusions: OGD treatment leads to mis-processed protein unconventional secretion also including exophagy pathway. These proteins represent seeds for protein aggregation according to the “prion-like” propagation mechanism [2] that may represent an early event in AD and proteinopathies.
Predicting Change Proneness using Object-Oriented Metrics and Machine Learning Algorithms

— Open Source Software (OSS) has become a huge part of today’s software market and a good source for investments. The establishment of the “National Program for Free & Open Source Software Technology” by the top research center (KACST) in Saudi Arabia to encourage the use of OSS within the community is a major motivation to our work. OSS comes with numerous challenges, one of which is constant change. Being able to identify and measure the change proneness in open source software will ensure saving resources like time and effort. In this paper, we measure the capability of classes of machine learning algorithms to predict change proneness in OSS by using object-oriented metrics. Four classes of machine learning algorithms were considered: Probability-based, Function-based, Instance-based and Tree-based. One complete version of the OSS was used as a training set and tested on the subsequent version to predict the change. The machine learning algorithms were compared based on accuracy, specificity, sensitivity and root mean squared error. We found that nearest neighbor algorithm performed better than the other algorithms in terms of sensitivity and specificity. In the future, we plan to test with different parameters to find a better prediction model for software change proneness.