Miracle-dz/UniFAR-FTUs huggingface dataset:
A computational framework to analyze human genomes

The advent of genomic technologies has led to the current genomic era. Large-scale human genome projects have resulted in a huge amount of genomic data. Analyzing human genomes is a challenging task including a number of key steps from short read alignment, variant calling, and variant annotating. In this paper, the state-of-the-art computational methods and databases for each step will be analyzed to suggest a practical and efficient guideline for whole human genome analyses. This paper also discusses frameworks to combine variants from various genome analysis pipelines to obtain reliable variants. Finally, we will address advantages as well as discordances of widely-used variant annotation methods to evaluate the clinical significance of variants. The review will empower bioinformaticians to efficiently perform human genome analyses, and more importantly, help genetic consultants understand and properly interpret mutations for clinical purposes.
Pre-IPO Hype by Affiliated Analysts: Motives and Consequences

We provide the first study of underwriter-affiliated analysts’ pre-IPO research coverage and its impact on stock prices. Using proprietary data on a sample of Chinese IPOs, we document that affiliated analysts make highly overoptimistic forecasts about IPO clients. Analyst hype inflates both the offer price and the postmarket price. Consistent with the sentiment theory, IPO investors are insensitive to analyst hype because the offer price is set sufficiently lower than the postmarket price. We utilize a regulatory change as a quasi-experiment to establish that pre-IPO analyst bias is due to intentional hype. Our analysis contributes to the debate about recent US regulatory changes on pre-IPO analyst coverage.
Aalborg Universitet Genomic insights into Candidatus Amarolinea aalborgensis gen . nov . , sp . nov . , associated with settleability problems in wastewater treatment plants

ettleability of particles in activated sludge systems can be impaired by an overgrowth of filamentous bacteria, a problem known as bulking. These filaments re often members of the phylum Chloroflexi, sometimes reaching abundances in excess of 30% of the biovolume. The uncultured Chloroflexi phylotype, andidatus Amarolinea, has been observed in high abundances in Danish full-scale activated sludge systems by 16S rRNA gene amplicon surveys, where it as been associated with bulking. In this study, fluorescence in situ hybridization was applied to confirm their high abundance, filamentous morphology, nd contribution to the interfloc bridging that characterizes filamentous bulking. Furthermore, genome-centric metagenomics using both Illumina and xford Nanopore sequencing was used to obtain a near complete population genome (5.7 Mbp) of the Ca. Amarolinea phylotype, which belongs to the roposed novel family Amarolineaceae within the order Caldilineales of Chloroflexi. Annotation of the genome indicated that the phylotype is capable of erobic respiration, fermentation, and dissimilatory nitrate reduction to ammonia. The genome sequence also gives a better insight into the phylogenetic nd evolutionary relationships of the organism. The name Candidatus Amarolinea aalborgensis is proposed for the species. artic © 2018 The Authors. Published by Elsevier GmbH. This is an open access
A Machine Learning based Intelligent Agent for Human Resource Planning in IC Design Service Industry

IC Design has been an industry which provides flexible application-specific integrated circuit (ASIC) services enabling semiconductor manufacturing companies for flexible decision. Although the industry influences semiconductor supply chain significantly, capacity portfolio and planning issues of IC design industry is seldom mentioned in the past studies. For IC design service industry, the main productivity denotes to IC design which is influenced by the performance of project management from workforce allocation. The purpose of this study is to develop an intelligent agent to predict the workforce required for each wafer production service project, and thus based on the prediction, the intelligent agent is able to provide an IC design service company with workforce allocation strategy. Featuring learning algorithms and analyzing from the existing data, the study trains a XG Boosting model combining Genetic Algorithm based parameter optimization mechanism. The proposed intelligent agent contributes to Total Resource Management (TRM) to enhance productivity, reduce costs and intelligence management.
Analisis Sentimen Calon Presiden Indonesia 2019 Berdasarkan Komentar Publik Di Facebook

Dalam penelitian ini akan dilakukan analisis sentimen terhadap calon presiden Indonesia tahun 2019 berdasarkan komentar publik di jejaring sosial Facebook. Selanjutnya akan melalui beberapa tahapan dalam melaukan analisis sentimen, antara lain adalah tahap pengumpulan data, data correction, preprocessing data, dan klasifikasi menggunakan Naïve Bayes Classifier serta dilakukan asosiasi teks. Hasil dari penelitian ini diperoleh bahwa calon presiden Joko Widodo didapatkan postingan sebanyak 40 data dan calon presiden Prabowo Subianto didapatkan 12 data postingan dengan pengumpulan data pada tanggal 17 april 2019 sampai 22 mei 2019. Dari data sebanyak 5.000 komentar yang dipilih secara acak dan melalui tahap preprocessing menghasilkan polaritas sentimen, Joko Widodo memeperoleh 85% untuk sentimen positif, 15% sentimen negatif. Sedangkan Prabowo Subianto memperoleh 76% sentimen positif, dan 24% sentimen negatif. Untuk hasil klasifikasi menggunakan Naïve Bayes Classifier memperoleh hasil tingkat akurasi sebesar 86,4%, serta kata yang berasosiasi dengan kata masyarakat terhadap Joko Widodo didapatkan kata upaya, mental, dan kondisi untuk sentimen positif dan kata pemerintahan, pembangunan, kelompok untuk sentimen negatif. Sedangkan yang berasosiasi dengan kata masyarakat terhadap Prabowo Subianto didapatkan kata sistem, berkomitmen, dan kritis untuk sentimen positif dan kata bodohi, kelayakan, diusung untuk sentimen negatif.
Estimation of the Impact of Contextual Variables in Stochastic Frontier Production Function Models Using Data Envelopment Analysis : Two-Stage versus Bootstrap Approaches

Production Function Models Using Data Envelopment Analysis: TwoStage versus Bootstrap Approaches Rajiv Banker Fox School of Business and Management, Temple University, Philadelphia, Pennsylvania 19122, banker@temple.edu Ram Natarajan School of Management, The University of Texas at Dallas, Richardson, Texas 75083, nataraj@utdallas.edu Daqun Zhang College of Business, Texas A&M University-Corpus Christi, Corpus Christi, Texas 78412, david.zhang@tamucc.edu
Procedural justice and the implementation of community wind energy projects

In policy and activist discourses there is often an expectation that community wind energy projects will avoid the conflicts and local opposition often associated with private-developer-led developments. However, the empirical validity of this assertion has not been widely investigated. In previous research on private-developer wind projects, the fairness of decision-making processes (‘procedural justice’) during project implementation has been identified as an important factor in shaping local acceptance, but has not been deeply studied in relation to community-led schemes. Using in-depth qualitative research of a proposed community wind project in South Yorkshire, this paper examines stakeholder interpretations of procedural justice during the design and siting of this scheme. Although the project leaders explicitly aimed for a fair and ‘democratic’ implementation process, considerable conflict emerged over whether this goal was achieved. The analysis shows that these conflicting views were the result, firstly, of different normative expectations of what ‘procedural justice’ actually meant and involved, and, secondly, of contrasting stakeholder experiences of the decision processes that were utilised. It cannot be assumed that community wind projects will always be considered procedurally just at the local level, with much resting on the details of how they are undertaken.
ON THE OTHER HAND: THE COSTS AND BENEFITS OF LEFT-HANDEDNESS

Left-handers have been persecuted by right-handers for millennia. This right bias is evident cross-culturally, linguistically (right is literally and figuratively ‘right’, with lefties being described as ‘gauche’, ‘sinister’ and ‘cack-handed’), and environmentally (e.g., equipment design, including power tools, ticket machines, and lecture-room desks). Despite this, the proportion of left-handers has remained constant at approximately 10% of the hominid population, implying that though there are costs associated with left-handedness (if there were not, the proportions of left- and right-handers would be 50:50), left handers must also enjoy fitness advantages that maintain the genes for left-handedness in the population. This paper reviews the costs and benefits of being left-handed, exploring research examining the effects of handedness on brain structure, cognitive function, and human behaviour. The research confirms a variety of left-hander advantages, including some cognitive superiorities, higher wages, and greater sporting and fighting prowess. On the other hand, left-handedness is also associated with significant fitness costs, including an increased risk of accidents, higher substance abuse susceptibility, and earlier death, in comparison with right-handers. In sum, left-handedness confers both costs and benefits, with the latter outweighing the former, maintaining the genes for left-handedness in the population.
Association of Obstructive Sleep Apnea with Aortic Dilatation in Hypertensive Men of Dominican Descent in an Outpatient Clinic ISSN : 2375-7310

*Corresponding author: Constantine E. Kosmas, MD, PhD, 168-24 Powells Cove Blvd., Beechhurst, New York 11357, E-mail: cekosmas1@ gmail.com Citation: Guzman E, Silverio D, Martinez I, Hilario E, Salcedo MD, Montan PD and Kosmas CE (2018) Association of Obstructive Sleep Apnea with Aortic Dilatation in Hypertensive Men of Dominican Descent in an Outpatient Clinic. Enliven: Clin Cardiol Res 5(1): 001.
Title Design , Implementation , and Evaluation of Proxy Caching Mechanisms for Video Streaming Services

The proxy mechanism widely used in WWW systems offers low-delay and scalable delivery of data by means of a “proxy server. ” By applying a proxy mechanism to video streaming systems, high-quality and low-delay video distribution can be accomplished without imposing extra load on the system. We have proposed proxy caching mechanisms to accomplish the high-quality and highly interactive video streaming services. In our proposed mechanisms, a video stream is divided into blocks for efficient use of the cache buffer and the bandwidth. A proxy retrieves a block from a server, deposits it in its local cache buffer, and provides a requesting client with the block in time. It maintains the cache with limited capacity by replacing unnecessary cached blocks with a newly retrieved block. The proxy cache server also prefetches video blocks that are expected to be required in the near future in order to avoid cache misses. In addition, the quality of cached video data can be adapted appropriately in the proxy to cope with the client-to-client heterogeneity, in terms of the available bandwidth, end-system performance, and user preferences on the perceived video quality. Furthermore, we have proposed cooperative proxy caching mechanisms where proxies communicate with each other, and retrieve missing video data from an appropriate server by taking into account transfer delay and offerable quality. In this thesis, to verify the practicality of our mechanisms, we design and implement them on a real system for MPEG-4 (Moving Picture Experts Group) video streaming services, and conduct experiments. We employ off-the-shelf and common applications for the server and client systems. Through evaluations conducted from several performance aspects, it is shown that our proxy caching system can provide users with a continuous and
Military Spending and Inequality : Panel Granger Causality Test

The relationship between military spending and economic inequality is not well documented within the empirical literature, while numerous studies have uncovered the linkages between military spending and other macroeconomic variables, such as economic growth, unemployment, purchasing power parity, black market premium, poverty and investment. The purpose of this article is to examine the causal relationship between military spending and inequality using BVC and SIPRI data across 58 countries from 1987 to 1999. Panel unit root tests indicate that two inequality measures (Theil and EHII) under consideration are likely to be non-stationary. The authors’ work addresses the adverse implications of modeling with non-stationary variables, since this omission casts serious doubt on the reliability of the relationship between military spending and inequality. The recent developed panel Granger non-causality tests provide no evidence to support the causal relationship in either direction between the military spending and the change in economic inequality. The results are consistently robust to alternative data sources for military spending, to alternative definitions of the inequality measures, to the log transformation of the military spending, to the deletion of some data points, and to the division of OECD and non-OECD countries. Finally, the impulse responses and variance decompositions based on the panel vector autoregressive regression model are consistent with the findings relied on Granger non-causality tests. ∗We thank Ron Smith, Jurgen Brauer, Yih-Luan Chyi, Chao-Hsi Huang, Jenn-Hong Tang, Michael Brzoska (Associate Editor), and anonymous referees for their valuable comments on earlier drafts of this article. The data employed in this article, supplementary material, Appendix Table and Figure can be found at http://www.prio. no/jpr/datasets. We are grateful to the financial support from the National Science Council of Taiwan in the form of grant NSC-95-2415-H-007-008. Please direct correspondence to Eric Lin at Department of Economics, National Tsing Hua University, Hsin-chu, Taiwan 30013; slin@mx.nthu. edu.tw.
Gr upSM Interaction of Mycobacterium tuberculosis with the Host Cells : A Focus in the Molecular Mechanism Involved in Trafficking and Autophagy

Zarelli VE1#, Giai C1# and Colombo MI1* Laboratory of Cellular and Molecular Biology, Institute of Histology and Embryology, National University of Cuyo, Mendoza, Argentina #authors contributed equally to this chapter *Corresponding author: Colombo MI, Laboratory of Cellular and Molecular Biology, Institute of Histology and Embryology (IHEM) CONICET, Faculty of Medical Sciences, National University of Cuyo, Mailbox 56, University Center, San Martín General Park, 5500 Mendoza, Argentina, Tel: +54-261-4494143, Ext 2690; Fax: +54-261-4494117, E mail: mcolombo@fcm. uncu.edu. ar
Investigating the Relationship between Intellectual Capital and Company Performance in Non-financial Sector of Pakistan

The aim of this research work is to understand and examine the impact of the intellectual capital and performance of non-financial companies in Karachi Stock Exchange. Intellectual capital is measured by a value added intellectual coefficient (VAIC) method and performance of the companies is measured by return on equity (ROE). Firm size, firm growth and total debt are used as control variables. Panel data is collected from the audited annual reports of the 55 nonfinancial companies of Karachi stock exchange from 2005 to 2012. The regression finding reveals that there is a positive and significant relationship between VAIC and return on equity (ROE). Moreover, it has been also examined the human capital play a vital role in overall performance of the companies because human capital efficiency has a Muhammad Shoukat Malik, Mustabsar Awais, Wateen Iqbal, Tehrim Iqbal, Sehrish KhanInvestigating the Relationship between Intellectual Capital and Company Performance in Non-financial Sector of Pakistan EUROPEAN ACADEMIC RESEARCH Vol. III, Issue 10 / January 2016 10563 significant relation with return on equity (ROE). The first limitation of this study is that the results cannot be applied to the financial sector of the KSE and also not to the companies of the other stock exchanges
CLP 36 is a Negative Regulator of GPVI Signaling in Platelets

Rationale: At sites of vascular injury exposed subendothelial collagens trigger sudden platelet adhesion and aggregation thereby initiating normal hemostasis but can also lead to acute ischemic diseases such as myocardial infarction or stroke. The glycoprotein (GP)VI/Fc receptor γ(FcR)-chain complex is a central regulator of these processes as it mediates platelet activation on collagens through a series of tyrosine phosphorylation events downstream of the FcR-chain-associated immunoreceptor tyrosine-based activation motif (ITAM). GPVI signaling has to be tightly regulated to prevent uncontrolled intravascular platelet activation, but the underlying mechanisms are not fully understood. Objective: We studied the role of PDZ and LIM domain (PDLIM) family member CLP36 in platelet physiology in vitro and in vivo. Methods and Results: We report that CLP36 acts as a major inhibitor of GPVI-ITAM signaling in platelets. Platelets from mice either expressing a low amount of a truncated form of CLP36 lacking the LIM-domain (Clp36) or lacking the whole protein (Clp36) displayed profound hyperactivation in response to GPVI agonists whereas other signaling pathways were unaffected. This was associated with hyperphosphorylation of signaling proteins and enhanced Ca mobilization, granule secretion and integrin activation downstream of GPVI. The lack of functional CLP36 translated into accelerated thrombus formation and enhanced pro-coagulant activity assembling a pro-thrombotic phenotype in vivo. Conclusion: These data reveal an inhibitory function of CLP36 in GPVI-ITAM signaling and establish it as a key regulator of arterial thrombosis.
The value of extended amygdala structures in emotive effects of narcogenic with diverse chemical structure

Introduction: Studies on the mechanisms of the reinforcing action of opioid and non-opioid narcotics confirmed the existence in the brain of a specialized system named the extended amygdala. Materials and methods: To clarify the value of the extended amygdala structures (bed nucleus, central nucleus of the amygdala and nucleus accumbens shell) in the mechanisms of unconditioned and conditioned reinforcement activated by various narcogenic, this paper carried out a neuropharmacological analysis of these effects, using blockade of dopamine receptors, GABA, opioids and CRF receptors within these brain structures, as well as an analysis of behavioral responses by self-stimulation (unconditioned reinforcement) and conditioned place preference (CPP) (conditioned reinforcement). Results and discussion: The central amygdala and the bed nucleus have a controlling influence on the hypothalamus, which is predominantly of CRF-, GABA- and dopaminergic nature. Through D1 dopamine receptors,, a direct positive (activating) effect on the lateral hypothalamus is made. The D2 receptor blockade of the nucleus accumbens prevents narcogenic from exerting the reinforcing properties, which are primarily stimulating. The blockade of the D1 receptors of the nucleus accumbens by SCH-23390 prevents the expression of unconditioned and conditioned reinforcing properties of predominantly opiates and opioids. The blockade of GABAA receptors in the nucleus accumbens with bicuculline prevents the manifestation of the primary and secondary reinforcing properties (CPP) of psychostimulant drugs (amphetamine), without affecting the effects of opiates and opioids (fentanyl and leu-enkephalin). Conclusion: The pharmacological analysis proves that CRF, dopamine and GABA receptors are most important for the correction of reinforcement activated by various narcogenic.
Regional convergence and divergence in the enlarged european union : a comparison of different spatial econometric approaches

Three types of (β-convergence) econometric models have been used in the growth and convergence literature; global, regime and local. The aim of this paper is to present and compare, for the first, the estimation results obtained by all three types of models. The convergence analysis is carried out for the regions of the (enlarged) European Union (EU) over the period 1995-2005. Due to the fact that spatial effects have been found to be significant for the EU regions, the paper employs spatial, rather than non-spatial, models. As a result, the analysis includes the estimation of the: (i) traditional OLS as well as the spatial error and spatial autoregressive model (global approach) (ii) spatial error and spatial autoregressive model with groupwise and/or structural instability (regime approach) (iii) geographically weighted regression (GWR) model (local approach). The results show that a regime model, and more particularly a spatial error model with groupwise heteroskedasticity, seems to perform better than any other model used for examining the regional convergence process in the EU. Global models seem to perform worse than any other specification while the superiority of local (GWR) models usually founded in the literature has not been confirmed. This might happen because, normally, the estimates of local models are not compared with the estimates of regime models but only with the estimates of global models.
Computer literacy and competency: a survey of Indonesian teachers of English as a foreign language

This article presents the results of a study, which examined the current level of computer literacy of a group of Indonesian teachers of English as a foreign language (EFL) and investigated factors affecting their use of computers in classrooms. Participants in the study were in-service teachers of EFL at Indonesian schools and universities. The teachers were invited to respond to a questionnaire containing questions related to the teachers' ownership and accessibility of computers, their level of ability to perform computer-based tasks, their personal and professional use of computers and their interest in computer-assisted language learning (CALL). The findings of the study provide a picture of the Indonesian teachers' use of computers in their local contexts and recommend increasing the teachers' online opportunities, skills and competencies in the use of computers for their teaching practices and professional development.