Miracle-dz/UniFAR-FTUs huggingface dataset:
Insights into herbicide resistance: Bioinformatics analyses of AHAS (acetohydroxyacid synthase) genes in tomato and potato

Enzimlerin mutasyon bolgelerinin belirlenmesi herbisitlere dayanikli bitkilerin yetistirilmesi ve yabanci ot kontrol uygulamalarinin basarisi icin onemlidir. Bu calisma domates (SlAHAS) ve patatesteki (StAHAS) asetohidroksiasit sentetaz (AHAS, EC 2.2.1.6 ) enzimlerine herbisit dayanikliligini saglayacak mutasyon bolgelerinin biyoinformatik yontemlerle belirlenmesi amaciyla yapilmistir. AHAS proteinleri evrimsel olarak yuksek oranda korunmasina ragmen bu proteinlerin uzunluklari farklilik gostermektedir. SlAHAS’ta Lys541 ve Val542 amino asitleri (aa) enzim aktivitesi icin onem tasimaktadir ve Lys541 Ala, Phe, Arg, ve Val aa ile yer degistirebilirken; Ile sadece Val542 ile yer degistirebilir aa olarak bulunmustur. Benzer sekilde StAHAS’ta Ile124, Met266 ve Leu272 stabilizasyonu saglayaci aa olarak bulunmustur. Lys ve Arg, Ile124 ile degisebilir aa olarak saptanirken; Leu, Met266 ile ve Ala, Pro ve Ser ise Leu272 ile enzim stabilizayonunu saglayici yer degistirebilir aa olarak bulunmustur. SlAHAS’taki kenetlenme analizlerine gore klorosulfuron (CS) icin Ser387, Arg235 ve His341; imazakin (IQ) icinse Phe11, Ala40 ve His341 en yuksek baglanma sonuclarini vermistir. StAHAS’ta ise Lys232, Asn123 ve Arg53’un CS ile baglandigi; Lys405, Lys489 ve Arg268 ise IQ ile baglanabilecek aa’ler oldugu tespit edilmistir. His341 ve Gln478’in CS ve IQ ile SlAHAS’ta; Val61 ve Arg366’nin ise StAHAS’ta sirasiyla her iki ligand ile bag yapabildigi gorulmustur. Bunun yanisira Arg366 SlAHAS’ta IQ ligantinin baglanabilecegi aa olarak bulunmustur.
Energy Enhancement in Wireless Sensor Networks through Distributed Fibre Sensor

Based on the protocol—low-energy adaptive clustering hierarchy (LEACH), we investigate an improved energy-efficient communication protocol for wireless sensor networks (WSNs) in the presence of distributed optical fiber sensor (DFS) links located at the centre of WSN fields. Network performances in terms of lifetime of nodes are simulated for the cases that two WSNs can or cannot communicate with each other. The lifetime of such sensor network with rectangular topology is further investigated.
PROCESSING ODS MODIFIED IN 625 USING SELECTIVE LASER MELTING

Increasing the operating temperatures of power plant turbine generators is a universal method to increase the efficiency of steam and gas turbines. However, operating a plant at higher temperatures poses extreme challenges to the materials used, especially regarding oxidation, creep, thermal fatigueand stress-corrosion cracking. The EU-OXIGEN project addresses these issues by the development of novel processing routes for ODS-modified materials, as this class of materials offers exceptionally high temperature strength, oxidation and corrosion resistance at temperatures exceeding 900°C. Additive manufacturing processes such as Selective Laser Melting are considered to enable their successful processing. First results on density of SLM-processed, mechanically alloyed ODS-modified Inconel-625 superalloy powders, are presented and compared to the processing conditions and results of gas atomized conventional Inconel-625 powders. Whereas for IN625 a wide and stable processing window was found, significant differences for the ODS variant in terms of the required laser energy input to reach density values >99% are found. Microstructural analysis of precipitates lead to the conclusion that the milling process for ODS variant is key to achieve good quality materials and results.
Metabolomic analysis reveals the mechanism of aluminum cytotoxicity in HT-29 cells

Background Aluminum (Al) is toxic to animals and humans. The most common sources of human exposure to Al are food and beverages. The intestinal epithelium is the first barrier against Al-induced toxicity. In this study, HT-29, a human colon cancer cell line, was selected as an in vitro model to evaluate the Al-induced alteration in metabolomic profiles and explore the possible mechanisms of Al toxicity. Methods MTT assay was performed to determine the half-maximal inhibitory concentration of Al ions. Liquid chromatography-mass spectrometry (LC-MS) was used for metabolomic analysis, and its results were further confirmed using quantitative reverse transcription polymerase chain reaction (RT-qPCR) of nine selected genes. Results Al inhibited the growth of the HT-29 cells, and its half-maximal dose for the inhibition of cell proliferation was found to be four mM. This dose was selected for further metabolomic analysis, which revealed that 81 metabolites, such glutathione (GSH), phosphatidylcholines, phosphatidylethanolamines, and creatine, and 17 metabolic pathways, such as the tricarboxylic acid cycle, pyruvate metabolism, and GSH metabolism, were significantly altered after Al exposure. The RT-qPCR results further confirmed these findings. Conclusion The metabolomics and RT-qPCR results indicate that the mechanisms of Al-induced cytotoxicity in HT-29 cells include cellular apoptosis, oxidative stress, and alteration of lipid, energy, and amino acid metabolism.
A framework for allocating fi shing rights in small-scale fi sheries

The FAO Voluntary Guidelines for Securing Small-Scale Fisheries have called out the need to provide secure tenure rights as a means of securing livelihoods, promoting food security, and poverty alleviation, all of which can support the human rights of small-scale fishers. However, there are few examples to be found in the literature of the necessary processes and mechanisms for allocating such rights to small-scale fishers. While in industrial fisheries the criteria for allocation are typically based on catch history data, these are likely to be unavailable for many small-scale fisheries, which will instead require different criteria for making decisions. Furthermore, as linked social-ecological systems providing both livelihoods and food to fishing communities, as well as playing important social and cultural roles, small-scale fisheries are likely to have allocation goals that differ from industrial fisheries. These may include promoting equity, preserving cultural values, ensuring the participation of marginalized groups, or setting aside fish for subsistence, among others. A process for allocating rights will require extensive stakeholder participation to elucidate these underlying goals and values and to develop solutions that best address them. This paper describes the steps necessary for engaging stakeholders in such a process and provides examples of novel fisheries allocation mechanisms that may address the concerns of small-scale fisheries.
Appendices : A Large-Scale Corpus for Conversational Disentanglement

We do not include a range of other tools for preand post-processing of the data, collection of statistics, and other forms of format conversions (e.g. Elsner’s format to/from ours). Format: The data is stored with stand-off annotations. There are a set of ascii text files containing the original logs. For each file there is a matching annotation file with lines of the format ”number number -” where the two numbers refer to lines in the text file, indicating that the two lines are linked. If the two numbers are equal, the link is a self-link, indicating the start of a conversation.
Measuring the Gains from International Portfolio Diversification

A remarkable feature of the world economy during the past several years has been the explosive growth in international flows of equities and bonds. For example, during the period 1984 to 1990, gross cross-border equity flows increased from approximately $300 billion per year to about $1.7 trillion, an annual rate increase of over 30 percent. Moreover, currently one out of seven equity trades worldwide involves a foreign party, while one out of ten u.s. equity trades takes place outside the United States. The numbers associated with the growth of the emerging markets of Southeast Asia are even more dramatic. During the period 1988 to 1993, it is estimated that capitalization of the Malaysian stock market increased from $15 billion to $76 billion, Thailand's market grew from $6 billion to $27 billion, and capitalization of the Indonesian stock market soared from $100 million to $10 billion, with most of the money flowing into these markets coming from foreigners.
Event Sentence Detection Task Using Attention Model *

This paper describes and evaluates a model for event sentence detection in news articles using Attention Models with Bidirectional Gated Recurrent Network (GRU) and Word Embeddings. This model was developed for event sentence detection task in the competition that was organized by ProtestNews lab at CLEF 2019. We also evaluated the generalizability of NLP tools by training our model on data from one country and testing it on data from another country. The model was developed for this task was shown to have the highest score in the organized competition with average F1-score of 0.6547.
Diastolic Dysfunction and Altered Energetics in the a MHC 403 / 1 Mouse Model of Familial Hypertrophic Cardiomyopathy

An arginine to glutamine missense mutation at position 403 of the b -cardiac myosin heavy chain causes familial hypertrophic cardiomyopathy. Here we study mice which have this same missense mutation ( a MHC 403/ 1 ) using an isolated, isovolumic heart preparation where cardiac performance is measured simultaneously with cardiac energetics using 31 P nuclear magnetic resonance spectroscopy. We observed three major alterations in the physiology and bioenergetics of the a MHC 403/ 1 mouse hearts. First, while there was no evidence of systolic dysfunction, diastolic function was impaired during inotropic stimulation. Diastolic dysfunction was manifest as both a decreased rate of left ventricular relaxation and an increase in end-diastolic pressure. Second, under baseline conditions a MHC 403/ 1 hearts had lower phosphocreatine and increased inorganic phosphate contents resulting in a decrease in the calculated value for the free energy released from ATP hydrolysis. Third, hearts from a MHC 403/ 1 hearts that were studied unpaced responded to increased perfusate calcium by decreasing heart rate approximately twice as much as wild types. We conclude that hearts from a MHC 403/ 1 mice demonstrate work load–dependent diastolic dysfunction resembling the human form of familial hypertrophic cardiomyopathy. Changes in high-energy phosphate content suggest that an energy-requiring process may contribute to the observed diastolic dysfunction. ( J. Clin. Invest. 1998. 101:1775–1783.)
A path-planning algorithm for parallel automatic parking

Abstract—Path-planning is a key issue of automatic parking assist system due to the non-holonomic constraints. A shortest path algorithm for the parallel parking problem in a certain condition is proposed and proved. A feasible path-planning approach is presented to meet the requirement that the parking space is narrow and needs park iteratively by improving the shortest path. Considering several possibilities of collision with obstacles in the parking process, the parking region where the cars can park with no collision based on the proposed algorithm is designed. The proposed algorithm is verified combined with vehicle dynamics constraints under the limitation of the steering angle rotating speed in high-precision vehicle dynamics simulation software veDYNA. The presented simulation results clearly show that the proposed algorithm provides practical solutions for automatic parallel parking problems.
EXPECTED LIFE COST AND OPTIMAL RETROFIT DESIGN OF REINFORCED CONCRETE HOUSING STRUCTURES : A CASE STUDY

A preliminary investigation of a tool for predicti ng the variation of fragility curves with respect to presumed retrofit costs is presente d. Based on Kriging interpolation, the presented approach analyzes the known fragility pa rameters statistics of observed structural models with respect of their retrofit costs. Consid ered an objective structure and fixed a retrofit cost, the presented tool estimates the upd ated fragility parameters as the outcome of a Gaussian process. The proposed strategy proved to b e promising as shown by the provided example, although its application in common practic e needs further investigations. Benefits and drawbacks are also discussed among with future res arch developments. Sommario. Il presente lavoro introduce uno strumento matemati co per la stima di curve di fragilità, relative a strutture esistenti ed ad ipo tetici interventi di consolidamento sismico di cui si ipotizza un costo. La procedura si basa sul Kriging ed analizza un opportuno insieme di interventi di consolidamento, noti a priori, di cui vengono preventivamente calcolati il costo di costruzione e le curve di fragilità. Successivam ente, data una struttura di cui si conoscono esclusivamente le condizioni pre-intervento, e stab ili o un costo di costruzione, l’algoritmo stima, mediante analisi probabilistica, la fragilit à post-intervento come occorrenza di un processo Gaussiano. L’approccio, di cui viene prese ntata una applicazione, si dimostra promettente sebbene necessiti di un maggiore approf ondimento prima di poter essere applicato nella pratica professionale. A tal propos it , la sezione conclusiva riporta una sintesi dei principali vantaggi dell’approccio prop sto, nonché un’analisi delle problematiche ancora aperte ed una sintesi delle fu ture linee strategiche di ricerca.
Coastal community preference on the utilization of mangrove ecosystem and channelbar in Indramayu , Indonesia

This study discusses the perception and preference of coastal community, what they want and how they prioritize the utilization of mangrove ecosystem and channelbar. Analysis factor is used to measure variables in the models. The highest mangrove ecosystem damage is caused by community activities to mangrove forest resources. To rehabilitate the mangrove ecosystem the government must provide employment opportunities to substitute their income. Alternative occupation that becomes preference is utilizing non timber forest product that has economic value and give it the added value as tertiary product; cooperation of environmental services through utilization of channelbar; supporting the creation of ecotourism zone and environmental education along with its flora and fauna. As to the policy implication that can be implemented the government must protect the mangrove forest area for habitat preservation.
Application of compost in mixed media improved oil palm nursery’s secondary root structure thereby reducing the fertilizer requirement for growth

Although conventional inorganic fertilizers increased plant growth and productivity, their excessive use leads to wastage, run-offs and environmental pollution. In order to promote nutrient recycling and zero emission strategy in the palm oil industry, compost was produced from oil palm empty fruit bunch (EFB) and palm oil mill effluent (POME) anaerobic sludge. The main objective of this study is to determine the effect of compost in the mixed media on the growth and inorganic fertilizer requirement in the oil palm nursery. 100% soil as media with 100% inorganic fertilizer as control was compared with mixed media containing 50% compost in soil with inorganic fertilizer at 25%, 50%, 75% and 100% compositions and tested for plant growth and root structure. The results showed that the treatments with compost addition improved plant growth, compared to the control with 100% inorganic fertilizer which did not contain compost in the mixed medium. The improved plant growth corresponded directly to the enhanced secondary root structure, which probably resulted in more efficient absorption and uptake of nutrients by the plants. Furthermore, the plant growth and the secondary root structure in the mixed media with 50% inorganic fertilizer composition was not significantly different to the media with 75% and 100% inorganic fertilizer. Therefore it is suggested that the application of 50% compost in the mixed media enhanced the secondary root structure, resulting in reduced inorganic fertilizer requirement in the oil palm main nursery, without affecting the plant growth.
Computation of the magnetic potential induced by a collection of spherical particles using series expansions

In Magnetic Resonance Imaging there are several situations where, for simulation purposes, one wants to compute the magnetic field induced by a cluster of small metallic particles. Given the difficulty of the problem from a numerical point of view, the simplifying assumption that the field due to each particle interacts only with the main magnetic field but does not interact with the fields due to the other particles is usually made. In this paper we investigate from a mathematical point of view the relevancy of this assumption and provide error estimates for the scalar magnetic potential in terms of the key parameter that is the minimal distance between the particles. A special attention was paid to obtain explicit and relevant constants in the estimates. When the "non-interacting assumption" is deficient, we propose to compute a better approximation of the magnetic potential by taking into account pairwise magnetic field interactions between particles that enters in a general framework for computing the scalar magnetic potential as a series expansion.
Ward layout, communication and care quality: Spatial intelligibility as a key component of hospital design

This study is an empirical investigation of the ways in which the spatial configuration of inpatient wards influences work processes and communication networks of caregivers and the effect on patient care quality. Space syntax research argues that the spatial configuration of hospitals has an effect on social behaviours. However, how this relationship influences care quality is poorly investigated. Therefore, this study researches the link between these three components. In particular, this study looks at at six hospital wards focusing on how various spatial metrics - connectivity, integration, mean depth and intelligibility, influence observed work activities, paths of movement and interactions between caregivers and how this affects team work and consecutively patient care. Three NHS hospitals situated in London are included as case studies in this research and two corresponding wards from each hospital – one intensive care unit and one nursing ward, are selected for a comparison. Space syntax was used to calculate various spatial metrics and investigate how spaces in the six wards are interconnected in a spatial network. Social network analysis was used to describe the network of relations of caregivers. Data was collected with wearable devices that provided information about communication patterns and network partners. The workflow of caregivers was captured by shadowing members of staff and recording digitally type and durations of activities and locations. Finally, a staff survey to assess teamwork and communication was used to evaluate healthcare quality. The study affords new insights into the relationships of spatial configuration, social networks and care processes with the aim to improve quality of care. Results suggest that certain generic patterns and relations between spatial metrics, work processes, communication patterns and care quality can be established. Layouts with high intelligibility tend to have shorter duration of activities and conversations, more democratic work culture, higher rated teamwork and communication and consequently better quality of care. However, more case studies are required to fully investigate the relationship between the three components and establish concrete patterns.
Euro government bond funds before and after the Euro debt crisis : Evidence from security-level holdings

This study is the first to evaluate the performance of Euro government bond mutual funds with characteristic-based benchmarks. This analysis is based on the security-level holdings of the most afflicted countries in the Euro sovereign debt crisis, i.e., the so-called periphery countries of Southern Europe, including Greece, Italy, Portugal, and Spain (GIPS). The combined contribution of bond selection and timing casts doubt on the value of active management relative to its costs. The results also show a further increase in the strong home bias detected in the years preceding the crisis, especially in the most relevant GIPS fund industries. This stronger bias results in worse bond selection abilities and assorted timing skills across the GIPS markets. JEL classification: G11; G23
Running Head: Group climate and empathy in a youth correctional facility

G.H. P. van der Helm, M.SC Leiden University of Applied Sciences (School of Social Studies). G.J.J.M Stams, Ph.D University of Amsterdam (Department of Forensic Child and Youth Care Sciences). J.C. van der Stel, PhD VU University Amsterdam & Leiden University of Applied Sciences (School of Social Studies) M.A.M. van Langen, MsC University of Amsterdam (Department of Forensic Child and Youth Care Sciences). P.H. van der Laan, Ph.D VU University Amsterdam & the Netherlands Institute for the study of Crime and Law Enforcement
ATTACHMENT , SENSE OF COHERENCE AND WELL-BEING IN THE CONTEXT OF PARENTAL MIGRATION

The aim of the present research was to investigate the relationship between children’s attachment, sense of coherence and well-being in children whose parents were working abroad (N=43) and also from intact families (N=50), according to the salutogenic model of Antonovsky (1987). The influence of children’s attachment on depression, anxiety and well-being was mediated by sense of coherence. Consequently, parental attachment was positively associated with well-being in intact families. Implications for mental health interventions are discussed.
Trading the Option Implied Volatility Smirk Using Firm Fundamentals

We examine the explanatory power of firm fundamentals to the cross-sectional variation in the shape of the implied volatility (IV) function by constructing a valuation of IV curve using firm fundamentals and market measures via a Bayesian shrinkage method. In-sample cross-sectional fitting and out-sample investment exercise show that fundamental-based valuation is both statistically informative and economically contributing in modelling of the IV levels, slopes, and curvature. These findings highlight the importance of incorporating firm fundamentals in modelling of the IV smirk, the participants of a firm’s stock and stock options markets can improve their trading performance by using firm fundamentals to form their expectations. JEL classification: C11, C12, C13, G11, G12.
Use of Ηalloysite-TiO 2 Nanocomposites for the Decomposition of Tebuconazole Fungicide in Water

In this study we present halloysite clay mineral combined with TiO2, as promising new class of nanomaterials that can be used as an effective, cost efficient and environmental friendly methodology for the decomposition of Tebuconazole, C16H22ClN3O, [(RS)-1-p-chlorophenyl4,4-dimethyl-3-(1H-1,2,4-triazol-1-ylmethyl)-pentan-3-ol], TEB-fungicide, in water. For this purpose halloysite-TiO2 nanoparticles were fabricated using the sol-gel methodology combined with hydrothermal treatment of the samples in mild conditions. The halloysite-TiO2 nanocomposites are characterized by X-Ray diffraction (XRD), scanning electron microscopy (SEM), and N2 sorption-desorption isotherms analysis by BET for determine specific surface area (SSA). The total pore volume of the halloysite 40% TiO2 60% prepared nanocomposite and its specific surface area is 0.35 cm 3 /g and 188 m 2 /g respectively. This nanocomposite showed a photocatalytic efficiency of 39.5% to TEB decomposition after 240 minutes of UV irradiation. The best photodegradation efficiency, 47.4% of TEB was achieved with the halloysite 10% TiO2 90% nanomaterial, instead of 33.2% decomposition efficiency using commercial TiO2 (Degussa P25). In this case, the halloysite 10% TiO2 90% nanocomposite showed the highest specific surface area of 222 m 2 /g. The degradation of TEB in all the samples studied did not change after 150 minutes of UV exposure.