Miracle-dz/UniFAR-FTUs huggingface dataset:
Metagenome analysis of gut microbial in both the caged and non-caged ducks

The different duck husbandry techniques, the type of feeds, and environments are believed to have an impact on the diversity of duck’s gut microbiome. This research has the objective to examine the diversity of gut microbiome of duck in different husbandry models, i.e., cage and non-cage. The research design was an exploratory study. Duck samples were taken purposively from both cage (CG) and non-cage (NCG) methods at local duck farms in Gunungpati, Semarang, Central Java, Indonesia. Five grams of duck intestinal samples were prepared for DNA isolation, 16S rRNA gene amplification in the V3-V4 region and were sequenced with Next Generation Sequencing (NGS) method: metagenomics. The 16S metagenomic analysis was performed using QIIME2 (Ver. 2019.4). The most dominant gut bacteria that found in both CG and NCG was Family Enterobacteriaceae, Phylum Proteobacteria and followed by Lactobacillaceae from Phylum Firmicutes. However, the bacterial diversity map in family level was not shown a significant trend between CG and NCG. There were 851 shared species belongs to NCG and CG; it means that more than 800 same bacteria species build up the gut ecosystem both in NCG and CG. It is likely because of similar feed and environmental condition from the two husbandries. The diversity of duck gut microbiome in Gunungpati may be closely related to feeding, rearing techniques, and environments. The number of bacteria species in the non-caged duck (NCG) was higher than CG or caged duck.
Time-lapse seismic imaging and uncertainty quantification

Time–lapse (4D) seismic monitoring is to date the most commonly used technique for estimating changes of a reservoir under production. Full–Waveform Inversion (FWI) is a high resolution technique that delivers Earth models by iteratively trying to match synthetic prestack seismic data with the observed data. Over the past decade the application of FWI on 4D data has been extensively studied, with a variety of strategies being currently available. However, 4D FWI still has challenges unsolved. In addition, the standard outcome of a 4D FWI scheme is a single image, without any measurement of the associated uncertainty. These issues beg the following questions: (1) Can we go beyond the current FWI limitations and deliver more accurate 4D imaging? , and (2) How well do we know what we think we know? In this thesis, I take steps to answer both questions. I first compare the performances of three common 4D FWI approaches in the presence of model uncertainties. These results provide a preliminary understanding of the underlying uncertainty, but also highlight some of the limitations of pixel by pixel uncertainty quantification. I then introduce a hybrid inversion technique that I call Dual–Domain Waveform Inversion (DDWI), whose objective function joins traditional FWI with Image Domain Wavefield Tomography (IDWT). The new objective function combines diving wave information in the data–domain FWI term with reflected wave information in the image–domain IDWT term, resulting in more accurate 4D model reconstructions. Working with 4D data provides an ideal situation for testing and developing new algorithms. Since there are repeated surveys at the same location, not only is the surrounding geology well–known and the results of interest are localized in small regions, but also they allow for better error analysis. Uncertainty quantification is very valuable for building knowledge but is not commonly done due to the computational challenge of exploring the range of all possible models that could fit the data. I exploit the structure of the 4D problem and propose the use of a focused modeling technique for a fast Metropolis–Hastings inversion. The proposed framework calculates time–lapse uncertainty quantification in a targeted way that is computationally feasible. Having the ground truth 4D probability distributions, I propose a local 4D Hamiltonian Monte Carlo (HMC) — a more advanced uncertainty quantification technique — that can handle higher dimensionalities while offering faster convergence.
Review of Autism Profiles and Response to Sertraline in Fragile X Syndrome-Associated Autism vs. Non-syndromic Autism; Next Steps for Targeted Treatment

Given significant genetic, molecular, and phenotypic overlaps, researchers have begun to investigate whether targeted treatments for Fragile X Syndrome (FXS) could also be beneficial for patients with Autism Spectrum Disorder (ASD). For example, low-dose sertraline, an SSRI, was used in two recent controlled trials in children with FXS and ASD. The first trial recruited 52 children with FXS, 32 of which were also diagnosed with ASD; the second trial recruited 58 children with non-syndromic ASD. One focus of the present study is to compare the response to sertraline between the FXS-associated ASD and non-syndromic ASD groups. Another focus is to compare baseline ASD-related characteristics between the groups and review these differences within the context of recent literature comparing these populations. Our comparison showed more severe ASD profiles in children with non-syndromic ASD vs. FXS-associated ASD. Regarding response to sertraline, the FXS-ASD group displayed significant improvements in language development, while the non-syndromic group did not show any significant improvements. One possible explanation for this differential response is the distinct anxiety profiles that are seen in these two groups. The heightened anxiety phenotype seen in those with FXS-ASD may have led to a greater relief of anxiety symptoms with sertraline compared to those with non-syndromic ASD; this, in turn, could have led to measurably greater developmental gains. Further research is required to solidify this connection between anxiety relief and developmental gains in these populations.
Microfluid Mechanics: Principles and Modeling

Chapter 1: Introduction Chapter 2: Basic Kinetic Theory Chapter 3: Microfluid Properties Chapter 4: Moment Method: Navier-Stokes and Burnett Equations Chapter 5: Statistical Method: Direct Simulations Monte Carlo Method and Information Preservation Method Chapter 6: Parallel Computing of DSMC Chapter 7: Fluid/Solid Interface Mechanisms Chapter 8: Development of Hybrid Continuum/Particle Method Chapter 9: Low-Speed Microflows Chapter 10: High-Speed Microflows Chapter 11: Perturbation in Microflows
Assessing the extent of exchange rate risk pricing in equity markets: emerging versus developed economies

This paper assesses the extent of exchange rate risk pricing in emerging and developed economies to infer whether this risk is systematic or unsystematic in these economies. The pricing of this risk is based on the two- and three-factor extended CAPM (capital asset pricing model). The US and South Africa are used as proxy for developed and emerging economies, respectively. The findings suggest strong evidence for exchange rate risk premia in both cases and highlight that contrary to many studies, exchange rate risk is systematic in developed economies, despite the possibility and variety of instruments of exchange rate hedging in these economies, particularly in developed economies.
Mutating PINK1 gene by paired truncated sgRNA/Cas9-D10A in Cynomolgus Monkey

Mutations of PINK1 cause early-onset Parkinson’s disease (PD) with selective neurodegeneration in humans. However,current PINK1 knockout mouse and pig models are unable to recapitulate the typical neurodegenerative phenotypes observed in PD patients, indicating that it is essential to generate PINK1 disease models in non-human primates (NHPs) that are highly close to humans, to investigate the unique function of PINK1 in primate brains. Paired single guide RNA (sgRNA)/Cas9-D10A nickases and truncated sgRNA/Cas9, both enabling the reduction of the off-target effect without apparently compromising the on-target editing, are two optimized strategies in applying the CRISPR/Cas9 system to establish disease animal models. Here, we combined the two strategies and injected Cas9-D10A mRNA and two truncated sgRNAs into one-cell-stage cynomolgus zygotes to target PINK1 gene. We show precise and efficient gene editing of the target site in the three new born cynomolgus monkeys. The frame shift mutations of PINK1 in mutant fibroblasts leaded to the reduction of the mRNA, However, western-blot and immunofluorescencestaining confirmed the PINK1 proteinlevels werecomparable to that in the wild-type fibroblasts. We further reprogramed mutant fibroblast into induced pluripotent stem cells (iPSCs) and they show similar ability of differentiation into dopamine (DA) neurons. Taken together, our results showed that coinjection of Cas9-D10A nickase mRNA and sgRNA into one-cell-stage cynomolgus embryos enable the generation of human disease models in NHPs and the target editing by paired truncated sgRNA/Cas9-D10A in PINK1 gene exon 2 did not impact the protein expression.
Study of the Effect Operational Parameters on the Super critical Extraction Efficient Related to Sunflower Oil Seeds

Super critical extraction is a new method for separation of efficient processes and effective method for extracting a necessary foundation of solid or liquid material are suitable purity. Seed sunflower seed oil is the second one year after soy which is cultivated for its oil on the world. In this article, sunflower seed oil is extracted by liquid carbon dioxide in super critical conditions. Effects of temperature, pressure and grain size in the rate of extraction efficiency were the change in particle size among other parameters extraction efficiency because they have a role and the smaller the size, the efficiency is higher. Results proves is that temperature changes and pressure changes in comparison with particle size in the process of extraction efficiency was less effect because of reduced grain size increased 75 percent extraction efficiency. While the temperature increase of 16 percent and increasing pressure about 5 percent increase in extraction efficiency was observed.
Resting-state Co-activation Patterns as Accurate Predictors of Alzheimer’s Disease in Aged Mice

Alzheimer’s disease (AD), a neurodegenerative disorder marked by accumulation of extracellular amyloid-beta (Aβ) plaques leads to progressive loss of memory and cognitive function. Resting state fMRI (RS-fMRI) studies have provided links between these two observations in terms of disruption of default mode and task positive resting state networks (RSNs). Important insights underlying these disruptions were recently obtained by investigating dynamic fluctuations in RS-fMRI signals in old TG2576 mice (mouse model of amyloidosis) using a set of quasi-periodic patterns (QPP). QPPs represent repeating spatiotemporal patterns of neural activity of predefined temporal length. In this article, we used an alternative methodology of co-activation patterns (CAPs) that represent instantaneous and transient brain configurations that are likely contributors to the emergence of commonly observed resting state networks (RSNs) and QPPs. We followed a recently published approach for obtaining CAPs that divided all time frames, instead of those corresponding to supra-threshold activations of a seed region as done traditionally, to extract CAPs from RS-fMRI recordings in 10 TG2576 female mice and 8 wild type littermates at 18 months of age. Subsequently we matched the CAPs from the two groups using the Hungarian method and compared the temporal (duration, occurrence rate) and the spatial (lateralization of significantly activated voxels) properties of matched CAPs. We found robust differences in the spatial components of matched CAPs. Finally, we used supervised learning to train a classifier using either the temporal or the spatial component of CAPs to distinguish the transgenic mice from the WT. We found that while duration and occurrence rates of all CAPs performed the classification with significantly higher accuracy than the chance-level, blood oxygen level dependent (BOLD) signals of significantly activated voxels from individual CAPs turned out to be a significantly better predictive feature demonstrating a near perfect classification accuracy. Our results demonstrate resting-state co-activation patterns are a promising candidate for a diagnostic, and potentially, prognostic biomarker of Alzheimer’s disease.
Direct visualization of epithelial microvilli biogenesis

Microvilli are actin bundle supported surface protrusions that play essential roles in diverse epithelial cell functions. To develop our understanding of microvilli biogenesis, we used live imaging to directly visualize protrusion growth at early stages of epithelial differentiation. Time-lapse data revealed that an “initiation complex” enriched in EPS8 and IRTKS appears at future sites of microvillus growth minutes before core actin bundle assembly. Elongation of a new core bundle occurs in parallel with the arrival of EZRIN and plasma membrane encapsulation. In addition to de novo growth, we also observed that new microvilli emerge from pre-existing protrusions. Additionally, we found that new microvilli can also collapse, characterized first by loss of membrane wrapping and Ezrin enrichment, followed by a sharp decrease in distal tip EPS8 and IRTKS. These studies are the first to offer a temporally resolved microvillus growth mechanism and highlight critical factors that drive this process.
Extension Military Parent–Teen Camp Experiences: Family Resilience Building in Action

The purpose of the study addressed in this article was to gather information from military service members and their teenage children attending Extension camping programs together. We used a pretest and a posttest to examine resilience of both groups and compared other postprogram youth outcome measures to a normative sample. We found statistically significant increases in resilience scores for both service member participants and teenage participants as well as elevated youth outcomes in the areas of problem solving and connecting with others. Our results constitute useful information on the value of Extension outdoor and recreational programming for family systems.
The Histone Chaperone CAF-1 Sustains Myeloid Lineage Identity

During hematopoiesis, stem and progenitor cells become progressively restricted in their differentiation potential. This process is driven by lineage-specific transcription factors and is accompanied by dynamic changes in chromatin structure. The chromatin assembly factor complex CAF-1 is a key regulator of cellular plasticity in various cell lineages in different organisms. However, whether CAF-1 sustains lineage identity during normal homeostasis is unclear. To address this question, we investigated the role of CAF-1 in myeloid progenitor cells. CAF-1 suppression in myeloid progenitors triggered their rapid commitment but incomplete differentiation toward granulocyte, megakaryocyte, and erythrocyte lineages, resulting in a mixed cellular state. Through comparison with a canonical paradigm of directed terminal myeloid differentiation, we define changes in chromatin accessibility that underlie a unique transcriptome of the aberrantly matured CAF-1 deficient cells. We further identify C/EBPα and ELF1 as key transcription factors whose control of myeloid lineage commitment is kept in check by CAF-1. These findings shed new light on molecular underpinnings of hematopoiesis and suggest that manipulation of chromatin accessibility through modulating CAF-1 levels may provide a powerful strategy for controlled differentiation of blood cells.
Personalized Book Recommendation Method Based on the Improved Similarity

With the rapid development of network technology, online reading platforms have emerged one after another, providing a new opportunity for book recommendation. Collaborative filtering makes use of the preferences of neighbor users to recommend and predict the interests of target users, in which similarity calculation is the key point. Because the traditional similarity methods cannot take full benefit of the potential relationship between readers. As the result of data sparsity, the similarity matrix is too sparse, which ultimately leads to low recommendation accuracy. This article quantifies the reader's author preferences to build a readers' similarity formula incorporating author preference and Pearson coefficient by introducing Jaccard coefficient, in order to describe the association between readers more comprehensively. According to the proposed similarity, the improved collaborative filtering algorithm can improve the quality of book recommendations significantly. Finally, this paper performs simulation experiments on the Book-Crossing dataset. The results show that the collaborative filtering algorithm based on the improved similarity can effectively improve the quality of personalized book recommendation.
FREQUENCY FOLLOWING RESPONSE AND MUSICAL EXPERIENCE: A REVIEW

The aim of this review is to compare published FFR studies for groups of musicians and non-musicians. Musicians are taken to be those who have used their instrument at least twice a week for many years. The review considers sample size, age, gender, native language, preliminary and complementary assessments, equipment, stimuli, objective results, and conclusions of the studies. Medline/PubMed and Web of Science databases were accessed.
Effect of Knowledge Creation by Tourism Stakeholders on Destination Competitiveness, Baringo County, Kenya

: The pivotal role of knowledge as a tool for competitiveness has long been recognized, however, the tourism sector has been slow in adopting knowledge management approach mainly due to poor linkages between the sector and key knowledge creators such as academic researchers and besides, the tourism sector has been posited to have a reluctant knowledge adoption environment. The study sought to establish the effect of knowledge creation by primary tourism destination stakeholders on a destination’s competitiveness. The study was informed by resource-based view theory and the Knowledge spiral model. Baringo County was targeted as the study area because of its undisputable potential for tourism in the North Rift region. The study utilized the ex- post facto research design. It employed purposive, stratified and simple random sampling to select 245 respondents. A semi structured questionnaire was administered to collect data. Structural equation modelling (SEM) was employed to reveal the effects between knowledge creation practices on destination competitiveness. The regression weight indicated that knowledge creation had significant effect on destination competitiveness (β = 0.336; t=3.7; p<0.05). A significant relationship exists between knowledge creation practices by primary tourism destination stakeholders and competitiveness. The study recommends that Kenya Tourism Board in the tourism sector should facilitate knowledge identification and creation in order to enhance a destinations performance.The study opines that the human resource is vital to managing knowledge effectively and therefore organizations need to invest in this resource both fiscally and psychologically to keep employees vested in adapting new and ever-changing aspects of knowledge creation. The stakeholders should facilitate knowledge identification through conducting seminars and team building where the managers will be able to identify the specific skills of the staffs, coding of newly identified knowledge, embrace best practices and device formal ways of storing knowledge.
Bioprospecção de Trichoderma spp. envolvidas na solubilização de fosfato e no controle biológico de Sclerotinia sclerotiorum em soja

Acidic soils rapidly retain applied phosphorus fertilizers and consequently present low availability of this nutrient to plants. The use of phosphate-solubilizing microorganisms to help plant phosphorus (P) absorption is a promising sustainable strategy for managing P deficiencies in agricultural soils. Trichoderma strains have been one of the most studied filamentous fungi for improving the production and development of several crop species mainly due to their capability for symbiotic associations and their ability to control soil-borne plant diseases. Thus, this work sought to bioprospect Trichoderma strains from the Amazon rainforest capable of solubilizing/mineralizing soil phosphate and promoting soybean growth. Soybean plants inoculated with selected Trichoderma strains were cultivated in soil under greenhouse conditions and under a gradient of rock phosphate and triple superphosphate. As a result, 19.5% of the isolated Trichoderma strains were able to solubilize phosphate. In addition, those strains produced different organic acids during the solubilization process. Trichoderma spp. strains showed positive responses in the promotion of soybean growth— from 2.1% to 41.1%—as well as in the efficiency of P uptake-up to 141%. These results
Characterization of foam glass produced from waste CRT glass and aluminium dross

Increasing the energy efficiency of buildings has become very pertinent currently. This will be implemented by employing eco-friendly materials such as foam glass. Glass foaming is a process that depends strongly on the foaming mechanism and the initial composition of the mixture. This study deals with the investigation of foam glass properties consisting of recycled bottle glass material, CRT glass and aluminium dross. Experiments were carried out to investigate the thermal behaviour, optimal foaming temperature, density, water absorption, thermal conductivity and compressive strength of the foams. Microstructure and cell size distribution was analyzed as well. Effect of the CRT glass and the aluminium dross on the properties of the foams was evaluated in this paper. Adding aluminium dross decreased the foaming temperature, increased the foaming height and enhanced the compressive strength of the foam glass.
Urinoir Analyzer Pintar Pendeteksi Kelainan Pada Fungsi Ginjal Dengan Analisis Kadar Ph Dan Warna Pada Urin

Perkembangan pemeriksaan penyakit kelainan ginjal melalui analisa urin saat ini dilakukan dalam dua proses pemeriksaan secara makroskopis dan mikroskopis. Pada dasarnya dibutuhkan sebuah alat yang mampu memproses dan menganalisis sebuah sampel urin secara otomatis agar tidak terjadinya kesalahan dalam melakukan pemeriksaan penyakit melalui sampel urin. Awalan perkembangan ini menggunakan sebuah Kontroler Arduino UNO dan dua buah variabel masukan yaitu sensor warna TCS3200 dan sensor PH meter SKU SEN0161. Dua buah variabel masukan sensor bekerja secara berdampingan dengan sensor TCS3200 memiliki hasil keluaran berupa nilai frekuensi RGB dan diproses kembali menjadi frekuensi keabuan. Lalu, sensor PH meter SKU SEN0161 menghasilkan sebuah nilai PH pada sampel urin. Hasil dari pemeriksaan tersebut ditampilkan pada sebuah penampil berupa LCD berukuran 16x2. Hasil pemeriksaan dari alat ini dibandingkan dengan hasil analisa pakar dari Balai Laboratorium Kesehatan Yogyakarta bagian Urology. dan mendapatkan tingkatan nilai akurasi 93% dengan keberhasilan data sebanyak 28 dari 30 data yang diambil. Â The development of examining kidney disorders through urine analysis is currently carried out in two processes of examination, macroscopic and microscopic. Basically, we need a tool that is able to process and analyze a urine sample automatically so that there are no errors in carrying out disease checks through the urine sample. The beginning of this development used an Arduino UNO controller and two input variables, namely the TCS3200 color sensor and the SKU SEN0161 PH meter sensor. Two sensor input variables working side by side with the TCS3200 sensor have an output in the form of RGB frequency values and are processed back into gray frequencies. Then, the PH meter SKU SEN0161 sensor generates a PH value in the urine sample. The results of these checks are displayed on a 16x2 LCD display. The examination results of this tool are compared with the results of the analysis of experts from the Yogyakarta Health Laboratory Center, Urology section. and get an accuracy level of 93% with the success of the data as much as 28 of the 30 data taken.