Miracle-dz/UniFAR-FTUs huggingface dataset:
Hierarchical bayesian models for genome-wide association studies

I consider a well-known problem in the field of statistical genetics called a genome-wide association study (GWAS) where the goal is to identify a set of genetic markers that are associated to a disease. A typical GWAS data set contains, for thousands of unrelated individuals, a set of hundreds of thousands of markers, a set of other covariates such as age, gender, smoking status and other risk factors, and a response variable that indicates the presence or absence of a particular disease. Due to biological phenomena such as the recombination of DNA and linkage disequilibrium, parents are more likely to pass parts of DNA that lie close to each other on a chromosome together to their offspring; this nonrandom association between adjacent markers leads to strong correlation between markers in GWAS data sets. As a statistician, I reduce the complex problem of GWAS to its essentials, i.e. variable selection on a large-p-small-n data set that exhibits multicollinearity, and develop solutions that complement and advance the current state-of-the-art methods. Before outlining and explaining my contributions to the field in detail, I present a literature review that summarizes the history of GWAS and the relevant tools and techniques that researchers have developed over the years for this problem.
Parallel FP-Like Algorithm with Spark

FIM (Frequent item set mining) is a kind of important data analysis and data mining application. It is also a data-intensive and computation-intensive process which makes the FIM algorithm very time-consuming over large datasets. In this paper, we study the parallel FP-Like algorithm and compare with the parallel Apriori algorithm. The experimental result shows that the parallel FP-Like algorithm is high-performance in scalability and speed. It can effectively deal with FIM on big data and low support.
The sensitivity of upper limb muscle moments to variation in physiological cross-sectional area

The sensitivity of a computer-based muscle model is analyzed in a study examining the effects of variations in physiological cross-sectional area (PCSA) and the specific tension of muscle on muscle moments. The maximum isometric force for upper extremity muscles is estimated from specific tension and PCSA sources reported or derived from human cadaver study literature. PCSA, specific tension and other related model parameters are entered into a spreadsheet used to generate muscle moment curves using limb geometry taken from an MRI cadaver study. Specific results are shown for brachialis brachioradialis and pronator teres, but are generalized to other upper limb muscles. The muscle model was shown to be highly sensitive to the wide range of PCSA values apparent in most human populations. Potential educational applications of the muscle spreadsheet software are described. Recommendations are made for collection of similar data in future studies.
A characteristic-preserving steganographic method based on revision identifiers

Since the majority of the available steganographic schemes in OOXML format documents suffered the disadvantages of unsatisfactory anti-detection capability and security level, a characteristic-preserving steganographic method with high security is proposed in this paper. The proposed method embeds secret information by replacing the last three bytes of the values of the revision identifiers in the main document body of the OOXML format document, while preserving the normal characteristics of the document. Meanwhile, position marks are added to track the locations of the embedded information. In order to keep the internal data consistency of the document, the newly created values are added into other related parts. Experimental results show that the method not only possesses good imperceptibility and anti-detection capability, but also has high security and large embedding capacity.
Ordering preferences for postverbal complements in French

This chapter deals with the factors, which influence postverbal complement ordering in French. Existing studies (Blinkenberg, 1928-1933 Berrendonner 1987, Schmitt 1987, Abeille Godard 2004, 2006) have proposed that the weight and the discourse status (given or new) of the complements play a role, as well as the verb meaning, but they are not based on quantitative data. To remedy this lacune, we annotated extracts from 4 corpora (two written and two spoken) for several factors: complement length, animacy, definiteness, pronominality, collocationality of verb-preposition combinations, verb lemma and verb semantic class (following Dubois and Dubois Charlier 1997’s classification). We first observe a general preference for direct before indirect complements, in all 4 corpora. We also observe that the following factors may contradict this general tendency: the length of the NP (relative to that of the PP) and the verb lemma (with its semantic class) may reverse the preference and drive an indirect before direct complement ordering. In order to evaluate the respective weights of these factors, and to abstract away from the specificity of each corpus, we have also constructed a multifactorial statistical model, following the methodology of Bresnan et al. (2007) and Bresnan and Ford (2010). In this model, the three factors that appeared as statistically significant are the relative length of the complements, the verb combined with its semantic class and the corpus. Contrary to similar studies performed on English or German, pronominality, definiteness and animacy do not play a significant role. In order to complement this result, we conduct two psychological experiments, asking subjects to judge sentences (identical or similar to the ones in the corpora) with equal complement length, and one complement ordering or the other, randomly presented with distractors. Contrary to English and German, again, animacy did not play a significant role, nor did definiteness.
Analysis of the capacity for MIMO system

The power allocation is studied in MIMO system,focus on the equal power allocation,waterfilling and the method of power allocation which can get a lowest error rate.It has got three different power allocation matrixes through the research,as well as the channel capacity.Through matlab simulation,the relationship between channel capacity and the SNR was obtained by three power distribution method.The results show that MIMO system can get greater channel capacity under the channel state information is known And in relation to other two distribution methods,using waterfilling method can significantly increase the capacity of MIMO system.
Emotional Analysis Using Multinomial Logistic Regression

Background: Emotions have been widely used in psychology and behavior sciences as they are important elements of human nature. We expect a machine to behave like a human, in this digital era. Since the machines do not understand the emotional state of the speaker easily, it is not very easy to get a natural interaction between machine and man. Yet, many researchers are working and progressing in speech recognition. In this paper we aim to identify emotions present in human beings through analysis of speech signals. Methods: We make use of machine learning algorithm to choose the best features which effectively influence the emotional states of speech. Findings: We aim to identify various emotions that a human being goes through during verbal communication. Applications: Computation on the chosen best features of speech signals help us identifying the speaker’s emotional state.
Energy Efficient Relay Selection Scheme for Cooperative Transmission Aided Rateless Codes in Wireless Sensor Networks

Wireless sensor networks(WSNs) require energy efficient communication protocols to minimize the energy consumption and balance energy to extend the lifetime of network. This paper proposed an energy efficient relay selection scheme for cooperative transmission aided rateless codes in WSNs over Rayleigh fading channels. Cooperative transmission and rateless codes are applied to guaranty reliability. The residual energy and channel conditions are considered to select the optimal relay as cooperative relay. The simulation results show that the energy consumption is balanced and the network lifetime is extended, compared with some previous transmission schemes.
Age Matters: Stopping Out, Going Back, and Criminal Desistance Based on Timing of Educational Return

Education can reduce criminal behavior through preventive influences and later desistance. However, the desistance effect may be hindered by the age at which one returns to formal education. This study explores this point by examining drop out and stop out offenders in the National Longitudinal Survey of Youth 1997. Specifically, this study creates separate subgroups of respondents who reported recommitting to educational pursuits before and after age 18. Results indicate that recommitting to education, and specific degree attainment, differ in their impact on future crime depending on when an offender reenrolls in formal education. This study expands the importance of studying the timing of social events within lives and suggests targeting policy interventions in adolescence.
Gaining Fame and Fortune:A "Cultural Agent" Hypothesis

In this paper we put forward a "cultural agent" hypothesis, namely, what cultural producers seek are net revenue maximization and fame maximization. A multi-object decision model is developed to verify the hypothesis, showing that the hypothesis is tenable if it is satisfied by the following three theorems: the direct effect of audience variation derived from quality variation of cultural products should be less than the absolute value of the first indirect effect caused by the price of cultural products; the price of cultural products is not very susceptible to quantity variation of cultural products; the direct effect of audience variation derived from the price variation of cultural products should be less than the first indirect effect caused by the quantity of cultural products. Finally, this paper illustrates the "cultural agent" hypothesis with some cultural and social examples.
Humanitarian supply chain performance management: a systematic literature review

Purpose – This paper aims to identify the state of the art of performance measurement and management in humanitarian supply chains; to categorize performance measurement indicators in the five supply chain phases of Gunasekaran and Kobu (2007) and evaluate them based on the evaluation criteria of Caplice and Sheffi (1995); and to define gaps and challenges in this field and give insights for future research in this domain. Design/methodology/approach – A literature review has been conducted using a structured method based on Denyer and Tranfield (2009) and Rousseau et al. (2008). The state of the art on humanitarian supply chain performance management with a focus on measurement frameworks and indicators and their applications in practice is classified in three categories. The first category is the definition and measurement of success in humanitarian supply chains. The second category is managing performance, which focuses on describing and analyzing the actual practice of managing performance. The third.
Explorer Interaction of the chromatin remodeling protein hINO 80 with DNA

The presence of a highly conserved DNA binding domain in INO80 subfamily predicted that INO80 directly interacts with DNA and we demonstrated its DNA binding activity in vitro. Here we report the consensus motif recognized by the DBINO domain identified by SELEX method and demonstrate the specific interaction of INO80 with the consensus motif. We show that INO80 significantly down regulates the reporter gene expression through its binding motif, and the repression is dependent on the presence of INO80 but not YY1 in the cell. The interaction is lost if specific residues within the consensus motif are altered. We identify a large number of potential target sites of INO80 in the human genome through in silico analysis that can grouped into three classes; sites that contain the recognition sequence for INO80 and YY1, only YY1 and only INO80. We demonstrate the binding of INO80 to a representative set of sites in HEK cells and the correlated repressive histone modifications around the binding motif. In the light of the role of INO80 in homeotic gene regulation in Drosophila as an Enhancer of trithorax and polycomb protein (ETP) that can modify the effect of both repressive complexes like polycomb as well as the activating complex like trithorax, it remains to be seen if INO80 can act as a recruiter of chromatin modifying complexes.
Digital Implementation of SVPWM Over-modulation

A method of SVPWM over-modulation which is easy to be implemented was proposed.According to the continuity of angle and amplitude,the over-modulation range could be divided into two parts.The theory of over-modulation and the expression of the fundamental voltage magnetic in each part were presented with each part′s characteristic.At last,based on the theory of over-modulation,a realizable engineering method was proposed.This method was used to finish the experiment and the theory was proved to be available.
Linked Open Data Utilization in a Major Digital News Publisher

Today the World Wide Web contains a vast amount of information, available to us mainly through HTML-documents viewed through a web browser. Linked Open Data is a field aiming to collect and present some of the information available on the Web in a machine-readable way. Among many goals is to be able to unite the various data available today in different formats, to extract even more data from it, and aid content retrieval. This Master’s thesis explore how Linked Open Data can be used in one of Norway’s biggest online news publishers, Verdens Gang (VG). I’ve also developed functionality for extracting Linked Open Data to assist the journalist with supplemental information in a story as it’s being written. The functionality was implemented as a plug-in in their publishing system.
A localized surface plasmon resonance-amplified immunofluorescence biosensor for ultrasensitive and rapid detection of nonstructural protein 1 of Zika virus

Among the members of flaviviruses, the Zika virus (ZIKV) remains a potent infectious disease agent, with its associated pandemic prompting the World Health Organization (WHO) to declare it a global public health concern. Thus, rapid and accurate diagnosis of the ZIKV is needed. In this study, we report a new immunofluorescence biosensor for the detection of nonstructural protein 1 (NS1) of the ZIKV, which operates using the localized surface plasmon resonance (LSPR) signal from plasmonic gold nanoparticles (AuNPs) to amplify the fluorescence intensity signal of quantum dots (QDs) within an antigen-antibody detection process. The LSPR signal from the AuNPs was used to amplify the fluorescence intensity of the QDs. For ultrasensitive, rapid, and quantitative detection of NS1 of the ZIKV, four different thiol-capped AuNPs were investigated. Our biosensor could detect the ZIKV in a wide concentration range from 10–107 RNA copies/mL, and we found that the limit of detection (LOD) for the ZIKV followed the order Ab-L-cysteine-AuNPs (LOD = 8.2 copies/mL) > Ab-3-mercaptopropionic acid-AuNPs (LOD = 35.0 copies/mL). Immunofluorescence biosensor for NS1 exhibited excellent specificity against other negative control targets and could also detect the ZIKV in human serum.
Proceedings Work-In-Progress Session of the 13th Real-Time and Embedded Technology and Applications Symposium

Scheduling policies for real-time systems exhibit threshold behavior that is related to the utilization of the task set they schedule, and in some cases this threshold is sharp. For the rate monotonic scheduling policy, we show that periodic workload with utilization less than a threshold U∗ RM can be scheduled almost surely and that all workload with utilization greater thanU∗ RM is almost surely not schedulable. We study such sharp threshold behavior in the context of uniprocessor scheduling using static task priorities. The notion of a utilization threshold provides a simple schedulability test for most real-time applications. These results improve our understanding of scheduling policies and provide an interesting characterization of the typical behavior of policies. The threshold is sharp (small deviations around the threshold cause schedulability to appear or disappear) for most policies; this is a happy consequence that can be used to address the limitations of existing utilization-based tests for schedulability.
Classification Techniques: A Review

Data mining is a process to extract information from a huge amount of data and transform it into an understandable structure. Data mining provides the number of tasks to extract data from large databases such as Classification, Clustering, Regression, Association rule mining. This paper provides the concept of Classification. Classification is an important data mining technique based on machine learning which is used to classify the each item on the bases of features of the item with respect to the predefined set of classes or groups. This paper summarises various techniques that are implemented for the classification such as k-NN, Decision Tree, Naïve Bayes, SVM, ANN and RF. The techniques are analyzed and compared on the basis of their advantages and disadvantages.
Cover cropping can be a stronger determinant than host crop identity for arbuscular mycorrhizal fungal communities colonizing maize and soybean

Background Understanding the role of communities of arbuscular mycorrhizal fungi (AMF) in agricultural systems is imperative for enhancing crop production. The key variables influencing change in AMF communities are the type of cover crop species or the type of subsequent host crop species. However, how maize and soybean performance is related to the diversity of AMF communities in cover cropping systems remains unclear. We therefore investigated which cover cropping or host identity is the most important factor in shaping AMF community structure in subsequent crop roots using an Illumina Miseq platform amplicon sequencing. Methods In this study, we established three cover crop systems (Italian ryegrass, hairy vetch, and brown mustard) or bare fallow prior to planting maize and soybean as cash crops. After cover cropping, we divided the cover crop experimental plots into two subsequent crop plots (maize and soybean) to understand which cover cropping or host crop identity is an important factor for determining the AMF communities and diversity both in maize and soybeans. Results We found that most of the operational taxonomic units (OTUs) in root samples were common in both maize and soybean, and the proportion of common generalists in this experiment for maize and soybean roots was 79.5% according to the multinomial species classification method (CLAM test). The proportion of OTUs specifically detected in only maize and soybean was 9.6% and 10.8%, respectively. Additionally, the cover cropping noticeably altered the AMF community structure in the maize and soybean roots. However, the differentiation of AMF communities between maize and soybean was not significantly different. Discussion Our results suggest cover cropping prior to planting maize and soybean may be a strong factor for shaping AMF community structure in subsequent maize and soybean roots rather than two host crop identities. Additionally, we could not determine the suitable rotational combination for cover crops and subsequent maize and soybean crops to improve the diversity of the AMF communities in their roots. However, our findings may have implications for understanding suitable rotational combinations between cover crops and subsequent cash crops and further research should investigate in-depth the benefit of AMF on cash crop performances in cover crop rotational systems.
Proteção compartilhada e restauração de tráfego em redes ópticas de segmentação espectral flexível

CAPELARI, N. S. B. , “Shared protection and traffic restoration in elastic optical networks”, (Master’s degree project) – Escola de Engenharia de Sao Carlos, Universidade de Sao Paulo, Sao Carlos, 2016. The search for efficient and economical communication systems is increasing, especially with the increased demand for traffic and bandwidth transmission. The elastic optical networks, well known for their efficient using of bandwidth, have been thoroughly studied and are considered good candidates for the next generation networks. Such flexible networks use multilevel modulation formats and multicarrier multiplexing. Systems with high transmission capacity should be extremely reliable, as a failure in a device or link brings huge data loss. Therefore, traffic protection and restoration techniques should be efficient, to ensure network survivability. In this work, we propose an algorithm capable of managing each connection request, finding an optical path for transmission and a protection path to recover traffic in case of network failure. The selection of the primary and protection path uses the smart-fit technique, which chooses the solution with the lower final cost, defined by the route’s distance plus the index’s cost of the first slot of the allocated spectrum, in order to balance the choice between the position in the spectrum and the chosen route. In addition, different costs for free or shared frequency slots are defined, so as to encourage spectral sharing in protection paths. Among the spectrum allocation techniques, scanning with spectrum window scans the spectrum in all links of the route, slot by slot, searching for a free band large enough to meet the demand. In this work, we developed a new technique, called logical search, that simultaneously deals with all the links in the route, by performing logical operations with them. Then, a convolution is performed between a spectrum window, with the same size of the demand, and the resulting spectrum. From this result, it is possible to know all the positions in the spectrum where the demand may fit. This technique, as will be shown, is faster than the scan with spectrum window. To guarantee the efficiency and reliability of the algorithm, using the MATLAB software, we evaluated the blocking probability and bandwidth blocking probability, the average spectral fragmentation in the network, the shareability ratio, the spectral utilization ratio and the spare capacity ratio. The developed algorithm was able to organize the traffic in an orderly and less fragmented way, and use the protection resources efficiently.
An Approach for Web Service Matchmaking Based on DAML-S

Web service matchmaking is an important aspect of web service discovery. The main shortcoming of industry standard such as UDDI to publish and discover web service in internet is that they do not allow much flexibility and expressiveness in the service descriptions. An approach for web service matchmaking based on DAML-S is proposed, in which web services are described by DAML-S and be advertised, and then a matchmaking degree is measured between input/outputs of web service description and capability of users' requirements.
Musicmean: Fusion-based music generation

In this paper, we propose MusicMean , a system that fuses existing songs to create an “in-between song” such as an “average song,” by calculating the average acoustic pitch of musical notes and the occurrence frequency of drum elements from multiple MIDI songs. We generate an in-between song for generative music by deﬁning rules based on simple music theory. The system realizes the interactive generation of in-between songs. This represents new interaction between human and digital content. Using Mu-sicMean, users can create personalized songs by fusing their favorite songs.