Automated construction and analysis of political networks via open government and media sources

We present a tool to generate real world political networks from user provided lists of politicians and news sites. Additional output includes visualizations, interactive tools and maps that allow a user to better understand the politicians and their surrounding environments as portrayed by the media. As a case study, we construct a comprehensive list of current Texas politicians, select news sites that convey a spectrum of political viewpoints covering Texas politics, and examine the results. We propose a ”Combined” co-occurrence distance metric to better reflect the relationship between two entities. A topic modeling technique is also proposed as a novel, automated way of labeling communities that exist within a politician’s ”extended” network.Peer ReviewedPostprint (author's final draft

Contextual Analysis of Large-Scale Biomedical Associations for the Elucidation and Prioritization of Genes and their Roles in Complex Disease

Vast amounts of biomedical associations are easily accessible in public resources, spanning gene-disease associations, tissue-specific gene expression, gene function and pathway annotations, and many other data types. Despite this mass of data, information most relevant to the study of a particular disease remains loosely coupled and difficult to incorporate into ongoing research. Current public databases are difficult to navigate and do not interoperate well due to the plethora of interfaces and varying biomedical concept identifiers used. Because no coherent display of data within a specific problem domain is available, finding the latent relationships associated with a disease of interest is impractical. This research describes a method for extracting the contextual relationships embedded within associations relevant to a disease of interest. After applying the method to a small test data set, a large-scale integrated association network is constructed for application of a network propagation technique that helps uncover more distant latent relationships. Together these methods are adept at uncovering highly relevant relationships without any a priori knowledge of the disease of interest. The combined contextual search and relevance methods power a tool which makes pertinent biomedical associations easier to find, easier to assimilate into ongoing work, and more prominent than currently available databases. Increasing the accessibility of current information is an important component to understanding high-throughput experimental results and surviving the data deluge

Computational analysis of CpG site DNA methylation

This thesis was submitted for the degree of Doctor of Philosophy and awarded by Brunel University.Epigenetics is the study of factors that can change DNA and passed to next generation without change to DNA sequence. DNA methylation is one of the categories of epigenetic change. DNA methylation is the attachment of methyl group (CH3) to DNA. Most of the time it occurs in the sequences that G is followed by C known as CpG sites and by addition of methyl to the cytosine residue. As science and technology progress new data are available about individual’s DNA methylation profile in different conditions. Also new features discovered that can have role in DNA methylation. The availability of new data on DNA methylation and other features of DNA provide challenge to bioinformatics and the opportunity to discover new knowledge from existing data. In this research multiple data series were used to identify classes of methylation DNA to CpG sites. These classes are a) Never methylated CpG sites,b) Always methylated CpG sites, c) Methylated CpG sites in cancer/disease samples and non-methylated in normal samples d) Methylated CpG sites in normal samples and non-methylated in cancer/disease samples. After identification of these sites and their classes, an analysis was carried out to find the features which can better classify these sites a matrix of features was generated using four applications in EMBOSS software suite. Features matrix was also generated using the gUse/WS-PGRADE portal workflow system. In order to do this each of the four applications were grid enabled and ported to BOINC platform. The gUse portal was connected to the BOINC project via 3G-bridge. Each node in the workflow created portion of matrix and then these portions were combined together to create final matrix. This final feature matrix used in a hill climbing workflow. Hill climbing node was a JAVA program ported to BOINC platform. A Hill climbing search workflow was used to search for a subset of features that are better at classifying the CpG sites using 5 different measurements and three different classification methods: support vector machine, naïve bayes and J48 decision tree. Using this approach the hill climbing search found the models which contain less than half the number of features and better classification results. It is also been demonstrated that using gUse/WS-PGRADE workflow system can provide a modular way of feature generation so adding new feature generator application can be done without changing other parts. It is also shown that using grid enabled applications can speedup both feature generation and feature subset selection. The approach used in this research for distributed workflow based feature generation is not restricted to this study and can be applied in other studies that involve feature generation. The approach also needs multiple binaries to generate portions of features. The grid enabled hill climbing search application can also be used in different context as it only requires to follow the same format of feature matrix

Trust and its relationships with knowledge sharing and virtual team effectiveness

Virtual teams represent one form of organization structure that revolutionize the workplace and provide organizations with unprecedented levels of flexibility and responsiveness.However, implementing virtual teams could be quite challenging especially if it involves different languages, time zones, and communication styles.Most importantly, the autonomy of the virtual environment may cause team members to distort social and contextual information,and with limited proximal communication between team members,it can create a lack of trust among members of the virtual team members which can significantly reduce the effectiveness of these teams.Hence, this paper reports a study conducted to examine the relationship between trust and virtual teams effectiveness, by looking into the mediating effect of knowledge sharing.Results of hierarchical regression analysis indicated that knowledge sharing and all the three types of trust are significantly related to virtual team effectiveness.However, only personality- based trust and institutional-based trust are significantly related to knowledge sharing, but knowledge sharing only partially mediates the relationship between these two types of trust and team effectiveness

Cluster analysis

Thesis (M.S.)--Massachusetts Institute of Technology, Dept. of Mathematics, 1953.Includes bibliographical references (leaf [24].)by Anatol W. Holt.M.S

Wyllis Dorman-Ligh v. State of Utah, Utah Higher Education Assistance Authority : Reply Brief

Appeal from a Judgment of the Third Circuit Court, State of Utah, Salt Lake County, Salt Lake Department, Honorable Dennis M. Fuchs