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- Genre: Doctoral Dissertation
- Creators: Liu, Huan
Description
Automating aspects of biocuration through biomedical information extraction could significantly impact biomedical research by enabling greater biocuration throughput and improving the feasibility of a wider scope. An important step in biomedical information extraction systems is named entity recognition (NER), where mentions of entities such as proteins and diseases are located within natural-language text and their semantic type is determined. This step is critical for later tasks in an information extraction pipeline, including normalization and relationship extraction. BANNER is a benchmark biomedical NER system using linear-chain conditional random fields and the rich feature set approach. A case study with BANNER locating genes and proteins in biomedical literature is described. The first corpus for disease NER adequate for use as training data is introduced, and employed in a case study of disease NER. The first corpus locating adverse drug reactions (ADRs) in user posts to a health-related social website is also described, and a system to locate and identify ADRs in social media text is created and evaluated. The rich feature set approach to creating NER feature sets is argued to be subject to diminishing returns, implying that additional improvements may require more sophisticated methods for creating the feature set. This motivates the first application of multivariate feature selection with filters and false discovery rate analysis to biomedical NER, resulting in a feature set at least 3 orders of magnitude smaller than the set created by the rich feature set approach. Finally, two novel approaches to NER by modeling the semantics of token sequences are introduced. The first method focuses on the sequence content by using language models to determine whether a sequence resembles entries in a lexicon of entity names or text from an unlabeled corpus more closely. The second method models the distributional semantics of token sequences, determining the similarity between a potential mention and the token sequences from the training data by analyzing the contexts where each sequence appears in a large unlabeled corpus. The second method is shown to improve the performance of BANNER on multiple data sets.
ContributorsLeaman, James Robert (Author) / Gonzalez, Graciela (Thesis advisor) / Baral, Chitta (Thesis advisor) / Cohen, Kevin B (Committee member) / Liu, Huan (Committee member) / Ye, Jieping (Committee member) / Arizona State University (Publisher)
Created2013
Description
Since the departure of the UN Transitional Authority (UNTAC) in 1993, the Cambodian Muslim community has undergone a rapid transformation from being an Islamic minority on the periphery of the Muslim world to being the object of intense proselytization by foreign Islamic organizations, charities and development organizations. This has led to a period of religious as well as political ferment in which Cambodian Muslims are reassessing their relationships to other Muslim communities in the country, fellow Muslims outside of the country, and an officially Buddhist state. This dissertation explores the ways in which the Cham Muslims of Cambodia have deployed notions of nationality, citizenship, history, ethnicity and religion in Cambodia's new political and economic climate. It is the product of a multi-sited ethnographic study conducted in Phnom Penh and Kampong Chhnang as well as Kampong Cham and Ratanakiri. While all Cham have some ethnic and linguistic connection to each other, there have been a number of reactions to the exposure of the community to outside influences. This dissertation examines how ideas and ideologies of history are formed among the Cham and how these notions then inform their acceptance or rejection of foreign Muslims as well as of each other. This understanding of the Cham principally rests on an appreciation of the way in which geographic space and historical events are transformed into moral symbols that bind groups of people or divide them. Ultimately, this dissertation examines the Cham not only as an Islamic minority, but as an Islamic diaspora - a particular form of identity construction which has implications for their future development and relations with non-Muslim peoples. It reconsiders the classifications of diasporas proposed by Robin Cohen and William Safran, by incorporating Arjun Appadurai's conception of locality as a construct that must be continuously rendered in praxis to generate the socially shared understanding of space, geography and its meaning for communitarian identity. This treatment of Islamic transnationalism within the context of diaspora studies can contribute to the broader conversation on the changing face of Islamic identity in an increasingly globalized world.
ContributorsPérez Pereiro, Alberto (Author) / Jonsson, Hjorleifur R (Thesis advisor) / Eder, James F. (Thesis advisor) / Woodward, Mark (Committee member) / Arizona State University (Publisher)
Created2012
Description
In most social networking websites, users are allowed to perform interactive activities. One of the fundamental features that these sites provide is to connecting with users of their kind. On one hand, this activity makes online connections visible and tangible; on the other hand, it enables the exploration of our connections and the expansion of our social networks easier. The aggregation of people who share common interests forms social groups, which are fundamental parts of our social lives. Social behavioral analysis at a group level is an active research area and attracts many interests from the industry. Challenges of my work mainly arise from the scale and complexity of user generated behavioral data. The multiple types of interactions, highly dynamic nature of social networking and the volatile user behavior suggest that these data are complex and big in general. Effective and efficient approaches are required to analyze and interpret such data. My work provide effective channels to help connect the like-minded and, furthermore, understand user behavior at a group level. The contributions of this dissertation are in threefold: (1) proposing novel representation of collective tagging knowledge via tag networks; (2) proposing the new information spreader identification problem in egocentric soical networks; (3) defining group profiling as a systematic approach to understanding social groups. In sum, the research proposes novel concepts and approaches for connecting the like-minded, enables the understanding of user groups, and exposes interesting research opportunities.
ContributorsWang, Xufei (Author) / Liu, Huan (Thesis advisor) / Kambhampati, Subbarao (Committee member) / Sundaram, Hari (Committee member) / Ye, Jieping (Committee member) / Arizona State University (Publisher)
Created2013
Description
In this dissertation I develop a deep theory of temporal planning well-suited to analyzing, understanding, and improving the state of the art implementations (as of 2012). At face-value the work is strictly theoretical; nonetheless its impact is entirely real and practical. The easiest portion of that impact to highlight concerns the notable improvements to the format of the temporal fragment of the International Planning Competitions (IPCs). Particularly: the theory I expound upon here is the primary cause of--and justification for--the altered (i) selection of benchmark problems, and (ii) notion of "winning temporal planner". For higher level motivation: robotics, web service composition, industrial manufacturing, business process management, cybersecurity, space exploration, deep ocean exploration, and logistics all benefit from applying domain-independent automated planning technique. Naturally, actually carrying out such case studies has much to offer. For example, we may extract the lesson that reasoning carefully about deadlines is rather crucial to planning in practice. More generally, effectively automating specifically temporal planning is well-motivated from applications. Entirely abstractly, the aim is to improve the theory of automated temporal planning by distilling from its practice. My thesis is that the key feature of computational interest is concurrency. To support, I demonstrate by way of compilation methods, worst-case counting arguments, and analysis of algorithmic properties such as completeness that the more immediately pressing computational obstacles (facing would-be temporal generalizations of classical planning systems) can be dealt with in theoretically efficient manner. So more accurately the technical contribution here is to demonstrate: The computationally significant obstacle to automated temporal planning that remains is just concurrency.
ContributorsCushing, William Albemarle (Author) / Kambhampati, Subbarao (Thesis advisor) / Weld, Daniel S. (Committee member) / Smith, David E. (Committee member) / Baral, Chitta (Committee member) / Davalcu, Hasan (Committee member) / Arizona State University (Publisher)
Created2012
Description
Conversion to Judaism has a long history, and changes in Jewish law for converts over the centuries have reflected changes in the relationship between the Jewish community and the larger societies within which Jews have lived. As American Jews now live in the most open society they have encountered, a split is developing between Orthodox and liberal Jewish rabbinic authorities in how they deal with potential converts. This split is evident in books written to advice potential converts and in conversion narratives by people who have converted to Judaism. For this project over 30 people who were in the process of converting to Judaism were interviewed. Their stories reflect the ways in which liberal Judaism has been affected by American ideals and values, including feminism and an emphasis on spiritual individuality.
ContributorsCohen, Mariam (Author) / Gereboff, Joel (Thesis advisor) / Woodward, Mark (Committee member) / Cohen, Adam (Committee member) / Arizona State University (Publisher)
Created2013
Description
Current work in planning assumes that user preferences and/or domain dynamics are completely specified in advance, and aims to search for a single solution plan to satisfy these. In many real world scenarios, however, providing a complete specification of user preferences and domain dynamics becomes a time-consuming and error-prone task. More often than not, a user may provide no knowledge or at best partial knowledge of her preferences with respect to a desired plan. Similarly, a domain writer may only be able to determine certain parts, not all, of the model of some actions in a domain. Such modeling issues requires new concepts on what a solution should be, and novel techniques in solving the problem. When user preferences are incomplete, rather than presenting a single plan, the planner must instead provide a set of plans containing one or more plans that are similar to the one that the user prefers. This research first proposes the usage of different measures to capture the quality of such plan sets. These are domain-independent distance measures based on plan elements if no knowledge of the user preferences is given, or the Integrated Preference Function measure in case incomplete knowledge of such preferences is provided. It then investigates various heuristic approaches to generate plan sets in accordance with these measures, and presents empirical results demonstrating the promise of the methods. The second part of this research addresses planning problems with incomplete domain models, specifically those annotated with possible preconditions and effects of actions. It formalizes the notion of plan robustness capturing the probability of success for plans during execution. A method of assessing plan robustness based on the weighted model counting approach is proposed. Two approaches for synthesizing robust plans are introduced. The first one compiles the robust plan synthesis problems to the conformant probabilistic planning problems. The second approximates the robustness measure with lower and upper bounds, incorporating them into a stochastic local search for estimating distance heuristic to a goal state. The resulting planner outperforms a state-of-the-art planner that can handle incomplete domain models in both plan quality and planning time.
ContributorsNguyễn, Tuấn Anh (Author) / Kambhampati, Subbarao (Thesis advisor) / Baral, Chitta (Committee member) / Do, Minh (Committee member) / Lee, Joohyung (Committee member) / Smith, David E. (Committee member) / Arizona State University (Publisher)
Created2014
Description
Crises or large-scale emergencies such as earthquakes and hurricanes cause massive damage to lives and property. Crisis response is an essential task to mitigate the impact of a crisis. An effective response to a crisis necessitates information gathering and analysis. Traditionally, this process has been restricted to the information collected by first responders on the ground in the affected region or by official agencies such as local governments involved in the response. However, the ubiquity of mobile devices has empowered people to publish information during a crisis through social media, such as the damage reports from a hurricane. Social media has thus emerged as an important channel of information which can be leveraged to improve crisis response. Twitter is a popular medium which has been employed in recent crises. However, it presents new challenges: the data is noisy and uncurated, and it has high volume and high velocity. In this work, I study four key problems in the use of social media for crisis response: effective monitoring and analysis of high volume crisis tweets, detecting crisis events automatically in streaming data, identifying users who can be followed to effectively monitor crisis, and finally understanding user behavior during crisis to detect tweets inside crisis regions. To address these problems I propose two systems which assist disaster responders or analysts to collaboratively collect tweets related to crisis and analyze it using visual analytics to identify interesting regions, topics, and users involved in disaster response. I present a novel approach to detecting crisis events automatically in noisy, high volume Twitter streams. I also investigate and introduce novel methods to tackle information overload through the identification of information leaders in information diffusion who can be followed for efficient crisis monitoring and identification of messages originating from crisis regions using user behavior analysis.
ContributorsKumar, Shamanth (Author) / Liu, Huan (Thesis advisor) / Davulcu, Hasan (Committee member) / Maciejewski, Ross (Committee member) / Agarwal, Nitin (Committee member) / Arizona State University (Publisher)
Created2015
Description
Social networking services have emerged as an important platform for large-scale information sharing and communication. With the growing popularity of social media, spamming has become rampant in the platforms. Complex network interactions and evolving content present great challenges for social spammer detection. Different from some existing well-studied platforms, distinct characteristics of newly emerged social media data present new challenges for social spammer detection. First, texts in social media are short and potentially linked with each other via user connections. Second, it is observed that abundant contextual information may play an important role in distinguishing social spammers and normal users. Third, not only the content information but also the social connections in social media evolve very fast. Fourth, it is easy to amass vast quantities of unlabeled data in social media, but would be costly to obtain labels, which are essential for many supervised algorithms. To tackle those challenges raise in social media data, I focused on developing effective and efficient machine learning algorithms for social spammer detection.
I provide a novel and systematic study of social spammer detection in the dissertation. By analyzing the properties of social network and content information, I propose a unified framework for social spammer detection by collectively using the two types of information in social media. Motivated by psychological findings in physical world, I investigate whether sentiment analysis can help spammer detection in online social media. In particular, I conduct an exploratory study to analyze the sentiment differences between spammers and normal users; and present a novel method to incorporate sentiment information into social spammer detection framework. Given the rapidly evolving nature, I propose a novel framework to efficiently reflect the effect of newly emerging social spammers. To tackle the problem of lack of labeling data in social media, I study how to incorporate network information into text content modeling, and design strategies to select the most representative and informative instances from social media for labeling. Motivated by publicly available label information from other media platforms, I propose to make use of knowledge learned from cross-media to help spammer detection on social media.
I provide a novel and systematic study of social spammer detection in the dissertation. By analyzing the properties of social network and content information, I propose a unified framework for social spammer detection by collectively using the two types of information in social media. Motivated by psychological findings in physical world, I investigate whether sentiment analysis can help spammer detection in online social media. In particular, I conduct an exploratory study to analyze the sentiment differences between spammers and normal users; and present a novel method to incorporate sentiment information into social spammer detection framework. Given the rapidly evolving nature, I propose a novel framework to efficiently reflect the effect of newly emerging social spammers. To tackle the problem of lack of labeling data in social media, I study how to incorporate network information into text content modeling, and design strategies to select the most representative and informative instances from social media for labeling. Motivated by publicly available label information from other media platforms, I propose to make use of knowledge learned from cross-media to help spammer detection on social media.
ContributorsHu, Xia, Ph.D (Author) / Liu, Huan (Thesis advisor) / Kambhampati, Subbarao (Committee member) / Ye, Jieping (Committee member) / Faloutsos, Christos (Committee member) / Arizona State University (Publisher)
Created2015
Description
A myriad of social media services are emerging in recent years that allow people to communicate and express themselves conveniently and easily. The pervasive use of social media generates massive data at an unprecedented rate. It becomes increasingly difficult for online users to find relevant information or, in other words, exacerbates the information overload problem. Meanwhile, users in social media can be both passive content consumers and active content producers, causing the quality of user-generated content can vary dramatically from excellence to abuse or spam, which results in a problem of information credibility. Trust, providing evidence about with whom users can trust to share information and from whom users can accept information without additional verification, plays a crucial role in helping online users collect relevant and reliable information. It has been proven to be an effective way to mitigate information overload and credibility problems and has attracted increasing attention.
As the conceptual counterpart of trust, distrust could be as important as trust and its value has been widely recognized by social sciences in the physical world. However, little attention is paid on distrust in social media. Social media differs from the physical world - (1) its data is passively observed, large-scale, incomplete, noisy and embedded with rich heterogeneous sources; and (2) distrust is generally unavailable in social media. These unique properties of social media present novel challenges for computing distrust in social media: (1) passively observed social media data does not provide necessary information social scientists use to understand distrust, how can I understand distrust in social media? (2) distrust is usually invisible in social media, how can I make invisible distrust visible by leveraging unique properties of social media data? and (3) little is known about distrust and its role in social media applications, how can distrust help make difference in social media applications?
The chief objective of this dissertation is to figure out solutions to these challenges via innovative research and novel methods. In particular, computational tasks are designed to {\it understand distrust}, a innovative task, i.e., {\it predicting distrust} is proposed with novel frameworks to make invisible distrust visible, and principled approaches are develop to {\it apply distrust} in social media applications. Since distrust is a special type of negative links, I demonstrate the generalization of properties and algorithms of distrust to negative links, i.e., {\it generalizing findings of distrust}, which greatly expands the boundaries of research of distrust and largely broadens its applications in social media.
As the conceptual counterpart of trust, distrust could be as important as trust and its value has been widely recognized by social sciences in the physical world. However, little attention is paid on distrust in social media. Social media differs from the physical world - (1) its data is passively observed, large-scale, incomplete, noisy and embedded with rich heterogeneous sources; and (2) distrust is generally unavailable in social media. These unique properties of social media present novel challenges for computing distrust in social media: (1) passively observed social media data does not provide necessary information social scientists use to understand distrust, how can I understand distrust in social media? (2) distrust is usually invisible in social media, how can I make invisible distrust visible by leveraging unique properties of social media data? and (3) little is known about distrust and its role in social media applications, how can distrust help make difference in social media applications?
The chief objective of this dissertation is to figure out solutions to these challenges via innovative research and novel methods. In particular, computational tasks are designed to {\it understand distrust}, a innovative task, i.e., {\it predicting distrust} is proposed with novel frameworks to make invisible distrust visible, and principled approaches are develop to {\it apply distrust} in social media applications. Since distrust is a special type of negative links, I demonstrate the generalization of properties and algorithms of distrust to negative links, i.e., {\it generalizing findings of distrust}, which greatly expands the boundaries of research of distrust and largely broadens its applications in social media.
ContributorsTang, Jiliang (Author) / Liu, Huan (Thesis advisor) / Xue, Guoliang (Committee member) / Ye, Jieping (Committee member) / Aggarwal, Charu (Committee member) / Arizona State University (Publisher)
Created2015
Description
US Senate is the venue of political debates where the federal bills are formed and voted. Senators show their support/opposition along the bills with their votes. This information makes it possible to extract the polarity of the senators. Similarly, blogosphere plays an increasingly important role as a forum for public debate. Authors display sentiment toward issues, organizations or people using a natural language.
In this research, given a mixed set of senators/blogs debating on a set of political issues from opposing camps, I use signed bipartite graphs for modeling debates, and I propose an algorithm for partitioning both the opinion holders (senators or blogs) and the issues (bills or topics) comprising the debate into binary opposing camps. Simultaneously, my algorithm scales the entities on a univariate scale. Using this scale, a researcher can identify moderate and extreme senators/blogs within each camp, and polarizing versus unifying issues. Through performance evaluations I show that my proposed algorithm provides an effective solution to the problem, and performs much better than existing baseline algorithms adapted to solve this new problem. In my experiments, I used both real data from political blogosphere and US Congress records, as well as synthetic data which were obtained by varying polarization and degree distribution of the vertices of the graph to show the robustness of my algorithm.
I also applied my algorithm on all the terms of the US Senate to the date for longitudinal analysis and developed a web based interactive user interface www.PartisanScale.com to visualize the analysis.
US politics is most often polarized with respect to the left/right alignment of the entities. However, certain issues do not reflect the polarization due to political parties, but observe a split correlating to the demographics of the senators, or simply receive consensus. I propose a hierarchical clustering algorithm that identifies groups of bills that share the same polarization characteristics. I developed a web based interactive user interface www.ControversyAnalysis.com to visualize the clusters while providing a synopsis through distribution charts, word clouds, and heat maps.
In this research, given a mixed set of senators/blogs debating on a set of political issues from opposing camps, I use signed bipartite graphs for modeling debates, and I propose an algorithm for partitioning both the opinion holders (senators or blogs) and the issues (bills or topics) comprising the debate into binary opposing camps. Simultaneously, my algorithm scales the entities on a univariate scale. Using this scale, a researcher can identify moderate and extreme senators/blogs within each camp, and polarizing versus unifying issues. Through performance evaluations I show that my proposed algorithm provides an effective solution to the problem, and performs much better than existing baseline algorithms adapted to solve this new problem. In my experiments, I used both real data from political blogosphere and US Congress records, as well as synthetic data which were obtained by varying polarization and degree distribution of the vertices of the graph to show the robustness of my algorithm.
I also applied my algorithm on all the terms of the US Senate to the date for longitudinal analysis and developed a web based interactive user interface www.PartisanScale.com to visualize the analysis.
US politics is most often polarized with respect to the left/right alignment of the entities. However, certain issues do not reflect the polarization due to political parties, but observe a split correlating to the demographics of the senators, or simply receive consensus. I propose a hierarchical clustering algorithm that identifies groups of bills that share the same polarization characteristics. I developed a web based interactive user interface www.ControversyAnalysis.com to visualize the clusters while providing a synopsis through distribution charts, word clouds, and heat maps.
ContributorsGokalp, Sedat (Author) / Davulcu, Hasan (Thesis advisor) / Sen, Arunabha (Committee member) / Liu, Huan (Committee member) / Woodward, Mark (Committee member) / Arizona State University (Publisher)
Created2015