@article {17487,
	title = {Visual Exploration across Biomedical Databases},
	journal = {IEEE/ACM Transactions on Computational Biology and Bioinformatics},
	volume = {8},
	year = {2011},
	month = {2011/04//March},
	pages = {536 - 550},
	abstract = {Though biomedical research often draws on knowledge from a wide variety of fields, few visualization methods for biomedical data incorporate meaningful cross-database exploration. A new approach is offered for visualizing and exploring a query-based subset of multiple heterogeneous biomedical databases. Databases are modeled as an entity-relation graph containing nodes (database records) and links (relationships between records). Users specify a keyword search string to retrieve an initial set of nodes, and then explore intra- and interdatabase links. Results are visualized with user-defined semantic substrates to take advantage of the rich set of attributes usually present in biomedical data. Comments from domain experts indicate that this visualization method is potentially advantageous for biomedical knowledge exploration.},
	keywords = {Bioinformatics, Biomedical computing, biomedical databases, cross-database exploration, Data exploration and discovery, Data visualization, database management systems, Databases, Factual, DNA, graph theory, Information Storage and Retrieval, information visualization., Keyword search, medical computing, natural language processing, Proteins, semantic networks, semantics, sequences, text mining, User-Computer Interface, user-defined semantics, visual databases},
	isbn = {1545-5963},
	doi = {10.1109/TCBB.2010.1},
	author = {Lieberman,M.D. and Taheri, S. and Guo,Huimin and Mirrashed,F. and Yahav,I. and Aris,A. and Shneiderman, Ben}
}
@conference {16503,
	title = {Web Monitoring 2.0: Crossing Streams to Satisfy Complex Data Needs},
	booktitle = {IEEE 25th International Conference on Data Engineering, 2009. ICDE {\textquoteright}09},
	year = {2009},
	month = {2009/04/29/March},
	pages = {1215 - 1218},
	publisher = {IEEE},
	organization = {IEEE},
	abstract = {Web monitoring 2.0 supports the complex information needs of clients who probe multiple information sources and generate mashups by integrating across these volatile streams. A proxy that aims at satisfying multiple customized client profiles will face a scalability challenge in trying to maximize the number of clients served while at the same time fully satisfying complex client needs. In this paper, we introduce an abstraction of complex execution intervals, a combination of time intervals and information streams, to capture complex client needs. Given some budgetary constraints (e.g., bandwidth), we present offline algorithmic solutions for the problem of maximizing completeness of capturing complex profiles.},
	keywords = {Bandwidth, complex client information need, Data Delivery, Data engineering, database management systems, Educational institutions, Internet, Mashups, mashups generation, Monitoring, multiple information source, offline algorithmic solution, Portals, PROBES, Profiles, Query processing, scalability, scheduling, volatile information stream, Web 2.0, Web Monitoring},
	isbn = {978-1-4244-3422-0},
	doi = {10.1109/ICDE.2009.204},
	author = {Roitman,H. and Gal,A. and Raschid, Louiqa}
}
@article {17250,
	title = {Interactive Entity Resolution in Relational Data: A Visual Analytic Tool and Its Evaluation},
	journal = {IEEE Transactions on Visualization and Computer Graphics},
	volume = {14},
	year = {2008},
	month = {2008/10//Sept},
	pages = {999 - 1014},
	abstract = {Databases often contain uncertain and imprecise references to real-world entities. Entity resolution, the process of reconciling multiple references to underlying real-world entities, is an important data cleaning process required before accurate visualization or analysis of the data is possible. In many cases, in addition to noisy data describing entities, there is data describing the relationships among the entities. This relational data is important during the entity resolution process; it is useful both for the algorithms which determine likely database references to be resolved and for visual analytic tools which support the entity resolution process. In this paper, we introduce a novel user interface, D-Dupe, for interactive entity resolution in relational data. D-Dupe effectively combines relational entity resolution algorithms with a novel network visualization that enables users to make use of an entity{\textquoteright}s relational context for making resolution decisions. Since resolution decisions often are interdependent, D-Dupe facilitates understanding this complex process through animations which highlight combined inferences and a history mechanism which allows users to inspect chains of resolution decisions. An empirical study with 12 users confirmed the benefits of the relational context visualization on the performance of entity resolution tasks in relational data in terms of time as well as users{\textquoteright} confidence and satisfaction.},
	keywords = {algorithms, Computer Graphics, D-Dupe, data visualisation, database management systems, Databases, Factual, graphical user interface, Graphical user interfaces, human-centered computing, Image Interpretation, Computer-Assisted, Information Storage and Retrieval, Information Visualization, interactive entity resolution, relational context visualization, Relational databases, relational entity resolution algorithm, User interfaces, user-centered design, User-Computer Interface, visual analytic tool},
	isbn = {1077-2626},
	doi = {10.1109/TVCG.2008.55},
	author = {Kang,Hyunmo and Getoor, Lise and Shneiderman, Ben and Bilgic,M. and Licamele,L.}
}
@conference {13402,
	title = {Representing Tuple and Attribute Uncertainty in Probabilistic Databases},
	booktitle = {Seventh IEEE International Conference on Data Mining Workshops, 2007. ICDM Workshops 2007},
	year = {2007},
	month = {2007/10/28/31},
	pages = {507 - 512},
	publisher = {IEEE},
	organization = {IEEE},
	abstract = {There has been a recent surge in work in probabilistic databases, propelled in large part by the huge increase in noisy data sources-sensor data, experimental data, data from uncurated sources, and many others. There is a growing need to be able to flexibly represent the uncertainties in the data, and to efficiently query the data. Building on existing probabilistic database work, we present a unifying framework which allows a flexible representation of correlated tuple and attribute level uncertainties. An important capability of our representation is the ability to represent shared correlation structures in the data. We provide motivating examples to illustrate when such shared correlation structures are likely to exist. Representing shared correlations structures allows the use of sophisticated inference techniques based on lifted probabilistic inference that, in turn, allows us to achieve significant speedups while computing probabilities for results of user-submitted queries.},
	keywords = {attribute uncertainty, Computer science, Conferences, correlation structures, data mining, Data models, database management systems, Educational institutions, inference mechanisms, noisy data sources, probabilistic database, probabilistic inference, Probability distribution, Query processing, Relational databases, Sensor phenomena and characterization, tuple representation, Uncertainty, uncertainty handling},
	isbn = {978-0-7695-3019-2},
	doi = {10.1109/ICDMW.2007.11},
	author = {Sen,P. and Deshpande, Amol and Getoor, Lise}
}
@article {17272,
	title = {Knowledge discovery in high-dimensional data: case studies and a user survey for the rank-by-feature framework},
	journal = {IEEE Transactions on Visualization and Computer Graphics},
	volume = {12},
	year = {2006},
	month = {2006/06//May},
	pages = {311 - 322},
	abstract = {Knowledge discovery in high-dimensional data is a challenging enterprise, but new visual analytic tools appear to offer users remarkable powers if they are ready to learn new concepts and interfaces. Our three-year effort to develop versions of the hierarchical clustering explorer (HCE) began with building an interactive tool for exploring clustering results. It expanded, based on user needs, to include other potent analytic and visualization tools for multivariate data, especially the rank-by-feature framework. Our own successes using HCE provided some testimonial evidence of its utility, but we felt it necessary to get beyond our subjective impressions. This paper presents an evaluation of the hierarchical clustering explorer (HCE) using three case studies and an e-mail user survey (n=57) to focus on skill acquisition with the novel concepts and interface for the rank-by-feature framework. Knowledgeable and motivated users in diverse fields provided multiple perspectives that refined our understanding of strengths and weaknesses. A user survey confirmed the benefits of HCE, but gave less guidance about improvements. Both evaluations suggested improved training methods},
	keywords = {case study, Computer aided software engineering, Computer Society, Data analysis, data mining, data visualisation, Data visualization, database management systems, e-mail user survey, Genomics, Helium, Hierarchical Clustering Explorer, hierarchical clustering explorer., high-dimensional data, Histograms, Information visualization evaluation, interactive systems, interactive tool, knowledge discovery, multivariate data, Rank-by-feature framework, Scattering, Testing, user interface, User interfaces, user survey, visual analytic tools, visual analytics, visualization tools},
	isbn = {1077-2626},
	doi = {10.1109/TVCG.2006.50},
	author = {Seo,Jinwook and Shneiderman, Ben}
}
@article {17849,
	title = {The virtual microscope},
	journal = {IEEE Transactions on Information Technology in Biomedicine},
	volume = {7},
	year = {2003},
	month = {2003/12//},
	pages = {230 - 248},
	abstract = {We present the design and implementation of the virtual microscope, a software system employing a client/server architecture to provide a realistic emulation of a high power light microscope. The system provides a form of completely digital telepathology, allowing simultaneous access to archived digital slide images by multiple clients. The main problem the system targets is storing and processing the extremely large quantities of data required to represent a collection of slides. The virtual microscope client software runs on the end user{\textquoteright}s PC or workstation, while database software for storing, retrieving and processing the microscope image data runs on a parallel computer or on a set of workstations at one or more potentially remote sites. We have designed and implemented two versions of the data server software. One implementation is a customization of a database system framework that is optimized for a tightly coupled parallel machine with attached local disks. The second implementation is component-based, and has been designed to accommodate access to and processing of data in a distributed, heterogeneous environment. We also have developed caching client software, implemented in Java, to achieve good response time and portability across different computer platforms. The performance results presented show that the Virtual Microscope systems scales well, so that many clients can be adequately serviced by an appropriately configured data server.},
	keywords = {biomedical optical imaging, client software, client/server architecture, Computer architecture, Computer Graphics, computer platforms, Computer simulation, Concurrent computing, configured data server, data server software, database management systems, database software, Database systems, digital slide images, digital telepathology, diseases, emulation, Environment, Equipment Design, Equipment Failure Analysis, high power light microscope, Image databases, Image Enhancement, Image Interpretation, Computer-Assisted, Image retrieval, Information retrieval, Information Storage and Retrieval, java, local disks, microscope image data, Microscopy, multiple clients, optical microscopy, PACS, software, Software design, software system, Software systems, Systems Integration, Telepathology, User-Computer Interface, virtual microscope design, Virtual reality, Workstations},
	isbn = {1089-7771},
	doi = {10.1109/TITB.2004.823952},
	author = {Catalyurek,U. and Beynon,M. D and Chang,Chialin and Kurc, T. and Sussman, Alan and Saltz, J.}
}
@article {17104,
	title = {Dynamic queries for visual information seeking},
	journal = {IEEE Software},
	volume = {11},
	year = {1994},
	month = {1994/11//},
	pages = {70 - 77},
	abstract = {Considers how dynamic queries allow users to "fly through" databases by adjusting widgets and viewing the animated results. In studies, users reacted to this approach with an enthusiasm more commonly associated with video games. Adoption requires research into retrieval and display algorithms and user-interface design. The author discusses how experts may benefit from visual interfaces because they will be able to formulate more complex queries and interpret intricate results.<>},
	keywords = {Algorithm design and analysis, animated results, animation, Application software, Command languages, complex queries, database management systems, Databases, display algorithms, Displays, dynamic queries, Educational institutions, Games, Graphical user interfaces, human factors, Query processing, retrieval, Runtime, Technological innovation, user-interface design, visual databases, visual information seeking, visual interfaces, widgets},
	isbn = {0740-7459},
	doi = {10.1109/52.329404},
	author = {Shneiderman, Ben}
}
@article {16735,
	title = {MANDATE: managing networks using database technology},
	journal = {IEEE Journal on Selected Areas in Communications},
	volume = {11},
	year = {1993},
	month = {1993/12//},
	pages = {1360 - 1372},
	abstract = {There has been a growing demand for the development of tools to manage enterprise communication networks. A management information database is the heart of a network management system-it provides the interface between all functions of the network management system and, therefore, has to provide sophisticated functionality allied with high performance. The authors introduce the design of MANDATE (MAnaging Networks using DAtabase TEchnology), a proposed database system for effectively supporting the management of large enterprise networks. The MANDATE design makes a conscious attempt to take advantage of the special characteristics of network data and transactions, and of advances in database technology, to efficiently derive some of the required management functionality},
	keywords = {Communication networks, database management systems, enterprise communication networks, Heart, Information management, interface, internetworking, Local area networks, management functionality, management information database, managing networks using database technology, MANDATE, Manufacturing, network operating systems, open systems, Optical fiber cables, Research and development management, Technology management, telecommunication network management, Transaction databases, wide area networks},
	isbn = {0733-8716},
	doi = {10.1109/49.257929},
	author = {Haritsa,J. R and Ball,M. O and Roussopoulos, Nick and Datta,A. and Baras,J. S}
}
@article {16795,
	title = {Performance comparison of three modern DBMS architectures},
	journal = {IEEE Transactions on Software Engineering},
	volume = {19},
	year = {1993},
	month = {1993/02//},
	pages = {120 - 138},
	abstract = {The introduction of powerful workstations connected through local area networks (LANs) inspired new database management system (DBMS) architectures that offer high performance characteristics. The authors examine three such software architecture configurations: client-server (CS), the RAD-UNIFY type of DBMS (RU), and enhanced client-server (ECS). Their specific functional components and design rationales are discussed. Three simulation models are used to provide a performance comparison under different job workloads. Simulation results show that the RU almost always performs slightly better than the CS, especially under light workloads, and that ECS offers significant performance improvement over both CS and RU. Under reasonable update rates, the ECS over CS (or RU) performance ratio is almost proportional to the number of participating clients (for less than 32 clients). The authors also examine the impact of certain key parameters on the performance of the three architectures and show that ECS is more scalable that the other two},
	keywords = {client-server, Computational modeling, Computer architecture, database management systems, DBMS architectures, design rationales, functional components, Indexes, Local area networks, Military computing, Packaging, Performance analysis, performance evaluation, RAD-UNIFY type, simulation models, simulation results, Software architecture, software architecture configurations, software engineering, Throughput, Workstations},
	isbn = {0098-5589},
	doi = {10.1109/32.214830},
	author = {Delis,A. and Roussopoulos, Nick}
}
@article {16791,
	title = {An efficient pictorial database system for PSQL},
	journal = {IEEE Transactions on Software Engineering},
	volume = {14},
	year = {1988},
	month = {1988/05//},
	pages = {639 - 650},
	abstract = {Pictorial databases require efficient and direct spatial search based on the analog form of spatial objects and relationships instead of search based on some cumbersome alphanumeric encodings of the pictures. A description is given of PSQL, a query language that allows pictorial domains to be presented to the user in their analog form and allows him or her to do direct manipulation on the objects found on those domains. Direct spatial search and computation on the pictures is done using efficient data structures, R- and R+-trees (multidimensional B-trees), which are excellent devices for searching spatial objects and relationships found on pictures},
	keywords = {alphanumeric encodings, Computer science, Data structures, Database languages, database management systems, Database systems, Encoding, Image coding, Image databases, multidimensional B-trees, Object oriented databases, pictorial database system, PSQL, query language, query languages, R+-trees, Relational databases, Spatial databases, spatial objects, spatial search, User interfaces},
	isbn = {0098-5589},
	doi = {10.1109/32.6141},
	author = {Roussopoulos, Nick and Faloutsos,C. and Sellis,T.}
}
