[BiO BB] Call for Book Chapters: Database Modeling in Biology to be Published by Springer 2006

Chen, Jake jakechen at iupui.edu
Sun May 15 02:45:09 EDT 2005

Call for Book Chapters 

[Please help distribute as widely as possible. Thank you!]



Book Title


Database Modeling in Biology: Practices and Challenges (to be published
by Springer in early 2006)



We site








Database management systems are designed to support large volumes of
data storage, data processing, data querying, and most recently, data
mining and knowledge discovery activities. Rapid increase in computing
power and advances in data management techniques in recent decades have
led many researchers to pursue knowledge discovery with databases and
database management systems as their primary computing platform. A
recent trend of general database research in this direction has been the
incorporation of domain semantics into the representation and management
of data. 


Compared with data from general application domains, modern biological
data has many unique characteristics. Biological data are often
characterized as having large volumes, complex structures, high
dimensionality, evolving biological concepts, and insufficient data
modeling practices. These characteristics require database researchers
and developers to make many special considerations while developing
biological databases and database systems. They also have made
biological data management and knowledge discovery in databases


Database modeling in the biological domain has received increasing
attention both as a research topic and as a practice in biological
computings. By carefully representing the structure, semantics, and
querying requirements of large volumes of biological data, researchers
and developers can help biologists track, query, analyze, and data-mine
data from high-throughput genomics, gene expression profiling,
proteomics, metabolomics, genotyping, text ming, and chemical screening


In this book, we invite papers that cover the fast-growing topic of
biological database modeling with an emphasis on both computational
techniques and real-world applications. The book will become a useful
guide for researchers, practitioners, and graduate-level students
interested in learning state-of-the-art development in
biological/biomedical data management, data-intensive bioinformatics
systems, and other miscellaneous biological database applications. 



Recommended Topics


Specific topics of interest of this book include, but are not limited to


A. Conceptual Models of Emerging Large-scale Biological Data


* Conceptual/semantic biological data modeling principles and common

* Current biological data modeling challenges 

* Modeling Data Uncertainty and Imprecision in Biology 

* Modeling large-scale motifs, genotypes, pathways, molecular networks,
and protein complexes. 

* Modeling data from high-throughput gene expression, proteomics, and
chemical screening pipelines 

* Evolution and integration of the biological data models 

* Biological standard data exchange formats, XML biological data models 

* Gene ontology, unified medical language systems 

* Conceptual design of biological databases using biological data models

* Software systems supporting biological data modeling 


B. Data and Query Processing Models in Biological Database Systems


* Algebraic Operations of the Biological Data 

* Biological Data Operators and web services 

* Special biological data Indexing techniques 

* Query Processing and Query Optimization Techniques for Manipulating
Biological Data 

* Integration of Biological Data and Queries 

* Interoperation Among Multiple Biological Database Queries 

* Biological workflow modeling and data processing systems 

* Dissemination of biological data and query results 


C. Model-based Biological Knowledge Discovery Systems


* System-scale biological discovery challenges and opportunities 

* Model-driven Knowledge Discovery Software Systems for Biology 

* General Data-rich Biological Information System Development 

* Integrated Systems for Comparative Genomics, Proteomics, Functional
Genomics, Pharmacogenomics, and Systomics studies. 



Target Audience


The intended target audience of this book are readers who wish to learn
about the current research topics and trends in biological database
technologies. Specifically, the book will provide a theoretical
perspective and practical solutions to graduate students , researchers
and practitioners working in the areas of advanced database systems,
biological data management, and biological information systems.




Important Dates 


June 15, 2005

            Email Letter of intent Due (to the editors).


July 31, 2005

            Deadline to submit a full book chapter paper. 


September 30, 2005

            Notification of acceptance with referee comments and
revision comments.


November 30, 2005

            Deadline to submit final version of the accepted chapters in
camera-ready Springer format





Papers should be original and should not be submitted for publication or
published elsewhere. All paper are to be submitted electronically (PDF
or MS word format preferred) to both the editors by email (listed below)


For details on how to prepare the manuscripts and style files refer to
the instruction page for authors, go to
.htm. This page also includes the latex macro packages and further






233 Spring Street, New York, NY 10013, USA 



Contact the Editors 


All contacts and paper submissions should be made to both editors by


Zongmin Ma

College of Information Science and Engineering 

Northeastern University

Shengyang, Liaoning 110004


Email: edited_book at yahoo.com


Jake Y. Chen

Indiana University School of Informatics 

Indianapolis, IN 46202 


Tel: (317)278-7604

Email: jakechen at iupui.edu

Web site: http://bio.informatics.iupui.edu/


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