Catálogo de publicaciones - libros
Data Mining in Bioinformatics
Xindong Wu ; Lakhmi Jain ; Jason T.L. Wang ; Mohammed J. Zaki ; Hannu T.T. Toivonen ; Dennis Shasha (eds.)
Resumen/Descripción – provisto por la editorial
No disponible.
Palabras clave – provistas por la editorial
Database Management; Programming Techniques; Information Systems Applications (incl. Internet); Data Structures; Data Storage Representation; Bioinformatics
Disponibilidad
| Institución detectada | Año de publicación | Navegá | Descargá | Solicitá |
|---|---|---|---|---|
| No detectada | 2005 | SpringerLink |
Información
Tipo de recurso:
libros
ISBN impreso
978-1-85233-671-4
ISBN electrónico
978-1-84628-059-7
Editor responsable
Springer Nature
País de edición
Reino Unido
Fecha de publicación
2005
Información sobre derechos de publicación
© Springer-Verlag London Limited 2005
Cobertura temática
Tabla de contenidos
Declarative and Efficient Querying on Protein Secondary Structures
Jignesh M. Patel; Donald P. Huddler; Laurie Hammel
In spite of the many decades of progress in database research, surprisingly scientists in the life sciences community still struggle with inefficient and awkward tools for querying biological datasets. This work highlights a specific problem involving searching large volumes of protein datasets based on their secondary structure. In this chapter we define an intuitive query language that can be used to express queries on secondary structure and develop several algorithms for evaluating these queries. We have implemented these algorithms in Periscope, which is a native database management system that we are building for declarative querying on biological datasets. Experiments based on our implementation show that the choice of algorithms can have a significant impact on query performance. As part of the Periscope implementation, we have also developed a framework for optimizing these queries and for accurately estimating the costs of the various query evaluation plans. Our performance studies show that the proposed techniques are very efficient and can provide scientists with interactive secondary structure querying options even on large protein datasets.
Part IV - Biological Data Management | Pp. 243-273
Scalable Index Structures for Biological Data
Ambuj K. Singh
Bioinformatics holds great promise for the advancement of agriculture, public health, drug design, and the understanding of complex medical and biological systems. For this promise to come to fruition, new query algorithms, data models, and data management techniques need to be developed that can provide access to the varied kinds and large amounts of biological data. This chapter presents scalable index structures for DNA/protein sequences, protein structures, and pathways. After a brief discussion of sequences and structures, the focus shifts to pathways. Modeling of pathways along with their qualitative and quantitative characteristics is considered. Techniques that allow comparison and querying of static and dynamic aspects of pathways are presented.
Part IV - Biological Data Management | Pp. 275-296