Title :
A comprehensive human chromosome 21 database
Author :
Cao Nguyen ; Thaicharoen, S. ; Lacroix, T. ; Gardiner, K. ; Cios, Krzysztof J.
Author_Institution :
Colorado Univ., Boulder, CO
Abstract :
The article presents a new, comprehensive, user-friendly chromosome 21 database driven by a built-in protein interaction prediction tool based on Markov random field (MRF) and GeneQuest, a novel easy-to-use user interface. The database contains a wide range of data including both in-house generated data (i.e., chromosome 21 orthologs) and data collected from other existing chromosome 21 databases (i.e., protein interactions, pathways, etc.). This article describes the underlying overall database design and data preparation, explains the underlying process of built-in protein-protein interaction prediction tool based on MRF including experimental results, presents details of the GeneQuest facilities, and illustrates the results and typical uses of the database
Keywords :
Markov processes; biochemistry; biology computing; cellular biophysics; molecular biophysics; prediction theory; proteins; user interfaces; GeneQuest; Markov random field; built-in protein interaction prediction tool; data preparation; database design; human chromosome 21 database; user interface; Biological cells; Data mining; Humans; Java; Mice; Organisms; Proteins; Relational databases; Sequences; Spatial databases; Chromosome Mapping; Chromosomes, Human, Pair 21; Database Management Systems; Databases, Genetic; Humans; Information Storage and Retrieval; Polymorphism, Single Nucleotide; Proteome; User-Computer Interface;
Journal_Title :
Engineering in Medicine and Biology Magazine, IEEE
DOI :
10.1109/MEMB.2007.335593