RASOnD-a comprehensive resource and search tool for RAS superfamily oncogenes from various species

• Published in: BMC genomics Vol. 12; no. 1; p. 341
• Main Authors: Kulsum, Umay, Singh, Vishwadeep, Sharma, Sujata, Srinivasan, A, Singh, Tej P, Kaur, Punit
• Format: Journal Article
• Language: English
• Published: England BioMed Central Ltd 05.07.2011; BioMed Central; BMC
• Subjects: Cancer; Databases, Genetic; DNA sequencing; Genetic aspects; Genomics; Identification and classification; Internet; Methods; Nucleotide sequencing; Online databases; Proteomics; Ras genes; ras Proteins - genetics; Technology application; User-Computer Interface; India
• ISSN: 1471-2164; 1471-2164
• DOI: 10.1186/1471-2164-12-341

The Ras superfamily plays an important role in the control of cell signalling and division. Mutations in the Ras genes convert them into active oncogenes. The Ras oncogenes form a major thrust of global cancer research as they are involved in the development and progression of tumors. This has resulted in the exponential growth of data on Ras superfamily across different public databases and in literature. However, no dedicated public resource is currently available for data mining and analysis on this family. The present database was developed to facilitate straightforward accession, retrieval and analysis of information available on Ras oncogenes from one particular site. We have developed the RAS Oncogene Database (RASOnD) as a comprehensive knowledgebase that provides integrated and curated information on a single platform for oncogenes of Ras superfamily. RASOnD encompasses exhaustive genomics and proteomics data existing across diverse publicly accessible databases. This resource presently includes overall 199,046 entries from 101 different species. It provides a search tool to generate information about their nucleotide and amino acid sequences, single nucleotide polymorphisms, chromosome positions, orthologies, motifs, structures, related pathways and associated diseases. We have implemented a number of user-friendly search interfaces and sequence analysis tools. At present the user can (i) browse the data (ii) search any field through a simple or advance search interface and (iii) perform a BLAST search and subsequently CLUSTALW multiple sequence alignment by selecting sequences of Ras oncogenes. The Generic gene browser, GBrowse, JMOL for structural visualization and TREEVIEW for phylograms have been integrated for clear perception of retrieved data. External links to related databases have been included in RASOnD. This database is a resource and search tool dedicated to Ras oncogenes. It has utility to cancer biologists and cell molecular biologists as it is a ready source for research, identification and elucidation of the role of these oncogenes. The data generated can be used for understanding the relationship between the Ras oncogenes and their association with cancer. The database updated monthly is freely accessible online at http://202.141.47.181/rasond/ and http://www.aiims.edu/RAS.html.