Bioinformatics for rice resources.
The distinguishing feature of the 'new biology' is that it is information intensive. Not only does it demand access to and assimilation of vast data sets accumulated by engineered laboratory processes, but it also demands a previously unimaginable level of data integration across data types and sources. There are various information resources available for rice. In addition, there are various information resources that are not focused on rice but that contain rice data. The challenge for rice researchers and breeders is to access this wealth of data meaningfully. This challenge will grow significantly as international efforts aimed at sequencing the entire rice genome come into full swing. Only through concerted efforts in bioinformatics will the power of these public data be brought to bear on the needs of rice researchers and breeders worldwide. These efforts will need to focus on two large but distinct areas: (1) development of an effective bioinformatics infrastructure (hardware systems, software systems, and software engineers and support staff) and (2) computational biology research in visualization and analysis of very large, complex data sets, such as those that will be developed using high-throughput expression technologies, large-scale insertional mutagenesis, and biochemical profiling of various types. In the midst of the large flow of high-throughput data that the international rice genome sequencing efforts will produce, it is also imperative that integration of those data with unique germplasm data held in trust by the CGIAR be a part of the informatics infrastructure. This paper will focus on the state of rice information resources, the needs of the rice community, and some proposed bioinformatics activities to support these needs.
Sobral
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BW
Virginia Bioinformatics Institute, Virginia Tech (0477), 1750 Kraft Drive, Suite 1400, Blacksburg, VA 24061, USA.
Mangalam
H
H
Siepel
A
A
Mendes
P
P
Pecherer
R
R
McLaren
G
G
D000465:Algorithms; D019295:Computational Biology / Q000458:organization & administration / Q000639:trends; D016208:Databases, Factual; D002523:Edible Grain / Q000235:genetics; D015870:Gene Expression; D018745:Genome, Plant; D020407:Internet; D008967:Molecular Biology; D012275:Oryza / Q000235:genetics* / Q000254:growth & development / Q000502:physiology; D010641:Phenotype; D018511:Systems Integration