Databases
IRGSP (International Rice Genome Sequencing Project)-
As a member of IRGSP, we took charge of sequencing of rice chromosome 4. The overall information of PAC/BAC are listed here.
http://www.ncgr.ac.cn/12chr/index.asp
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The Oryza sativa L. indica subspecies is the most widely cultivated rice. During the last few years, we have collected over 20,000 putative full-length cDNAs and over 40,000 ESTs isolated from various cDNA libraries of two indica varieties Guangluai 4 and Minghui 63. A database of the rice indica cDNAs was therefore built to provide a comprehensive web data source for searching and retrieving the indica cDNA clones.
http://www.ncgr.ac.cn/ricd/
- Moso bamboo (Phyllostachys heterocycla var. pubescens) is one of the world’s most important bamboo species. Full-length complementary DNA (FL-cDNA) clones are important for gene functional analyses, gene annotation and determination of transcriptional start sites, so they serve as a data resource for the genomics. The Moso bamboo FL-cDNA database (MBCD) represents the third largest full length cDNA collection to date of all plant species, and provides the first insight into the gene and genome structures of this tetraploid plant.
http://www.ncgr.ac.cn/mbcd/
- We applied the RNA-seq approach to analyze the global transcriptome of rice at the best possible resolution.
http://www.ncgr.ac.cn/rrs/
- We applied the ssRNA-seq approach to analyze the global Cis-natural antisense transcripts (cis-NATs) of rice at the best possible resolution.
http://www.ncgr.ac.cn/rsp/
- We genotyped rice land races through direct resequencing their genomes by adopting the sequencing-by-synthesis technology, which represents a step forward from the widely used oligonucleotide array technology for GWAS. More than five hundred diverse rice land races representing a large collection of rice accessions were sequenced at approximately one-fold genome coverage, resulting in a dataset that captured the largest amount of common sequence variation in cultivated rice to date. Using a highly accurate imputation method, we constructed a high-density rice haplotype map, and used performed GWAS of for fourteen agronomic traits to identify a substantial number of loci potentially important for rice production and improvement. Some loci were resolved close to gene level, indicating that GWAS of rice land races could provide an effective approach for gene identification.
http://www.ncgr.ac.cn/RiceHapMap/
Rice HaplotypeMap Project(3rd generation)
Millet HaplotypeMap Project(1st generation)
