| Title | Information Commons for Rice (IC4R) |
| Authors | Zhang, Zhang Hu, Songnian He, Hang Zhang, Huiyong Chen, Fei Zhao, Wenming Xiao, Jingfa Chen, Ling-Ling Xue, Yu Wang, Xiangfeng Xia, Lin Wang, Xin Luo, Yingfeng He, Zilong Wu, Shuangyang Hao, Lili Zou, Dong Yang, Li Huang, Dawei Xu, Xingjian Yan, Wei Li, Qian Zhong, Jun Zou, Dong Xu, Xingjian Yuan, Fangfang Zhang, Ye Sang, Jian Ma, Lina Liu, Siqi Zou, Dong Cheng, Han Wang, Yongbo Deng, Wankun Ji, Zhaohua |
| Affiliation | Chinese Acad Sci, Beijing Inst Genom, CAS Key Lab Genome Sci & Informat, Beijing 100101, Peoples R China. Peking Univ, Sch Life Sci, Beijing 100871, Peoples R China. Henan Agr Univ, Coll Life Sci, Zhengzhou 450002, Henan, Peoples R China. Chinese Acad Sci, Beijing Inst Genom, Core Genom Facil, Beijing 100101, Peoples R China. Huazhong Agr Univ, Coll Informat, Wuhan 430070, Hubei, Peoples R China. Huazhong Univ Sci & Technol, Coll Life Sci & Technol, Dept Biomed Engn, Wuhan 430074, Hubei, Peoples R China. China Agr Univ, Coll Agr & Biotechnol, Beijing 100193, Peoples R China. Univ Chinese Acad Sci, Beijing 100049, Peoples R China. Inner Mongolia Normal Univ, Coll Comp & Informat Engn, Hohhot 010010, Inner Mongolia, Peoples R China. Inner Mongolia Normal Univ, Coll Network Technol, Hohhot 010010, Inner Mongolia, Peoples R China. 4700 King Abdullah Univ Sci & Technol, Thuwal 239556900, Saudi Arabia. Uni Pittsburgh, Dept Comp Sci, Pittsburgh, PA 15260 USA. Chinese Acad Sci, Beijing Inst Genom, CAS Key Lab Genome Sci & Informat, Beijing 100101, Peoples R China. He, H (reprint author), Peking Univ, Sch Life Sci, Beijing 100871, Peoples R China. Zhang, HY (reprint author), Henan Agr Univ, Coll Life Sci, Zhengzhou 450002, Henan, Peoples R China. |
| Keywords | GENE-EXPRESSION COMMUNITY CURATION DATABASE GENOMICS ALIGNMENT QUANTIFICATION DUPLICATION REVEALS HYBRIDS |
| Issue Date | 2016 |
| Publisher | NUCLEIC ACIDS RESEARCH |
| Citation | NUCLEIC ACIDS RESEARCH.2016,44,(D1),D1172-D1180. |
| Abstract | Rice is the most important staple food for a large part of the world's human population and also a key model organism for plant research. Here, we present Information Commons for Rice (IC4R; http://ic4r.org), a rice knowledgebase featuring adoption of an extensible and sustainable architecture that integrates multiple omics data through community-contributed modules. Each module is developed and maintained by different committed groups, deals with data collection, processing and visualization, and delivers data on-demand via web services. In the current version, IC4R incorporates a variety of rice data through multiple committed modules, including genome-wide expression profiles derived entirely from RNA-Seq data, resequencing-based genomic variations obtained from re-sequencing data of thousands of rice varieties, plant homologous genes covering multiple diverse plant species, post-translational modifications, rice-related literatures and gene annotations contributed by the rice research community. Unlike extant related databases, IC4R is designed for scalability and sustainability and thus also features collaborative integration of rice data and low costs for database update andmaintenance. Future directions of IC4R include incorporation of other omics data and association of multiple omics data with agronomically important traits, dedicating to build IC4R into a valuable knowledgebase for both basic and translational researches in rice. |
| URI | http://hdl.handle.net/20.500.11897/438830 |
| ISSN | 0305-1048 |
| DOI | 10.1093/nar/gkv1141 |
| Indexed | SCI(E) |
| Appears in Collections: | 生命科学学院 |
