文献类型：期刊文献

英文题名：PoplarGene: poplar gene network and resource for mining functional information for genes from woody plants

作者：Liu, Qi[1] Ding, Changjun[1] Chu, Yanguang[1] Chen, Jiafei[1] Zhang, Weixi[1] Zhang, Bingyu[1] Huang, Qinjun[1] Su, Xiaohua[1,2]

第一作者：Liu, Qi

通信作者：Su, XH[1];Su, XH[2]

机构：[1]Chinese Acad Forestry, Res Inst Forestry, State Forestry Adm, State Key Lab Tree Genet & Breeding,Key Lab Tree, Beijing 100091, Peoples R China;[2]Nanjing Forestry Univ, Coinnovat Ctr Sustainable Forestry Southern China, Nanjing 210037, Jiangsu, Peoples R China

年份：2016

卷号：6

外文期刊名：SCIENTIFIC REPORTS

收录：;Scopus(收录号：2-s2.0-84982182565);WOS:【SCI-EXPANDED(收录号:WOS:000381292200001)】；

基金：This project was financially supported by the Twelfth Five National Key Technology R&D Program (2012BAD01B03).

语种：英文

摘要：Poplar is not only an important resource for the production of paper, timber and other wood-based products, but it has also emerged as an ideal model system for studying woody plants. To better understand the biological processes underlying various traits in poplar, e.g., wood development, a comprehensive functional gene interaction network is highly needed. Here, we constructed a genome-wide functional gene network for poplar (covering similar to 70% of the 41,335 poplar genes) and created the network web service PoplarGene, offering comprehensive functional interactions and extensive poplar gene functional annotations. PoplarGene incorporates two network-based gene prioritization algorithms, neighborhood-based prioritization and context-based prioritization, which can be used to perform gene prioritization in a complementary manner. Furthermore, the co-functional information in PoplarGene can be applied to other woody plant proteomes with high efficiency via orthology transfer. In addition to poplar gene sequences, the webserver also accepts Arabidopsis reference gene as input to guide the search for novel candidate functional genes in PoplarGene. We believe that PoplarGene (http://bioinformatics.caf.ac.cn/PoplarGene and http://124.127.201.25/PoplarGene) will greatly benefit the research community, facilitating studies of poplar and other woody plants.