title: GraP: platform for functional genomics analysis of Gossypium raimondii.
abstract: Cotton (Gossypium spp.) is one of the most important natural fiber and oil crops worldwide. Improvement of fiber yield and quality under changing environments attract much attention from cotton researchers; however, a functional analysis platform integrating omics data is still missing. The success of cotton genome sequencing and large amount of available transcriptome data allows the opportunity to establish a comprehensive analysis platform for integrating these data and related information. A comprehensive database, Platform of Functional Genomics Analysis in Gossypium raimondii (GraP), was constructed to provide multi-dimensional analysis, integration and visualization tools. GraP includes updated functional annotation, gene family classifications, protein-protein interaction networks, co-expression networks and microRNA-target pairs. Moreover, gene set enrichment analysis and cis-element significance analysis tools are also provided for gene batch analysis of high-throughput data sets. Based on these effective services, GraP may offer further information for subsequent studies of functional genes and in-depth analysis of high-throughput data. GraP is publically accessible at http://structuralbiology.cau.edu.cn/GraP/, with all data available for downloading.
authors.affiliation: State Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing 100193, China and College of Agriculture and Biotechnology, China Agricultural University, Beijing 100193, China.
authors.forename: Liwei
authors.initials: L
authors.lastname: Zhang
authors.affiliation: State Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing 100193, China and College of Agriculture and Biotechnology, China Agricultural University, Beijing 100193, China State Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing 100193, China and College of Agriculture and Biotechnology, China Agricultural University, Beijing 100193, China.
authors.forename: Jinyan
authors.initials: J
authors.lastname: Guo
authors.affiliation: State Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing 100193, China and College of Agriculture and Biotechnology, China Agricultural University, Beijing 100193, China.
authors.forename: Qi
authors.initials: Q
authors.lastname: You
authors.affiliation: State Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing 100193, China and College of Agriculture and Biotechnology, China Agricultural University, Beijing 100193, China.
authors.forename: Xin
authors.initials: X
authors.lastname: Yi
authors.affiliation: State Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing 100193, China and College of Agriculture and Biotechnology, China Agricultural University, Beijing 100193, China.
authors.forename: Yi
authors.initials: Y
authors.lastname: Ling
authors.affiliation: State Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing 100193, China and College of Agriculture and Biotechnology, China Agricultural University, Beijing 100193, China.
authors.forename: Wenying
authors.initials: W
authors.lastname: Xu
authors.affiliation: State Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing 100193, China and College of Agriculture and Biotechnology, China Agricultural University, Beijing 100193, China jinping_hua@cau.edu.cn.
authors.forename: Jinping
authors.initials: J
authors.lastname: Hua
authors.affiliation: State Key Laboratory of Plant Physiology and Biochemistry, College of Biological Sciences, China Agricultural University, Beijing 100193, China and College of Agriculture and Biotechnology, China Agricultural University, Beijing 100193, China zhensu@cau.edu.cn.
authors.forename: Zhen
authors.initials: Z
authors.lastname: Su
mesh_terms: D030541:Databases, Genetic; D018506:Gene Expression Regulation, Plant; D017343:Genes, Plant; D003368:Gossypium / Q000235:genetics / Q000378:metabolism; D035683:MicroRNAs / Q000096:biosynthesis / Q000235:genetics; D018749:RNA, Plant / Q000096:biosynthesis / Q000235:genetics
chemical_list: D035683:MicroRNAs; D018749:RNA, Plant