摘要
LncPheDB(https://www.lncphedb.com/)is a systematic resource of genome-wide long non-coding RNAs(lncRNAs)-phenotypes associations for multiple species.It was established to display the genome-wide lncRNA annotations,target genes prediction,variant-trait associations,gene-phenotype correlations,lncRNA-phenotype correlations,and the similar non-coding regions of the queried sequence in multiple species.LncPheDB sorted out a total of 203,391 lncRNA sequences,2000 phenotypes,and 120,271 variants of nine species(Zea mays L.,Gossypium barbadense L.,Triticum aestivum L.,Lycopersicon esculentum Mille,Oryza sativa L.,Hordeum vulgare L.,Sorghum bicolor L.,Glycine max L.,and Cucumis sativus L.).By exploring the relationship between lncRNAs and the genomic position of variants in genome-wide association analysis,a total of 68,862 lncRNAs were found to be related to the diversity of agronomic traits.More importantly,to facilitate the study of the functions of lncRNAs,we analyzed the possible target genes of lncRNAs,constructed a blast tool for performing similar fragmentation studies in all species,linked the pages of phenotypic studies related to lncRNAs that possess similar fragments and constructed their regulatory networks.In addition,LncPheDB also provides a user-friendly interface,a genome visualization platform,and multi-level and multi-modal convenient data search engine.We believe that LncPheDB plays a crucial role in mining lncRNA-related plant data.
出处
《aBIOTECH》
CSCD
2022年第3期169-177,共9页
生物技术通报（英文版）
基金
supported by the National Key Research and Development Program of China(2021YFD1200101 to Z.X.M.)
the National Natural Science Foundation of China(31670211 and 31970237 to Z.X.M.)
Sanya Yazhou Bay Science and Technology City(SKJC-2020–02-001 to Z.X.M.)
the Central Public-interest Scientific Institution Basal Research Fund(S2021ZD01 to Z.X.M.).
