FungiExp: a user-friendly database and analysis platform for exploring fungal gene expression and alternative splicing

• DOI: 10.1093/bioinformatics/btad042
• Publication Date: 2023-01-19T12:01:40Z
• Authors: Jinding Liu; Yaru Zhang; Yapin Shi; Yiqing Zheng; Yali Zhu; Zhuoran Guan; Danyu Shen; Daolong Dou
• Keywords: User Friendly

Abstract Summary Fungi form a large and heterogeneous group of eukaryotic organisms with diverse ecological niches. The high importance fungi contrasts our limited understanding fungal lifestyle adaptability to environment. Over the last decade, high-throughput sequencing technology produced tremendous RNA-sequencing (RNA-seq) data. However, there is no comprehensive database for mycologists conveniently explore gene expression alternative splicing. Here, we have developed FungiExp, an online including 35 821 curated RNA-seq samples derived from 220 species, together splicing profiles. It allows users query visualize in collected samples. Furthermore, FungiExp contains several analysis tools, such as differential/specific, co-expression network cross-species conservation analysis. Through these can obtain new insights by re-analyzing public data or upload personal co-analyze Availability implementation freely available at https://bioinfo.njau.edu.cn/fungiExp. Supplementary information are Bioinformatics online.