eRNA-IDO:A One-stop Platform for Identification,Interactome Discovery,and Functional Annotation of Enhancer RNAs

作     者：Yuwei Zhang Lihai Gong Ruofan Ding Wenyan Chen Hao Rong Yanguo Li Fawziya Shameem Korakkandan Arshad Ali Lei Li Qi Liao 

作者机构：School of Public HealthHealth Science CenterNingbo UniversityNingbo 315211China Biomedical Big Data Centerthe First Affiliated HospitalZhejiang University School of MedicineHangzhou 310003China Institute of Systems and Physical BiologyShenzhen Bay LaboratoryShenzhen 518107China School of Clinical MedicineHealth Science CenterNingbo UniversityNingbo 315211China Institute of Drug Discovery TechnologyNingbo UniversityNingbo 315211China 

出 版 物：《Genomics, Proteomics & Bioinformatics》 (基因组蛋白质组与生物信息学报（英文版）)

年 卷 期：2024年第22卷第4期

页      面：169-179页

核心收录：

学科分类：1002[医学-临床医学] 100214[医学-肿瘤学] 10[医学] 

基　　金：supported by the National Natural Science Foundation of China(Grant Nos.32300430,32100533,and 31970630) the Open Grant Funds from Shenzhen Bay Laboratory(Grant No.SZBL2021080601001 to Lei Li) the Zhejiang Provincial Natural Science Foundation of China(Grant No.LY21C060002) the Ningbo Major Research and Development Plan Project(Grant Nos.2023Z226 and 2023Z171),China 

主　　题：Enhancer RNA Identification Interactome Functional annotation Web server 

摘      要：Growing evidence supports the transcription of enhancer RNAs(eRNAs)and their important roles in gene ***,their interactions with other biomolecules and their corresponding functionality remain poorly *** an attempt to facilitate mechanistic research,this study presents eRNA-IDO,the first integrative computational platform for the identification,interactome discovery,and functional annotation of human ***-IDO comprises two modules:eRNA-ID and ***,eRNA-ID can identify eRNAs from de novo assembled ***-ID includes eight kinds of enhancer makers,enabling users to customize enhancer regions flexibly and *** addition,eRNA-Anno provides cell-/tissue-specific functional annotation for both new and known eRNAs by analyzing the eRNA interactome from prebuilt or user-defined networks between eRNAs and protein-coding *** prebuilt networks include the Genotype-Tissue Expression(GTEx)-based co-expression networks in normal tissues,The Cancer Genome Atlas(TCGA)-based co-expression networks in cancer tissues,and omics-based eRNA-centric regulatory ***-IDO can facilitate research on the biogenesis and functions of *** eRNA-IDO server is freely available at http://***/eRNA_IDO/.