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OncoSplicing 3.0: an updated database for identifying RBPs regulating alternative splicing events in cancers

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机构: [1]Wuhan Univ, Zhongnan Hosp, Canc Precis Diag & Treatment & Translat Med Hubei, Wuhan 430000, Peoples R China [2]Wuhan Univ, Zhongnan Hosp, Dept Biol Repositories, Wuhan 430000, Peoples R China [3]Wuhan Univ, Zhongnan Hosp, Dept Urol, Wuhan 430000, Peoples R China [4]Univ Sci & Technol China, Affiliated Hosp USTC 1, Dept Urol, Div Life Sci & Med, Hefei 230000, Peoples R China [5]Huazhong Univ Sci & Technol, Tongji Hosp, Tongji Med Coll, Dept Urol, Wuhan 430000, Peoples R China [6]Nanchang Univ, Affiliated Hosp 1, Jiangxi Med Coll, Dept Urol, Nanchang 330000, Peoples R China [7]Univ Elect Sci & Technol China, Sichuan Canc Hosp & Inst, Sch Med, Dept Radiat Oncol, Chengdu 610041, Peoples R China [8]Wuhan Univ, TaiKang Ctr Life & Med Sci, Wuhan 430000, Peoples R China
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Alternative splicing (AS) is a crucial mechanism to regulate gene expression and protein complexity. RNA-binding proteins (RBPs) play an important role in regulating abnormal alternative splicing in cancers. However, few resources are available to identify specific RBPs responsible for regulating individual AS event. We have developed the OncoSplicing database for integrative analysis of clinically relevant alternative splicing events in TCGA cancers. Here, we further updated the OncoSplicing database by performing correlation analysis between the splicing and mRNA expression data from the TCGA cancers or GTEx tissues, mapping known RNA-binding motifs and eCLIP-seq peaks to all AS events, conducting splicing analysis for RNA-seq data from RBP perturbation experiments in the ENCODE project, and integrating exon and intron sequences for each AS event. With this updated database, users can easily identify potential RBPs responsible for the queried AS event and obtain sequences to design AS-specific primers and minigene constructs for experiment validation. Overall, compared to the previous version, the substantially updated OncoSplicing database (www.oncosplicing.com) offers a more valuable resource for users to identify RBPs responsible for regulating alternative splicing events in cancers.

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大类 | 2 区 生物学
小类 | 2 区 生化与分子生物学
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Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY

影响因子: 最新[2023版] 最新五年平均 出版当年[2023版] 出版当年五年平均 出版前一年[2023版]

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第一作者机构: [1]Wuhan Univ, Zhongnan Hosp, Canc Precis Diag & Treatment & Translat Med Hubei, Wuhan 430000, Peoples R China [2]Wuhan Univ, Zhongnan Hosp, Dept Biol Repositories, Wuhan 430000, Peoples R China [3]Wuhan Univ, Zhongnan Hosp, Dept Urol, Wuhan 430000, Peoples R China [4]Univ Sci & Technol China, Affiliated Hosp USTC 1, Dept Urol, Div Life Sci & Med, Hefei 230000, Peoples R China
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通讯机构: [1]Wuhan Univ, Zhongnan Hosp, Canc Precis Diag & Treatment & Translat Med Hubei, Wuhan 430000, Peoples R China [2]Wuhan Univ, Zhongnan Hosp, Dept Biol Repositories, Wuhan 430000, Peoples R China [3]Wuhan Univ, Zhongnan Hosp, Dept Urol, Wuhan 430000, Peoples R China [8]Wuhan Univ, TaiKang Ctr Life & Med Sci, Wuhan 430000, Peoples R China
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