北京大学医学部机构知识库
Advanced  
IR@PKUHSC  > 基础医学院  > 免疫学系  > 期刊论文
学科主题: 基础医学
题名:
Discovery of novel human transcript variants by analysis of intronic single-block EST with polyadenylation site
作者: Wang, Pingzhang1,2,3; Yu, Peng1; Gao, Peng1; Shi, Taiping1,2,3; Ma, Dalong1,2,3
刊名: BMC GENOMICS
发表日期: 2009-11-12
DOI: 10.1186/1471-2164-10-518
卷: 10, 期:0
收录类别: SCI
文章类型: Article
WOS标题词: Science & Technology
类目[WOS]: Biotechnology & Applied Microbiology ; Genetics & Heredity
研究领域[WOS]: Biotechnology & Applied Microbiology ; Genetics & Heredity
关键词[WOS]: MESSENGER-RNA POLYADENYLATION ; NECROSIS-FACTOR RECEPTORS ; ACTIVATED PROTEIN-KINASE ; GENOME BROWSER DATABASE ; NF-KAPPA-B ; ALTERNATIVE POLYADENYLATION ; HUMAN-DISEASE ; HUMAN TISSUES ; SOLUBLE FORM ; 2008 UPDATE
英文摘要:

Background: Alternative polyadenylation sites within a gene can lead to alternative transcript variants. Although bioinformatic analysis has been conducted to detect polyadenylation sites using nucleic acid sequences (EST/mRNA) in the public databases, one special type, single-block EST is much less emphasized. This bias leaves a large space to discover novel transcript variants.

Results: In the present study, we identified novel transcript variants in the human genome by detecting intronic polyadenylation sites. Poly(A/T)-tailed ESTs were obtained from single-block ESTs and clustered into 10,844 groups standing for 5,670 genes. Most sites were not found in other alternative splicing databases. To verify that these sites are from expressed transcripts, we analyzed the supporting EST number of each site, blasted representative ESTs against known mRNA sequences, traced terminal sequences from cDNA clones, and compared with the data of Affymetrix tiling array. These analyses confirmed about 84% (9,118/10,844) of the novel alternative transcripts, especially, 33% (3,575/10,844) of the transcripts from 2,704 genes were taken as high-reliability. Additionally, RT-PCR confirmed 38% (10/26) of predicted novel transcript variants.

Conclusion: Our results provide evidence for novel transcript variants with intronic poly(A) sites. The expression of these novel variants was confirmed with computational and experimental tools. Our data provide a genome-wide resource for identification of novel human transcript variants with intronic polyadenylation sites, and offer a new view into the mystery of the human transcriptome.

语种: 英语
所属项目编号: 30600549 ; 2006AA02A305 ; 2009ZX09503-004
项目资助者: National Natural Science Foundation of China ; National High Technology Research and Development Program of China ; Key National S& ; T Program--"Major New Drug Development"
WOS记录号: WOS:000272356800001
Citation statistics:
内容类型: 期刊论文
版本: 出版稿
URI标识: http://ir.bjmu.edu.cn/handle/400002259/58782
Appears in Collections:基础医学院_免疫学系_期刊论文

Files in This Item:
File Name/ File Size Content Type Version Access License
1471-2164-10-518.pdf(904KB)期刊论文出版稿限制开放 联系获取全文

作者单位: 1.Chinese Natl Human Genome Ctr, Beijing 100176, Peoples R China
2.Peking Univ, Hlth Sci Ctr, Sch Basic Med Sci, Lab Med Immunol, Beijing 100083, Peoples R China
3.Peking Univ, Ctr Human Dis Genom, Beijing 100083, Peoples R China

Recommended Citation:
Wang, Pingzhang,Yu, Peng,Gao, Peng,et al. Discovery of novel human transcript variants by analysis of intronic single-block EST with polyadenylation site[J]. BMC GENOMICS,2009,10(0).
Service
Recommend this item
Sava as my favorate item
Show this item's statistics
Export Endnote File
Google Scholar
Similar articles in Google Scholar
[Wang, Pingzhang]'s Articles
[Yu, Peng]'s Articles
[Gao, Peng]'s Articles
CSDL cross search
Similar articles in CSDL Cross Search
[Wang, Pingzhang]‘s Articles
[Yu, Peng]‘s Articles
[Gao, Peng]‘s Articles
Related Copyright Policies
Null
Social Bookmarking
Add to CiteULike Add to Connotea Add to Del.icio.us Add to Digg Add to Reddit
所有评论 (0)
暂无评论
 
评注功能仅针对注册用户开放,请您登录
您对该条目有什么异议,请填写以下表单,管理员会尽快联系您。
内 容:
Email:  *
单位:
验证码:   刷新
您在IR的使用过程中有什么好的想法或者建议可以反馈给我们。
标 题:
 *
内 容:
Email:  *
验证码:   刷新

Items in IR are protected by copyright, with all rights reserved, unless otherwise indicated.

 

 

Valid XHTML 1.0!
Copyright © 2007-2017  北京大学医学部 - Feedback
Powered by CSpace