TC3A: The Cancer 3′ UTR Atlas

被引：78

作者：

Feng, Xin ^{[1
,2
]}

Li, Lei ^{[1
,2
]}

Wagner, Eric J. ^{[3
]}

Li, Wei ^{[1
,2
]}

机构：

[1] Baylor Coll Med, Dan L Duncan Canc Ctr, Div Biostat, Houston, TX 77030 USA

[2] Baylor Coll Med, Dept Mol & Cellular Biol, Houston, TX 77030 USA

[3] Univ Texas Med Branch, Dept Biochem & Mol Biol, Galveston, TX 77550 USA

来源：

NUCLEIC ACIDS RESEARCH | 2018年 / 46卷 / D1期

基金：

美国国家卫生研究院;

关键词：

ALTERNATIVE POLYADENYLATION; CLEAVAGE; SITES;

D O I：

10.1093/nar/gkx892

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Widespread alternative polyadenylation (APA) occurs during enhanced cellular proliferation and transformation. Recently, we demonstrated that CFIm25-mediated 3' UTR shortening through APA promotes glioblastoma tumor growth in vitro and in vivo, further underscoring its significance to tumorigenesis. Here, we report The Cancer 3' UTR Atlas (TC3A), a comprehensive resource of APA usage for 10,537 tumors across 32 cancer types. These APA events represent potentially novel prognostic biomarkers and may uncover novel mechanisms for the regulation of cancer driver genes. TC3A is built on top of the now de facto standard cBioPortal. Therefore, the large community of existing cBioPortal users and clinical researchers will find TC3A familiar and immediately usable. TC3A is currently fully functional and freely available at http://tc3a.org.

引用

页码：D1027 / D1030

页数：4

共 15 条

[1] PACdb:: PolyA cleavage site and 3′-UTR database
Brockman, JM
Singh, P
Liu, DL
Quinlan, S
Salisbury, J
Graber, JH
[J]. BIOINFORMATICS, 2005, 21 (18) : 3691 - 3693
[2] The cBio Cancer Genomics Portal: An Open Platform for Exploring Multidimensional Cancer Genomics Data
Cerami, Ethan
Gao, Jianjiong
Dogrusoz, Ugur
Gross, Benjamin E.
Sumer, Selcuk Onur
Aksoy, Buelent Arman
Jacobsen, Anders
Byrne, Caitlin J.
Heuer, Michael L.
Larsson, Erik
Antipin, Yevgeniy
Reva, Boris
Goldberg, Arthur P.
Sander, Chris
Schultz, Nikolaus
[J]. CANCER DISCOVERY, 2012, 2 (05) : 401 - 404
[3] TAIL-seq: Genome-wide Determination of Poly(A) Tail Length and 3′ End Modifications
Chang, Hyeshik
Lim, Jaechul
Ha, Minju
Kim, V. Narry
[J]. MOLECULAR CELL, 2014, 53 (06) : 1044 - 1052
[4] Mechanisms and Consequences of Alternative Polyadenylation
Di Giammartino, Dafne Campigli
Nishida, Kensei
Manley, James L.
[J]. MOLECULAR CELL, 2011, 43 (06) : 853 - 866
[5] miR-132 regulates antiviral innate immunity through suppression of the p300 transcriptional co-activator
Lagos, Dimitrios
Pollara, Gabriel
Henderson, Stephen
Gratrix, Fiona
Fabani, Martin
Milne, Richard S. B.
Gotch, Frances
Boshoff, Chris
[J]. NATURE CELL BIOLOGY, 2010, 12 (05) : 513 - U232
[6] PolyA_DB 2: mRNA polyadenylation sites in vertebrate genes
Lee, Ju Youn
Yeh, Ijen
Park, Ji Yeon
Tian, Bin
[J]. NUCLEIC ACIDS RESEARCH, 2007, 35 : D165 - D168
[7] Ubiquitously transcribed genes use alternative polyadenylation to achieve tissue-specific expression
Lianoglou, Steve
Garg, Vidur
Yang, Julie L.
Leslie, Christina S.
Mayr, Christine
[J]. GENES & DEVELOPMENT, 2013, 27 (21) : 2380 - 2396
[8] CFIm25 links alternative polyadenylation to glioblastoma tumour suppression
Masamha, Chioniso P.
Xia, Zheng
Yang, Jingxuan
Albrecht, Todd R.
Li, Min
Shyu, Ann-Bin
Li, Wei
Wagner, Eric J.
[J]. NATURE, 2014, 510 (7505) : 412 - +
[9] Widespread Shortening of 3′UTRs by Alternative Cleavage and Polyadenylation Activates Oncogenes in Cancer Cells
Mayr, Christine
Bartel, David P.
[J]. CELL, 2009, 138 (04) : 673 - 684
[10] APADB: a database for alternative polyadenylation and microRNA regulation events
Mueller, Soeren
Rycak, Lukas
Afonso-Grunz, Fabian
Winter, Peter
Zawada, Adam M.
Damrath, Ewa
Scheider, Jessica
Schmaeh, Juliane
Koch, Ina
Kahl, Guenter
Rotter, Bjoern
[J]. DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION, 2014,

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