NDLI: RNA sequencing of cancer reveals novel splicing alterations

Content Provider	PubMed Central
Author	Eswaran, Jeyanthy Horvath, Anelia Godbole, Sucheta Reddy, Sirigiri Divijendra Mudvari, Prakriti Ohshiro, Kazufumi Dinesh, Cyanam Nair, Sujit Fuqua, Suzanne A. W. Polyak, Kornelia Florea, Liliana D. Kumar, Rakesh
Copyright Year	2013
Abstract	Breast cancer transcriptome acquires a myriad of regulation changes, and splicing is critical for the cell to “tailor-make” specific functional transcripts. We systematically revealed splicing signatures of the three most common types of breast tumors using RNA sequencing: TNBC, non-TNBC and HER2-positive breast cancer. We discovered subtype specific differentially spliced genes and splice isoforms not previously recognized in human transcriptome. Further, we showed that exon skip and intron retention are predominant splice events in breast cancer. In addition, we found that differential expression of primary transcripts and promoter switching are significantly deregulated in breast cancer compared to normal breast. We validated the presence of novel hybrid isoforms of critical molecules like CDK4, LARP1, ADD3, and PHLPP2. Our study provides the first comprehensive portrait of transcriptional and splicing signatures specific to breast cancer sub-types, as well as previously unknown transcripts that prompt the need for complete annotation of tissue and disease specific transcriptome.
Related Links	http://dx.doi.org/10.1038/srep01689
Starting Page	1689
File Format	PDF
ISSN	20452322
e-ISSN	20452322
Journal	Scientific Reports
Volume Number	3
Language	English
Publisher	Nature Publishing Group
Publisher Date	2013-04-01
Access Restriction	Open
Rights Holder	Nature Publishing Group
Subject Keyword	Science and technology Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Multidisciplinary

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