دورية أكاديمية
أعرض في EDS

Common fusion transcripts identified in colorectal cancer cell lines by high-throughput RNA sequencing.

التفاصيل البيبلوغرافية
العنوان: Common fusion transcripts identified in colorectal cancer cell lines by high-throughput RNA sequencing.
المؤلفون: Nome T; Department of Cancer Prevention, Institute for Cancer Research, Norwegian Radium Hospital, Oslo University Hospital, Oslo, Norway ; Centre for Cancer Biomedicine, Faculty of Medicine, University of Oslo, Oslo, Norway., Thomassen GO, Bruun J, Ahlquist T, Bakken AC, Hoff AM, Rognum T, Nesbakken A, Lorenz S, Sun J, Barros-Silva JD, Lind GE, Myklebost O, Teixeira MR, Meza-Zepeda LA, Lothe RA, Skotheim RI
المصدر: Translational oncology [Transl Oncol] 2013 Oct 01; Vol. 6 (5), pp. 546-53. Date of Electronic Publication: 2013 Oct 01 (Print Publication: 2013).
نوع المنشور: Journal Article
اللغة: English
بيانات الدورية: Publisher: Neoplasia Press Country of Publication: United States NLM ID: 101472619 Publication Model: eCollection Cited Medium: Print ISSN: 1936-5233 (Print) Linking ISSN: 19365233 NLM ISO Abbreviation: Transl Oncol Subsets: PubMed not MEDLINE
أسماء مطبوعة: Original Publication: [Ann Arbor, MI] : Neoplasia Press
مستخلص: Colorectal cancer (CRC) is the third most common cancer disease in the Western world, and about 40% of the patients die from this disease. The cancer cells are commonly genetically unstable, but only a few low-frequency recurrent fusion genes have so far been reported for this disease. In this study, we present a thorough search for novel fusion transcripts in CRC using high-throughput RNA sequencing. From altogether 220 million paired-end sequence reads from seven CRC cell lines, we identified 3391 candidate fused transcripts. By stringent requirements, we nominated 11 candidate fusion transcripts for further experimental validation, of which 10 were positive by reverse transcription-polymerase chain reaction and Sanger sequencing. Six were intrachromosomal fusion transcripts, and interestingly, three of these, AKAP13-PDE8A, COMMD10-AP3S1, and CTB-35F21.1-PSD2, were present in, respectively, 18, 18, and 20 of 21 analyzed cell lines and in, respectively, 18, 61, and 48 (17%-58%) of 106 primary cancer tissues. These three fusion transcripts were also detected in 2 to 4 of 14 normal colonic mucosa samples (14%-28%). Whole-genome sequencing identified a specific genomic breakpoint in COMMD10-AP3S1 and further indicates that both the COMMD10-AP3S1 and AKAP13-PDE8A fusion transcripts are due to genomic duplications in specific cell lines. In conclusion, we have identified AKAP13-PDE8A, COMMD10-AP3S1, and CTB-35F21.1-PSD2 as novel intrachromosomal fusion transcripts and the most highly recurring chimeric transcripts described for CRC to date. The functional and clinical relevance of these chimeric RNA molecules remains to be elucidated.
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تواريخ الأحداث: Date Created: 20131024 Date Completed: 20131023 Latest Revision: 20220331
رمز التحديث: 20240628
مُعرف محوري في PubMed: PMC3799197
DOI: 10.1593/tlo.13457
PMID: 24151535
قاعدة البيانات: MEDLINE
الوصف
تدمد:1936-5233
DOI:10.1593/tlo.13457