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Cited In for PubMed (Select 21261984)


JAFFA: High sensitivity transcriptome-focused fusion gene detection.

Davidson NM, Majewski IJ, Oshlack A.

Genome Med. 2015 May 11;7(1):43. doi: 10.1186/s13073-015-0167-x. eCollection 2015.


Hypothesis: Artifacts, Including Spurious Chimeric RNAs with a Short Homologous Sequence, Caused by Consecutive Reverse Transcriptions and Endogenous Random Primers.

Peng Z, Yuan C, Zellmer L, Liu S, Xu N, Liao DJ.

J Cancer. 2015 May 1;6(6):555-67. doi: 10.7150/jca.11997. eCollection 2015. Review.


Functional characterization of BC039389-GATM and KLK4-KRSP1 chimeric read-through transcripts which are up-regulated in renal cell cancer.

Pflueger D, Mittmann C, Dehler S, Rubin MA, Moch H, Schraml P.

BMC Genomics. 2015 Mar 27;16:247. doi: 10.1186/s12864-015-1446-z.


Human serum amyloid A3 (SAA3) protein, expressed as a fusion protein with SAA2, binds the oxidized low density lipoprotein receptor.

Tomita T, Ieguchi K, Sawamura T, Maru Y.

PLoS One. 2015 Mar 4;10(3):e0118835. doi: 10.1371/journal.pone.0118835. eCollection 2015.


Discovery of CTCF-sensitive Cis-spliced fusion RNAs between adjacent genes in human prostate cells.

Qin F, Song Z, Babiceanu M, Song Y, Facemire L, Singh R, Adli M, Li H.

PLoS Genet. 2015 Feb 6;11(2):e1005001. doi: 10.1371/journal.pgen.1005001. eCollection 2015 Feb.


An Island-Based Approach for Differential Expression Analysis.

Eteleeb AM, Flight RM, Harrison BJ, Petruska JC, Rouchka EC.

ACM Conf Bioinform Comput Biol Biomed Inform (2013). 2013 Dec 31;2013:419-429.


Tandem RNA chimeras contribute to transcriptome diversity in human population and are associated with intronic genetic variants.

Greger L, Su J, Rung J, Ferreira PG; Geuvadis consortium, Lappalainen T, Dermitzakis ET, Brazma A.

PLoS One. 2014 Aug 18;9(8):e104567. doi: 10.1371/journal.pone.0104567. eCollection 2014.


A comparative study of techniques for differential expression analysis on RNA-Seq data.

Zhang ZH, Jhaveri DJ, Marshall VM, Bauer DC, Edson J, Narayanan RK, Robinson GJ, Lundberg AE, Bartlett PF, Wray NR, Zhao QY.

PLoS One. 2014 Aug 13;9(8):e103207. doi: 10.1371/journal.pone.0103207. eCollection 2014.


Is an observed non-co-linear RNA product spliced in trans, in cis or just in vitro?

Yu CY, Liu HJ, Hung LY, Kuo HC, Chuang TJ.

Nucleic Acids Res. 2014 Aug;42(14):9410-23. doi: 10.1093/nar/gku643. Epub 2014 Jul 22.


Recurrent read-through fusion transcripts in breast cancer.

Varley KE, Gertz J, Roberts BS, Davis NS, Bowling KM, Kirby MK, Nesmith AS, Oliver PG, Grizzle WE, Forero A, Buchsbaum DJ, LoBuglio AF, Myers RM.

Breast Cancer Res Treat. 2014 Jul;146(2):287-97. doi: 10.1007/s10549-014-3019-2. Epub 2014 Jun 15.


Comprehensive analysis of transcriptome variation uncovers known and novel driver events in T-cell acute lymphoblastic leukemia.

Atak ZK, Gianfelici V, Hulselmans G, De Keersmaecker K, Devasia AG, Geerdens E, Mentens N, Chiaretti S, Durinck K, Uyttebroeck A, Vandenberghe P, Wlodarska I, Cloos J, Foà R, Speleman F, Cools J, Aerts S.

PLoS Genet. 2013;9(12):e1003997. doi: 10.1371/journal.pgen.1003997. Epub 2013 Dec 19.


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

Nome T, 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.

Transl Oncol. 2013 Oct 1;6(5):546-53. eCollection 2013.


Integrative transcriptome sequencing identifies trans-splicing events with important roles in human embryonic stem cell pluripotency.

Wu CS, Yu CY, Chuang CY, Hsiao M, Kao CF, Kuo HC, Chuang TJ.

Genome Res. 2014 Jan;24(1):25-36. doi: 10.1101/gr.159483.113. Epub 2013 Oct 16.


Inferring the expression variability of human transposable element-derived exons by linear model analysis of deep RNA sequencing data.

Zhang W, Edwards A, Fan W, Fang Z, Deininger P, Zhang K.

BMC Genomics. 2013 Aug 28;14:584. doi: 10.1186/1471-2164-14-584.


State of art fusion-finder algorithms are suitable to detect transcription-induced chimeras in normal tissues?

Carrara M, Beccuti M, Cavallo F, Donatelli S, Lazzarato F, Cordero F, Calogero RA.

BMC Bioinformatics. 2013;14 Suppl 7:S2. doi: 10.1186/1471-2105-14-S7-S2. Epub 2013 Apr 22.


Intron retention and transcript chimerism conserved across mammals: Ly6g5b and Csnk2b-Ly6g5b as examples.

Hernández-Torres F, Rastrojo A, Aguado B.

BMC Genomics. 2013 Mar 22;14:199. doi: 10.1186/1471-2164-14-199.


Recurrent rearrangements in prostate cancer: causes and therapeutic potential.

White NM, Feng FY, Maher CA.

Curr Drug Targets. 2013 Apr;14(4):450-9. Review.


Long-range transcriptome sequencing reveals cancer cell growth regulatory chimeric mRNA.

Plebani R, Oliver GR, Trerotola M, Guerra E, Cantanelli P, Apicella L, Emerson A, Albiero A, Harkin PD, Kennedy RD, Alberti S.

Neoplasia. 2012 Nov;14(11):1087-96.


Recurrent R-spondin fusions in colon cancer.

Seshagiri S, Stawiski EW, Durinck S, Modrusan Z, Storm EE, Conboy CB, Chaudhuri S, Guan Y, Janakiraman V, Jaiswal BS, Guillory J, Ha C, Dijkgraaf GJ, Stinson J, Gnad F, Huntley MA, Degenhardt JD, Haverty PM, Bourgon R, Wang W, Koeppen H, Gentleman R, Starr TK, Zhang Z, Largaespada DA, Wu TD, de Sauvage FJ.

Nature. 2012 Aug 30;488(7413):660-4. doi: 10.1038/nature11282.


Application of next generation sequencing to human gene fusion detection: computational tools, features and perspectives.

Wang Q, Xia J, Jia P, Pao W, Zhao Z.

Brief Bioinform. 2013 Jul;14(4):506-19. doi: 10.1093/bib/bbs044. Epub 2012 Aug 9. Review.

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