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Items: 1 to 20 of 94

1.

Fusion transcripts and transcribed retrotransposed loci discovered through comprehensive transcriptome analysis using Paired-End diTags (PETs).

Ruan Y, Ooi HS, Choo SW, Chiu KP, Zhao XD, Srinivasan KG, Yao F, Choo CY, Liu J, Ariyaratne P, Bin WG, Kuznetsov VA, Shahab A, Sung WK, Bourque G, Palanisamy N, Wei CL.

Genome Res. 2007 Jun;17(6):828-38.

2.

Cloning of BCAS3 (17q23) and BCAS4 (20q13) genes that undergo amplification, overexpression, and fusion in breast cancer.

Bärlund M, Monni O, Weaver JD, Kauraniemi P, Sauter G, Heiskanen M, Kallioniemi OP, Kallioniemi A.

Genes Chromosomes Cancer. 2002 Dec;35(4):311-7.

PMID:
12378525
3.

Transcriptional consequences of genomic structural aberrations in breast cancer.

Inaki K, Hillmer AM, Ukil L, Yao F, Woo XY, Vardy LA, Zawack KF, Lee CW, Ariyaratne PN, Chan YS, Desai KV, Bergh J, Hall P, Putti TC, Ong WL, Shahab A, Cacheux-Rataboul V, Karuturi RK, Sung WK, Ruan X, Bourque G, Ruan Y, Liu ET.

Genome Res. 2011 May;21(5):676-87. doi: 10.1101/gr.113225.110.

4.

Gene identification signature (GIS) analysis for transcriptome characterization and genome annotation.

Ng P, Wei CL, Sung WK, Chiu KP, Lipovich L, Ang CC, Gupta S, Shahab A, Ridwan A, Wong CH, Liu ET, Ruan Y.

Nat Methods. 2005 Feb;2(2):105-11.

PMID:
15782207
5.

PET-Tool: a software suite for comprehensive processing and managing of Paired-End diTag (PET) sequence data.

Chiu KP, Wong CH, Chen Q, Ariyaratne P, Ooi HS, Wei CL, Sung WK, Ruan Y.

BMC Bioinformatics. 2006 Aug 25;7:390.

6.

Next-generation DNA sequencing of paired-end tags (PET) for transcriptome and genome analyses.

Fullwood MJ, Wei CL, Liu ET, Ruan Y.

Genome Res. 2009 Apr;19(4):521-32. doi: 10.1101/gr.074906.107. Review.

7.

The der(17)t(X;17)(p11;q25) of human alveolar soft part sarcoma fuses the TFE3 transcription factor gene to ASPL, a novel gene at 17q25.

Ladanyi M, Lui MY, Antonescu CR, Krause-Boehm A, Meindl A, Argani P, Healey JH, Ueda T, Yoshikawa H, Meloni-Ehrig A, Sorensen PH, Mertens F, Mandahl N, van den Berghe H, Sciot R, Dal Cin P, Bridge J.

Oncogene. 2001 Jan 4;20(1):48-57.

8.

Decoding the fine-scale structure of a breast cancer genome and transcriptome.

Volik S, Raphael BJ, Huang G, Stratton MR, Bignel G, Murnane J, Brebner JH, Bajsarowicz K, Paris PL, Tao Q, Kowbel D, Lapuk A, Shagin DA, Shagina IA, Gray JW, Cheng JF, de Jong PJ, Pevzner P, Collins C.

Genome Res. 2006 Mar;16(3):394-404.

9.

Identification of a novel gene by whole human genome tiling array.

Ishida H, Yagi T, Tanaka M, Tokuda Y, Kamoi K, Hongo F, Kawauchi A, Nakano M, Miki T, Tashiro K.

Gene. 2013 Mar 1;516(1):33-8. doi: 10.1016/j.gene.2012.11.076.

PMID:
23261826
10.

Characterization of 954 bovine full-CDS cDNA sequences.

Harhay GP, Sonstegard TS, Keele JW, Heaton MP, Clawson ML, Snelling WM, Wiedmann RT, Van Tassell CP, Smith TP.

BMC Genomics. 2005 Nov 23;6:166.

11.

LPP, the preferred fusion partner gene of HMGIC in lipomas, is a novel member of the LIM protein gene family.

Petit MM, Mols R, Schoenmakers EF, Mandahl N, Van de Ven WJ.

Genomics. 1996 Aug 15;36(1):118-29.

PMID:
8812423
12.

Identification and characterization of JMJD2 family genes in silico.

Katoh M, Katoh M.

Int J Oncol. 2004 Jun;24(6):1623-8.

PMID:
15138608
13.

Analysis of the prostate cancer cell line LNCaP transcriptome using a sequencing-by-synthesis approach.

Bainbridge MN, Warren RL, Hirst M, Romanuik T, Zeng T, Go A, Delaney A, Griffith M, Hickenbotham M, Magrini V, Mardis ER, Sadar MD, Siddiqui AS, Marra MA, Jones SJ.

BMC Genomics. 2006 Sep 29;7:246.

14.

Identification of novel transcribed sequences on human chromosome 22 by expressed sequence tag mapping.

Hirosawa M, Nagase T, Murahashi Y, Kikuno R, Ohara O.

DNA Res. 2001 Feb 28;8(1):1-9.

PMID:
11258795
15.

Novel transcripts discovered by mining genomic DNA from defined regions of bovine chromosome 6.

Weikard R, Goldammer T, Eberlein A, Kuehn C.

BMC Genomics. 2009 Apr 24;10:186. doi: 10.1186/1471-2164-10-186.

16.

A sequence-based survey of the complex structural organization of tumor genomes.

Raphael BJ, Volik S, Yu P, Wu C, Huang G, Linardopoulou EV, Trask BJ, Waldman F, Costello J, Pienta KJ, Mills GB, Bajsarowicz K, Kobayashi Y, Sridharan S, Paris PL, Tao Q, Aerni SJ, Brown RP, Bashir A, Gray JW, Cheng JF, de Jong P, Nefedov M, Ried T, Padilla-Nash HM, Collins CC.

Genome Biol. 2008;9(3):R59. doi: 10.1186/gb-2008-9-3-r59.

17.

Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22.

Kampa D, Cheng J, Kapranov P, Yamanaka M, Brubaker S, Cawley S, Drenkow J, Piccolboni A, Bekiranov S, Helt G, Tammana H, Gingeras TR.

Genome Res. 2004 Mar;14(3):331-42.

18.

Retrotransposition as a source of new promoters.

Okamura K, Nakai K.

Mol Biol Evol. 2008 Jun;25(6):1231-8. doi: 10.1093/molbev/msn071.

19.

Expression profiling of t(12;22) positive clear cell sarcoma of soft tissue cell lines reveals characteristic up-regulation of potential new marker genes including ERBB3.

Schaefer KL, Brachwitz K, Wai DH, Braun Y, Diallo R, Korsching E, Eisenacher M, Voss R, Van Valen F, Baer C, Selle B, Spahn L, Liao SK, Lee KA, Hogendoorn PC, Reifenberger G, Gabbert HE, Poremba C.

Cancer Res. 2004 May 15;64(10):3395-405.

20.

[DNA sequence analysis of a novel variate type of PML/RAR alpha fusion gene transcript].

Wang GP, Chen FP, Jian ZF.

Hunan Yi Ke Da Xue Xue Bao. 2001 Dec 28;26(6):581-2. Chinese. No abstract available.

PMID:
12536551

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