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Volumn 14, Issue 8, 2013, Pages

BreakTrans: Uncovering the genomic architecture of gene fusions

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BIOINFORMATICS; BREAST CANCER; CANCER CELL; COMPUTER PROGRAM; CONTROLLED STUDY; GENE DOSAGE; GENE FUSION; GENE IDENTIFICATION; GENE MAPPING; GENE REARRANGEMENT; GENE STRUCTURE; GENOME; HUMAN; HUMAN CELL; PREDICTION; VALIDATION STUDY; BOOK; BREAST TUMOR; CHROMOSOME BREAKAGE; FEMALE; GENETICS; HUMAN GENOME; MOLECULAR GENETICS; SENSITIVITY AND SPECIFICITY; TUMOR CELL LINE;

EID: 84883886534     PISSN: None     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/gb-2013-14-8-r87     Document Type: Article
Times cited : (21)

References (43)
  • 1
    • 0015694748 scopus 로고
    • Letter: A new consistent chromosomal abnormality in chronic myelogenous leukaemia identified by quinacrine fluorescence and Giemsa staining.
    • 10.1038/243290a0, 4126434
    • Rowley JD. Letter: A new consistent chromosomal abnormality in chronic myelogenous leukaemia identified by quinacrine fluorescence and Giemsa staining. Nature 1973, 243:290-293. 10.1038/243290a0, 4126434.
    • (1973) Nature , vol.243 , pp. 290-293
    • Rowley, J.D.1
  • 4
    • 33947581390 scopus 로고    scopus 로고
    • The impact of translocations and gene fusions on cancer causation.
    • 10.1038/nrc2091, 17361217
    • Mitelman F, Johansson B, Mertens F. The impact of translocations and gene fusions on cancer causation. Nat Rev Cancer 2007, 7:233-245. 10.1038/nrc2091, 17361217.
    • (2007) Nat Rev Cancer , vol.7 , pp. 233-245
    • Mitelman, F.1    Johansson, B.2    Mertens, F.3
  • 11
    • 67650064593 scopus 로고    scopus 로고
    • Combinatorial algorithms for structural variation detection in high-throughput sequenced genomes.
    • 10.1101/gr.088633.108, 2704429, 19447966
    • Hormozdiari F, Alkan C, Eichler EE, Sahinalp SC. Combinatorial algorithms for structural variation detection in high-throughput sequenced genomes. Genome Res 2009, 19:1270-1278. 10.1101/gr.088633.108, 2704429, 19447966.
    • (2009) Genome Res , vol.19 , pp. 1270-1278
    • Hormozdiari, F.1    Alkan, C.2    Eichler, E.E.3    Sahinalp, S.C.4
  • 13
    • 79954672317 scopus 로고    scopus 로고
    • Genome structural variation discovery and genotyping.
    • 10.1038/nrg2958, 21358748
    • Alkan C, Coe BP, Eichler EE. Genome structural variation discovery and genotyping. Nat Rev Genet 2011, 12:363-376. 10.1038/nrg2958, 21358748.
    • (2011) Nat Rev Genet , vol.12 , pp. 363-376
    • Alkan, C.1    Coe, B.P.2    Eichler, E.E.3
  • 16
    • 27344461063 scopus 로고    scopus 로고
    • Cooperation of H2O2-mediated ERK activation with Smad pathway in TGF-beta1 induction of p21WAF1/Cip1.
    • 10.1016/j.cellsig.2005.04.008, 15979845
    • Kim YK, Bae GU, Kang JK, Park JW, Lee EK, Lee HY, Choi WS, Lee HW, Han JW. Cooperation of H2O2-mediated ERK activation with Smad pathway in TGF-beta1 induction of p21WAF1/Cip1. Cell Signal 2006, 18:236-243. 10.1016/j.cellsig.2005.04.008, 15979845.
    • (2006) Cell Signal , vol.18 , pp. 236-243
    • Kim, Y.K.1    Bae, G.U.2    Kang, J.K.3    Park, J.W.4    Lee, E.K.5    Lee, H.Y.6    Choi, W.S.7    Lee, H.W.8    Han, J.W.9
  • 23
    • 78650909427 scopus 로고    scopus 로고
    • Limitations of next-generation genome sequence assembly.
    • 10.1038/nmeth.1527, 3115693, 21102452
    • Alkan C, Sajjadian S, Eichler EE. Limitations of next-generation genome sequence assembly. Nat Methods 2011, 8:61-65. 10.1038/nmeth.1527, 3115693, 21102452.
    • (2011) Nat Methods , vol.8 , pp. 61-65
    • Alkan, C.1    Sajjadian, S.2    Eichler, E.E.3
  • 24
    • 79957875348 scopus 로고    scopus 로고
    • Comrad: detection of expressed rearrangements by integrated analysis of RNA-Seq and low coverage genome sequence data.
    • 10.1093/bioinformatics/btr184, 21478487
    • McPherson A, Wu C, Hajirasouliha I, Hormozdiari F, Hach F, Lapuk A, Volik S, Shah S, Collins C, Sahinalp SC. Comrad: detection of expressed rearrangements by integrated analysis of RNA-Seq and low coverage genome sequence data. Bioinformatics 2011, 27:1481-1488. 10.1093/bioinformatics/btr184, 21478487.
    • (2011) Bioinformatics , vol.27 , pp. 1481-1488
    • McPherson, A.1    Wu, C.2    Hajirasouliha, I.3    Hormozdiari, F.4    Hach, F.5    Lapuk, A.6    Volik, S.7    Shah, S.8    Collins, C.9    Sahinalp, S.C.10
  • 25
    • 84868332770 scopus 로고    scopus 로고
    • NFuse: discovery of complex genomic rearrangements in cancer using high-throughput sequencing.
    • 10.1101/gr.136572.111, 3483554, 22745232
    • McPherson A, Wu C, Wyatt AW, Shah S, Collins C, Sahinalp SC. nFuse: discovery of complex genomic rearrangements in cancer using high-throughput sequencing. Genome Res 2012, 22:2250-2261. 10.1101/gr.136572.111, 3483554, 22745232.
    • (2012) Genome Res , vol.22 , pp. 2250-2261
    • McPherson, A.1    Wu, C.2    Wyatt, A.W.3    Shah, S.4    Collins, C.5    Sahinalp, S.C.6
  • 26
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform.
    • 10.1093/bioinformatics/btp324, 2705234, 19451168
    • Li H, Durbin R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 2009, 25:1754-1760. 10.1093/bioinformatics/btp324, 2705234, 19451168.
    • (2009) Bioinformatics , vol.25 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 28
    • 80051507403 scopus 로고    scopus 로고
    • TopHat-Fusion: an algorithm for discovery of novel fusion transcripts.
    • 10.1186/gb-2011-12-8-r72, 3245612, 21835007
    • Kim D, Salzberg SL. TopHat-Fusion: an algorithm for discovery of novel fusion transcripts. Genome Biol 2011, 12:R72. 10.1186/gb-2011-12-8-r72, 3245612, 21835007.
    • (2011) Genome Biol , vol.12
    • Kim, D.1    Salzberg, S.L.2
  • 31
    • 84873057343 scopus 로고    scopus 로고
    • MTBP suppresses cell migration and filopodia formation by inhibiting ACTN4.
    • 3742333, 22370640
    • Agarwal N, Adhikari AS, Iyer SV, Hekmatdoost K, Welch DR, Iwakuma T. MTBP suppresses cell migration and filopodia formation by inhibiting ACTN4. Oncogene 2012, 32:462-470. 3742333, 22370640.
    • (2012) Oncogene , vol.32 , pp. 462-470
    • Agarwal, N.1    Adhikari, A.S.2    Iyer, S.V.3    Hekmatdoost, K.4    Welch, D.R.5    Iwakuma, T.6
  • 32
    • 79952281692 scopus 로고    scopus 로고
    • P-Rex1 participates in Neuregulin-ErbB signal transduction and its expression correlates with patient outcome in breast cancer.
    • 10.1038/onc.2010.489, 21042280
    • Montero JC, Seoane S, Ocana A, Pandiella A. P-Rex1 participates in Neuregulin-ErbB signal transduction and its expression correlates with patient outcome in breast cancer. Oncogene 2011, 30:1059-1071. 10.1038/onc.2010.489, 21042280.
    • (2011) Oncogene , vol.30 , pp. 1059-1071
    • Montero, J.C.1    Seoane, S.2    Ocana, A.3    Pandiella, A.4
  • 34
    • 84877028141 scopus 로고    scopus 로고
    • Comprehensive molecular portraits of human breast tumours.
    • 10.1038/nature11412, 3465532, 23000897
    • Comprehensive molecular portraits of human breast tumours. Nature 2012, 490:61-70. 10.1038/nature11412, 3465532, 23000897.
    • (2012) Nature , vol.490 , pp. 61-70
  • 36
    • 84975742565 scopus 로고    scopus 로고
    • A map of human genome variation from population-scale sequencing.
    • 10.1038/nature09534, 3042601, 20981092
    • A map of human genome variation from population-scale sequencing. Nature 2010, 467:1061-1073. 10.1038/nature09534, 3042601, 20981092.
    • (2010) Nature , vol.467 , pp. 1061-1073
  • 41
    • 79952194317 scopus 로고    scopus 로고
    • Discovery and genotyping of genome structural polymorphism by sequencing on a population scale.
    • 10.1038/ng.768, 21317889
    • Handsaker RE, Korn JM, Nemesh J, McCarroll SA. Discovery and genotyping of genome structural polymorphism by sequencing on a population scale. Nat Genet 2011, 43:269-276. 10.1038/ng.768, 21317889.
    • (2011) Nat Genet , vol.43 , pp. 269-276
    • Handsaker, R.E.1    Korn, J.M.2    Nemesh, J.3    McCarroll, S.A.4
  • 42
    • 84887066929 scopus 로고    scopus 로고
    • BreakTrans.
    • BreakTrans. , http://bioinformatics.mdanderson.org/main/BreakTrans
  • 43
    • 84871053684 scopus 로고    scopus 로고
    • The Cancer Genome Atlas.
    • The Cancer Genome Atlas. , http://cancergenome.nih.gov/


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.