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For: Li JW, Wan R, Yu CS, Co NN, Wong N, Chan TF. ViralFusionSeq: accurately discover viral integration events and reconstruct fusion transcripts at single-base resolution. ACTA ACUST UNITED AC 2013;29:649-51. [PMID: 23314323 PMCID: PMC3582262 DOI: 10.1093/bioinformatics/btt011] [Citation(s) in RCA: 66] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Number Cited by Other Article(s)
51
Heikenwalder M, Protzer U. LINE(1)s of evidence in HBV-driven liver cancer. Cell Host Microbe 2014;15:249-50. [PMID: 24629329 DOI: 10.1016/j.chom.2014.02.015] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
52
Katz JP, Pipas JM. SummonChimera infers integrated viral genomes with nucleotide precision from NGS data. BMC Bioinformatics 2014;15:348. [PMID: 25331652 PMCID: PMC4210586 DOI: 10.1186/s12859-014-0348-4] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/23/2014] [Accepted: 10/09/2014] [Indexed: 01/03/2023]  Open
53
Ho T, Tzanetakis IE. Development of a virus detection and discovery pipeline using next generation sequencing. Virology 2014;471-473:54-60. [PMID: 25461531 DOI: 10.1016/j.virol.2014.09.019] [Citation(s) in RCA: 105] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2014] [Revised: 08/28/2014] [Accepted: 09/22/2014] [Indexed: 12/13/2022]
54
Han L, Vickers KC, Samuels DC, Guo Y. Alternative applications for distinct RNA sequencing strategies. Brief Bioinform 2014;16:629-39. [PMID: 25246237 DOI: 10.1093/bib/bbu032] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2014] [Accepted: 08/19/2014] [Indexed: 12/30/2022]  Open
55
Lau CC, Sun T, Ching AKK, He M, Li JW, Wong AM, Co NN, Chan AWH, Li PS, Lung RWM, Tong JHM, Lai PBS, Chan HLY, To KF, Chan TF, Wong N. Viral-human chimeric transcript predisposes risk to liver cancer development and progression. Cancer Cell 2014;25:335-49. [PMID: 24582836 DOI: 10.1016/j.ccr.2014.01.030] [Citation(s) in RCA: 224] [Impact Index Per Article: 20.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/06/2013] [Revised: 12/07/2013] [Accepted: 01/31/2014] [Indexed: 02/06/2023]
56
Sensitive detection of viral transcripts in human tumor transcriptomes. PLoS Comput Biol 2013;9:e1003228. [PMID: 24098097 PMCID: PMC3789765 DOI: 10.1371/journal.pcbi.1003228] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2012] [Accepted: 06/04/2013] [Indexed: 02/07/2023]  Open
57
Samuels DC, Han L, Li J, Quanghu S, Clark TA, Shyr Y, Guo Y. Finding the lost treasures in exome sequencing data. Trends Genet 2013;29:593-9. [PMID: 23972387 DOI: 10.1016/j.tig.2013.07.006] [Citation(s) in RCA: 103] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2013] [Revised: 07/05/2013] [Accepted: 07/24/2013] [Indexed: 01/04/2023]
58
Wang Q, Jia P, Zhao Z. VirusFinder: software for efficient and accurate detection of viruses and their integration sites in host genomes through next generation sequencing data. PLoS One 2013;8:e64465. [PMID: 23717618 PMCID: PMC3663743 DOI: 10.1371/journal.pone.0064465] [Citation(s) in RCA: 105] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/12/2013] [Accepted: 04/08/2013] [Indexed: 11/23/2022]  Open
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