메뉴 건너뛰기




Volumn 17, Issue 6, 2015, Pages 729-739

HaloPlex Targeted Resequencing for Mutation Detection in Clinical Formalin-Fixed, Paraffin-Embedded Tumor Samples

Author keywords

[No Author keywords available]

Indexed keywords

DNA; FORMALDEHYDE; PARAFFIN;

EID: 84943608553     PISSN: 15251578     EISSN: 19437811     Source Type: Journal    
DOI: 10.1016/j.jmoldx.2015.06.009     Document Type: Article
Times cited : (15)

References (41)
  • 1
    • 77956838065 scopus 로고    scopus 로고
    • Advances in understanding cancer genomes through second-generation sequencing
    • M. Meyerson, S. Gabriel, and G. Getz Advances in understanding cancer genomes through second-generation sequencing Nat Rev Genet 11 2010 685 696
    • (2010) Nat Rev Genet , vol.11 , pp. 685-696
    • Meyerson, M.1    Gabriel, S.2    Getz, G.3
  • 2
    • 65849458558 scopus 로고    scopus 로고
    • Genome-wide massively parallel sequencing of formaldehyde fixed-paraffin embedded (FFPE) tumor tissues for copy-number- and mutation-analysis
    • M.R. Schweiger, M. Kerick, B. Timmermann, M.W. Albrecht, T. Borodina, D. Parkhomchuk, K. Zatloukal, and H. Lehrach Genome-wide massively parallel sequencing of formaldehyde fixed-paraffin embedded (FFPE) tumor tissues for copy-number- and mutation-analysis PLoS One 4 2009 e5548
    • (2009) PLoS One , vol.4
    • Schweiger, M.R.1    Kerick, M.2    Timmermann, B.3    Albrecht, M.W.4    Borodina, T.5    Parkhomchuk, D.6    Zatloukal, K.7    Lehrach, H.8
  • 4
    • 84860570409 scopus 로고    scopus 로고
    • Next-generation sequencing: ready for the clinics?
    • A.N. Desai, and A. Jere Next-generation sequencing: ready for the clinics? Clin Genet 81 2012 503 510
    • (2012) Clin Genet , vol.81 , pp. 503-510
    • Desai, A.N.1    Jere, A.2
  • 5
    • 0026099836 scopus 로고
    • PCR amplification from paraffin-embedded tissues. Effects of fixative and fixation time
    • C.E. Greer, S.L. Peterson, N.B. Kiviat, and M.M. Manos PCR amplification from paraffin-embedded tissues. Effects of fixative and fixation time Am J Clin Pathol 95 1991 117 124
    • (1991) Am J Clin Pathol , vol.95 , pp. 117-124
    • Greer, C.E.1    Peterson, S.L.2    Kiviat, N.B.3    Manos, M.M.4
  • 6
    • 2942652786 scopus 로고    scopus 로고
    • In vitro mutation artifacts after formalin fixation and error prone translesion synthesis during PCR
    • N. Quach, M.F. Goodman, and D. Shibata In vitro mutation artifacts after formalin fixation and error prone translesion synthesis during PCR BMC Clin Pathol 4 2004 1
    • (2004) BMC Clin Pathol , vol.4 , pp. 1
    • Quach, N.1    Goodman, M.F.2    Shibata, D.3
  • 12
    • 84886052163 scopus 로고    scopus 로고
    • Molecular diagnostic profiling of lung cancer specimens with a semiconductor-based massive parallel sequencing approach: feasibility, costs, and performance compared with conventional sequencing
    • V. Endris, R. Penzel, A. Warth, A. Muckenhuber, P. Schirmacher, A. Stenzinger, and W. Weichert Molecular diagnostic profiling of lung cancer specimens with a semiconductor-based massive parallel sequencing approach: feasibility, costs, and performance compared with conventional sequencing J Mol Diagn 15 2013 765 775
    • (2013) J Mol Diagn , vol.15 , pp. 765-775
    • Endris, V.1    Penzel, R.2    Warth, A.3    Muckenhuber, A.4    Schirmacher, P.5    Stenzinger, A.6    Weichert, W.7
  • 14
    • 84890615358 scopus 로고    scopus 로고
    • Targeted-capture massively-parallel sequencing enables robust detection of clinically informative mutations from formalin-fixed tumours
    • S.Q. Wong, J. Li, R. Salemi, K.E. Sheppard, H. Do, R.W. Tothill, G.A. McArthur, and A. Dobrovic Targeted-capture massively-parallel sequencing enables robust detection of clinically informative mutations from formalin-fixed tumours Sci Rep 3 2013 3494
    • (2013) Sci Rep , vol.3 , pp. 3494
    • Wong, S.Q.1    Li, J.2    Salemi, R.3    Sheppard, K.E.4    Do, H.5    Tothill, R.W.6    McArthur, G.A.7    Dobrovic, A.8
  • 17
    • 27244436950 scopus 로고    scopus 로고
    • Multiplex amplification enabled by selective circularization of large sets of genomic DNA fragments
    • F. Dahl, M. Gullberg, J. Stenberg, U. Landegren, and M. Nilsson Multiplex amplification enabled by selective circularization of large sets of genomic DNA fragments Nucleic Acids Res 33 2005 e71
    • (2005) Nucleic Acids Res , vol.33 , pp. e71
    • Dahl, F.1    Gullberg, M.2    Stenberg, J.3    Landegren, U.4    Nilsson, M.5
  • 19
    • 80255127234 scopus 로고    scopus 로고
    • Cutadapt removes adapter sequences from high-throughput sequencing reads
    • M. Martin Cutadapt removes adapter sequences from high-throughput sequencing reads EMBnet.Journal 17 2011 10 12
    • (2011) EMBnet.Journal , vol.17 , pp. 10-12
    • Martin, M.1
  • 20
    • 0036898005 scopus 로고    scopus 로고
    • Effect of fixatives and tissue processing on the content and integrity of nucleic acids
    • M. Srinivasan, D. Sedmak, and S. Jewell Effect of fixatives and tissue processing on the content and integrity of nucleic acids Am J Pathol 161 2002 1961 1971
    • (2002) Am J Pathol , vol.161 , pp. 1961-1971
    • Srinivasan, M.1    Sedmak, D.2    Jewell, S.3
  • 21
    • 0020359420 scopus 로고
    • The role of DNA polymerase in base substitution mutagenesis on non-instructional templates
    • B. Strauss, S. Rabkin, D. Sagher, and P. Moore The role of DNA polymerase in base substitution mutagenesis on non-instructional templates Biochimie 64 1982 829 838
    • (1982) Biochimie , vol.64 , pp. 829-838
    • Strauss, B.1    Rabkin, S.2    Sagher, D.3    Moore, P.4
  • 22
    • 0036012782 scopus 로고    scopus 로고
    • The "A" rule revisited: polymerases as determinants of mutational specificity
    • B.S. Strauss The "A" rule revisited: polymerases as determinants of mutational specificity DNA Repair (Amst) 1 2002 125 135
    • (2002) DNA Repair (Amst) , vol.1 , pp. 125-135
    • Strauss, B.S.1
  • 23
    • 84866894408 scopus 로고    scopus 로고
    • Comprehensive genomic characterization of squamous cell lung cancers
    • CancerGenomeAtlasResearchNetwork Comprehensive genomic characterization of squamous cell lung cancers Nature 489 2012 519 525
    • (2012) Nature , vol.489 , pp. 519-525
    • CancerGenomeAtlasResearchNetwork1
  • 24
    • 84866410479 scopus 로고    scopus 로고
    • Mapping the hallmarks of lung adenocarcinoma with massively parallel sequencing
    • M. Imielinski, A.H. Berger, P.S. Hammerman, B. Hernandez, T.J. Pugh, E. Hodis, and et al. Mapping the hallmarks of lung adenocarcinoma with massively parallel sequencing Cell 150 2012 1107 1120
    • (2012) Cell , vol.150 , pp. 1107-1120
    • Imielinski, M.1    Berger, A.H.2    Hammerman, P.S.3    Hernandez, B.4    Pugh, T.J.5    Hodis, E.6
  • 27
    • 56649085232 scopus 로고    scopus 로고
    • KLF6 and TP53 mutations are a rare event in prostate cancer: distinguishing between Taq polymerase artifacts and true mutations
    • L. Agell, S. Hernandez, S. de Muga, J.A. Lorente, N. Juanpere, R. Esgueva, S. Serrano, A. Gelabert, and J. Lloreta KLF6 and TP53 mutations are a rare event in prostate cancer: distinguishing between Taq polymerase artifacts and true mutations Mod Pathol 21 2008 1470 1478
    • (2008) Mod Pathol , vol.21 , pp. 1470-1478
    • Agell, L.1    Hernandez, S.2    De Muga, S.3    Lorente, J.A.4    Juanpere, N.5    Esgueva, R.6    Serrano, S.7    Gelabert, A.8    Lloreta, J.9
  • 28
    • 84865783136 scopus 로고    scopus 로고
    • Tackling formalin-fixed, paraffin-embedded tumor tissue with next-generation sequencing
    • C.L. Corless, and P.T. Spellman Tackling formalin-fixed, paraffin-embedded tumor tissue with next-generation sequencing Cancer Discov 2 2012 23 24
    • (2012) Cancer Discov , vol.2 , pp. 23-24
    • Corless, C.L.1    Spellman, P.T.2
  • 29
    • 70449674353 scopus 로고    scopus 로고
    • Limited copy number-high resolution melting (LCN-HRM) enables the detection and identification by sequencing of low level mutations in cancer biopsies
    • H. Do, and A. Dobrovic Limited copy number-high resolution melting (LCN-HRM) enables the detection and identification by sequencing of low level mutations in cancer biopsies Mol Cancer 8 2009 82
    • (2009) Mol Cancer , vol.8 , pp. 82
    • Do, H.1    Dobrovic, A.2
  • 30
    • 14644418434 scopus 로고    scopus 로고
    • Low copy number DNA template can render polymerase chain reaction error prone in a sequence-dependent manner
    • M. Akbari, M.D. Hansen, J. Halgunset, F. Skorpen, and H.E. Krokan Low copy number DNA template can render polymerase chain reaction error prone in a sequence-dependent manner J Mol Diagn 7 2005 36 39
    • (2005) J Mol Diagn , vol.7 , pp. 36-39
    • Akbari, M.1    Hansen, M.D.2    Halgunset, J.3    Skorpen, F.4    Krokan, H.E.5
  • 31
    • 84883316129 scopus 로고    scopus 로고
    • Reducing sequence artifacts in amplicon-based massively parallel sequencing of formalin-fixed paraffin-embedded DNA by enzymatic depletion of uracil-containing templates
    • H. Do, S.Q. Wong, J. Li, and A. Dobrovic Reducing sequence artifacts in amplicon-based massively parallel sequencing of formalin-fixed paraffin-embedded DNA by enzymatic depletion of uracil-containing templates Clin Chem 59 2013 1376 1383
    • (2013) Clin Chem , vol.59 , pp. 1376-1383
    • Do, H.1    Wong, S.Q.2    Li, J.3    Dobrovic, A.4
  • 32
    • 84867290918 scopus 로고    scopus 로고
    • Dramatic reduction of sequence artefacts from DNA isolated from formalin-fixed cancer biopsies by treatment with uracil- DNA glycosylase
    • H. Do, and A. Dobrovic Dramatic reduction of sequence artefacts from DNA isolated from formalin-fixed cancer biopsies by treatment with uracil- DNA glycosylase Oncotarget 3 2012 546 558
    • (2012) Oncotarget , vol.3 , pp. 546-558
    • Do, H.1    Dobrovic, A.2
  • 34
    • 84865956894 scopus 로고    scopus 로고
    • Sequence error storms and the landscape of mutations in cancer
    • S. Kirsch, and C.A. Klein Sequence error storms and the landscape of mutations in cancer Proc Natl Acad Sci U S A 109 2012 14289 14290
    • (2012) Proc Natl Acad Sci U S A , vol.109 , pp. 14289-14290
    • Kirsch, S.1    Klein, C.A.2
  • 37
    • 84867121875 scopus 로고    scopus 로고
    • Intratumor heterogeneity: evolution through space and time
    • C. Swanton Intratumor heterogeneity: evolution through space and time Cancer Res 72 2012 4875 4882
    • (2012) Cancer Res , vol.72 , pp. 4875-4882
    • Swanton, C.1
  • 39
    • 84870484771 scopus 로고    scopus 로고
    • Impact of intra-individual molecular heterogeneity in personalized treatment of hepatocellular carcinoma
    • A. Villanueva, and J.M. Llovet Impact of intra-individual molecular heterogeneity in personalized treatment of hepatocellular carcinoma Hepatology 56 2012 2416 2419
    • (2012) Hepatology , vol.56 , pp. 2416-2419
    • Villanueva, A.1    Llovet, J.M.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.