메뉴 건너뛰기




Volumn 13, Issue 7, 2012, Pages 8933-8942

Exome enrichment and SOLiD sequencing of formalin fixed paraffin embedded (FFPE) prostate cancer tissue

Author keywords

Exome sequencing; Next generation sequencing; Prostate cancer; SOLiD4

Indexed keywords

ACCURACY; ARTICLE; CONTROLLED STUDY; COPY NUMBER VARIATION; EXOME; EXOME SEQUENCING; FORMALIN FIXED PARAFFIN EMBEDDED TISSUE; FRESH FROZEN TISSUE; HUMAN; HUMAN TISSUE; INTERMETHOD COMPARISON; MALE; PROSTATE CANCER; RELIABILITY; REPRODUCIBILITY; SEQUENCE ANALYSIS; SEQUENCING BY OLIGONUCLEOTIDE LIGATION AND DETECTION; SINGLE NUCLEOTIDE POLYMORPHISM; TISSUE FIXATION; CHEMISTRY; CLINICAL TRIAL; CRYOPRESERVATION; GENETICS; HIGH THROUGHPUT SEQUENCING; PATHOLOGY; PROSTATE TUMOR;

EID: 84864351002     PISSN: 16616596     EISSN: 14220067     Source Type: Journal    
DOI: 10.3390/ijms13078933     Document Type: Article
Times cited : (26)

References (21)
  • 2
    • 78650966622 scopus 로고    scopus 로고
    • Somatic mutation profiles of MSI and MSS colorectal cancer identified by whole exome next generation sequencing and bioinformatics analysis
    • Timmermann, B.; Kerick, M.; Roehr, C.; Fischer, A.; Isau, M.; Boerno, S.T.; Wunderlich, A.; Barmeyer, C.; Seemann, P.; Koenig, J, et al. Somatic mutation profiles of MSI and MSS colorectal cancer identified by whole exome next generation sequencing and bioinformatics analysis. PLoS One 2010, 5, e15661.
    • (2010) PLoS One , vol.5 , pp. 15661
    • Timmermann, B.1    Kerick, M.2    Roehr, C.3    Fischer, A.4    Isau, M.5    Boerno, S.T.6    Wunderlich, A.7    Barmeyer, C.8    Seemann, P.9    Koenig, J.10
  • 6
    • 72849144434 scopus 로고    scopus 로고
    • Sequencing technologies The next generation
    • Metzker, M.L. Sequencing technologies The next generation. Nat. Rev. Genet. 2010, 11, 31-46.
    • (2010) Nat. Rev. Genet , vol.11 , pp. 31-46
    • Metzker, M.L.1
  • 9
    • 78650791604 scopus 로고    scopus 로고
    • Analysis of next-generation genomic data in cancer: Accomplishments and challenges
    • Ding, L.; Wendl, M.C.; Koboldt, D.C.; Mardis, E.R. Analysis of next-generation genomic data in cancer: Accomplishments and challenges. Hum. Mol. Genet. 2010, 19, R188-R196.
    • (2010) Hum. Mol. Genet , vol.19
    • Ding, L.1    Wendl, M.C.2    Koboldt, D.C.3    Mardis, E.R.4
  • 10
    • 58849106752 scopus 로고    scopus 로고
    • Cryopreservation of prostate cancer tissue during routine processing of fresh unfixed prostatectomy specimen: Demonstration and validation of a new technique
    • Schafer, S.C.; Pfnur, M.; Yerly, S.; Fandel, T.M.; Jichlinski, P.; Lehr, H.A. Cryopreservation of prostate cancer tissue during routine processing of fresh unfixed prostatectomy specimen: Demonstration and validation of a new technique. Prostate 2009, 69, 191-197.
    • (2009) Prostate , vol.69 , pp. 191-197
    • Schafer, S.C.1    Pfnur, M.2    Yerly, S.3    Fandel, T.M.4    Jichlinski, P.5    Lehr, H.A.6
  • 11
    • 17944390807 scopus 로고    scopus 로고
    • Optimisation of DNA and RNA extraction from archival formalin-fixed tissue
    • Coombs, N.J.; Gough, A.C.; Primrose, J.N. Optimisation of DNA and RNA extraction from archival formalin-fixed tissue. Nucleic Acids Res. 1999, 27, e12.
    • (1999) Nucleic Acids Res , vol.27
    • Coombs, N.J.1    Gough, A.C.2    Primrose, J.N.3
  • 12
    • 38449091221 scopus 로고    scopus 로고
    • A comparative study of the quality of DNA obtained from fresh frozen and formalin-fixed decalcified paraffin-embedded bone marrow trephine biopsy specimens using two different methods
    • Talaulikar, D.; Gray, J.X.; Shadbolt, B.; McNiven, M.; Dahlstrom, J.E. A comparative study of the quality of DNA obtained from fresh frozen and formalin-fixed decalcified paraffin-embedded bone marrow trephine biopsy specimens using two different methods. J. Clin. Pathol. 2008, 61, 119-123.
    • (2008) J. Clin. Pathol , vol.61 , pp. 119-123
    • Talaulikar, D.1    Gray, J.X.2    Shadbolt, B.3    McNiven, M.4    Dahlstrom, J.E.5
  • 13
    • 79961004638 scopus 로고    scopus 로고
    • The power of NGS technologies to delineate the genome organization in cancer: From mutations to structural variations and epigenetic alterations
    • Schweiger, M.R.; Kerick, M.; Timmermann, B.; Isau, M. The power of NGS technologies to delineate the genome organization in cancer: From mutations to structural variations and epigenetic alterations. Cancer Metastasis Rev. 2011, 30, 199-210.
    • (2011) Cancer Metastasis Rev , vol.30 , pp. 199-210
    • Schweiger, M.R.1    Kerick, M.2    Timmermann, B.3    Isau, M.4
  • 14
    • 80053173227 scopus 로고    scopus 로고
    • Targeted high throughput sequencing in clinical cancer settings: Formaldehyde fixed-paraffin embedded (FFPE) tumor tissues, input amount and tumor heterogeneity
    • Kerick, M.; Isau, M.; Timmermann, B.; Sultmann, H.; Herwig, R.; Krobitsch, S.; Schaefer, G.; Verdorfer, I.; Bartsch, G.; Klocker, H, et al. Targeted high throughput sequencing in clinical cancer settings: Formaldehyde fixed-paraffin embedded (FFPE) tumor tissues, input amount and tumor heterogeneity. BMC Med. Genomics 2011, 4, 68.
    • (2011) BMC Med. Genomics , vol.4 , pp. 68
    • Kerick, M.1    Isau, M.2    Timmermann, B.3    Sultmann, H.4    Herwig, R.5    Krobitsch, S.6    Schaefer, G.7    Verdorfer, I.8    Bartsch, G.9    Klocker, H.10
  • 15
    • 77956838065 scopus 로고    scopus 로고
    • Advances in understanding cancer genomes through second-generation sequencing
    • Meyerson, M.; Gabriel, S.; Getz, G. Advances in understanding cancer genomes through second-generation sequencing. Nat. Rev. Genet. 2010, 11, 685-696.
    • (2010) Nat. Rev. Genet , vol.11 , pp. 685-696
    • Meyerson, M.1    Gabriel, S.2    Getz, G.3
  • 16
    • 65849458558 scopus 로고    scopus 로고
    • Genome-wide massively parallel sequencing of formaldehyde fixed-paraffin embedded (FFPE) tumor tissues for copy-number- and mutation-analysis
    • Schweiger, M.R.; Kerick, M.; Timmermann, B.; Albrecht, M.W.; Borodina, T.; Parkhomchuk, D.; Zatloukal, K.; Lehrach, H. Genome-wide massively parallel sequencing of formaldehyde fixed-paraffin embedded (FFPE) tumor tissues for copy-number- and mutation-analysis. PLoS One 2009, 4, e5548.
    • (2009) PLoS One , vol.4 , pp. 5548
    • 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
  • 17
    • 70450177746 scopus 로고    scopus 로고
    • BFAST: An alignment tool for large scale genome resequencing
    • Homer, N.; Merriman, B.; Nelson, S.F. BFAST: An alignment tool for large scale genome resequencing. PLoS One 2009, 4, e7767.
    • (2009) PLoS One , vol.4 , pp. 7767
    • Homer, N.1    Merriman, B.2    Nelson, S.F.3
  • 21
    • 84907807071 scopus 로고    scopus 로고
    • snpEff (accessed on 15 February 2012)
    • Cingolani, P. snpEff: Variant effect prediction. Available online: http://snpeff.sourceforge.net(accessed on 15 February 2012).
    • Variant Effect Prediction
    • Cingolani, P.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.