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Volumn 60, Issue 2, 2014, Pages 346-353

Sequential transcriptome analysis of human liver cancer indicates late stage acquisition of malignant traits

Author keywords

Hepatocarcinogenesis; Molecular pathogenesis; RNA sequencing

Indexed keywords

NOTCH RECEPTOR; TRANSCRIPTOME; TRANSFORMING GROWTH FACTOR BETA; WNT PROTEIN;

EID: 84892548240     PISSN: 01688278     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jhep.2013.10.014     Document Type: Article
Times cited : (76)

References (46)
  • 1
    • 20344399151 scopus 로고    scopus 로고
    • Early hepatocellular carcinoma and dysplastic nodules
    • M. Kojiro, and T. Roskams Early hepatocellular carcinoma and dysplastic nodules Semin Liver Dis 25 2005 133 142
    • (2005) Semin Liver Dis , vol.25 , pp. 133-142
    • Kojiro, M.1    Roskams, T.2
  • 2
    • 61949171989 scopus 로고    scopus 로고
    • A report of the international consensus group for hepatocellular neoplasia
    • Pathologic diagnosis of early hepatocellular carcinoma A report of the international consensus group for hepatocellular neoplasia Hepatology 49 2009 658 664
    • (2009) Hepatology , vol.49 , pp. 658-664
  • 4
    • 84858658381 scopus 로고    scopus 로고
    • EASL-EORTC clinical practice guidelines: Management of hepatocellular carcinoma
    • European Association For The Study Of The L, European Organisation For R, Treatment Of C EASL-EORTC clinical practice guidelines: management of hepatocellular carcinoma J Hepatol 56 2012 908 943
    • (2012) J Hepatol , vol.56 , pp. 908-943
  • 6
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • B. Langmead, C. Trapnell, M. Pop, and S.L. Salzberg Ultrafast and memory-efficient alignment of short DNA sequences to the human genome Genome Biol 10 2009 R25
    • (2009) Genome Biol , vol.10 , pp. 25
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 9
    • 75249095274 scopus 로고    scopus 로고
    • DEGseq: An R package for identifying differentially expressed genes from RNA-seq data
    • L. Wang, Z. Feng, X. Wang, X. Wang, and X. Zhang DEGseq: an R package for identifying differentially expressed genes from RNA-seq data Bioinformatics 26 2010 136 138
    • (2010) Bioinformatics , vol.26 , pp. 136-138
    • Wang, L.1    Feng, Z.2    Wang, X.3    Wang, X.4    Zhang, X.5
  • 10
    • 69949122158 scopus 로고    scopus 로고
    • VarScan: Variant detection in massively parallel sequencing of individual and pooled samples
    • D.C. Koboldt, K. Chen, T. Wylie, D.E. Larson, M.D. McLellan, and E.R. Mardis et al. VarScan: variant detection in massively parallel sequencing of individual and pooled samples Bioinformatics 25 2009 2283 2285
    • (2009) Bioinformatics , vol.25 , pp. 2283-2285
    • Koboldt, D.C.1    Chen, K.2    Wylie, T.3    Larson, D.E.4    McLellan, M.D.5    Mardis, E.R.6
  • 11
    • 77956534324 scopus 로고    scopus 로고
    • ANNOVAR: Functional annotation of genetic variants from high-throughput sequencing data
    • K. Wang, M. Li, and H. Hakonarson ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data Nucleic Acids Res 38 2010 e164
    • (2010) Nucleic Acids Res , vol.38 , pp. 164
    • Wang, K.1    Li, M.2    Hakonarson, H.3
  • 12
    • 83555162579 scopus 로고    scopus 로고
    • Molecular diagnosis and therapy of hepatocellular carcinoma (HCC): An emerging field for advanced technologies
    • J.U. Marquardt, P.R. Galle, and A. Teufel Molecular diagnosis and therapy of hepatocellular carcinoma (HCC): an emerging field for advanced technologies J Hepatol 56 2012 267 275
    • (2012) J Hepatol , vol.56 , pp. 267-275
    • Marquardt, J.U.1    Galle, P.R.2    Teufel, A.3
  • 13
    • 77949387128 scopus 로고    scopus 로고
    • Modulation of cellular migration and survival by c-Myc through the downregulation of urokinase (uPA) and uPA receptor
    • D. Alfano, G. Votta, A. Schulze, J. Downward, M. Caputi, and M.P. Stoppelli et al. Modulation of cellular migration and survival by c-Myc through the downregulation of urokinase (uPA) and uPA receptor Mol Cell Biol 30 2010 1838 1851
    • (2010) Mol Cell Biol , vol.30 , pp. 1838-1851
    • Alfano, D.1    Votta, G.2    Schulze, A.3    Downward, J.4    Caputi, M.5    Stoppelli, M.P.6
  • 14
    • 34248223535 scopus 로고    scopus 로고
    • A high-throughput study in melanoma identifies epithelial-mesenchymal transition as a major determinant of metastasis
    • S.R. Alonso, L. Tracey, P. Ortiz, B. Perez-Gomez, J. Palacios, and M. Pollan et al. A high-throughput study in melanoma identifies epithelial-mesenchymal transition as a major determinant of metastasis Cancer Res 67 2007 3450 3460
    • (2007) Cancer Res , vol.67 , pp. 3450-3460
    • Alonso, S.R.1    Tracey, L.2    Ortiz, P.3    Perez-Gomez, B.4    Palacios, J.5    Pollan, M.6
  • 15
    • 53049086329 scopus 로고    scopus 로고
    • Focal gains of VEGFA and molecular classification of hepatocellular carcinoma
    • D.Y. Chiang, A. Villanueva, Y. Hoshida, J. Peix, P. Newell, and B. Minguez et al. Focal gains of VEGFA and molecular classification of hepatocellular carcinoma Cancer Res 68 2008 6779 6788
    • (2008) Cancer Res , vol.68 , pp. 6779-6788
    • Chiang, D.Y.1    Villanueva, A.2    Hoshida, Y.3    Peix, J.4    Newell, P.5    Minguez, B.6
  • 16
    • 46249085489 scopus 로고    scopus 로고
    • Transforming growth factor-beta gene expression signature in mouse hepatocytes predicts clinical outcome in human cancer
    • C. Coulouarn, V.M. Factor, and S.S. Thorgeirsson Transforming growth factor-beta gene expression signature in mouse hepatocytes predicts clinical outcome in human cancer Hepatology 47 2008 2059 2067
    • (2008) Hepatology , vol.47 , pp. 2059-2067
    • Coulouarn, C.1    Factor, V.M.2    Thorgeirsson, S.S.3
  • 17
    • 70349739285 scopus 로고    scopus 로고
    • Integrative transcriptome analysis reveals common molecular subclasses of human hepatocellular carcinoma
    • Y. Hoshida, S.M. Nijman, M. Kobayashi, J.A. Chan, J.P. Brunet, and D.Y. Chiang et al. Integrative transcriptome analysis reveals common molecular subclasses of human hepatocellular carcinoma Cancer Res 69 2009 7385 7392
    • (2009) Cancer Res , vol.69 , pp. 7385-7392
    • Hoshida, Y.1    Nijman, S.M.2    Kobayashi, M.3    Chan, J.A.4    Brunet, J.P.5    Chiang, D.Y.6
  • 18
    • 33645742425 scopus 로고    scopus 로고
    • A novel prognostic subtype of human hepatocellular carcinoma derived from hepatic progenitor cells
    • J.S. Lee, J. Heo, L. Libbrecht, I.S. Chu, P. Kaposi-Novak, and D.F. Calvisi et al. A novel prognostic subtype of human hepatocellular carcinoma derived from hepatic progenitor cells NatMed 12 2006 410 416
    • (2006) NatMed , vol.12 , pp. 410-416
    • Lee, J.S.1    Heo, J.2    Libbrecht, L.3    Chu, I.S.4    Kaposi-Novak, P.5    Calvisi, D.F.6
  • 19
    • 33645894992 scopus 로고    scopus 로고
    • Della Gatta G, et al. Cross-regulation between Notch and p63 in keratinocyte commitment to differentiation
    • B.C. Nguyen, K. Lefort, A. Mandinova, D. Antonini, and V. Devgan Della Gatta G, et al. Cross-regulation between Notch and p63 in keratinocyte commitment to differentiation Genes Dev 20 2006 1028 1042
    • (2006) Genes Dev , vol.20 , pp. 1028-1042
    • Nguyen, B.C.1    Lefort, K.2    Mandinova, A.3    Antonini, D.4    Devgan, V.5
  • 20
    • 33745616804 scopus 로고    scopus 로고
    • Hepatocyte growth factor favors monocyte differentiation into regulatory interleukin (IL)-10++IL-12low/neg accessory cells with dendritic-cell features
    • S. Rutella, G. Bonanno, A. Procoli, A. Mariotti, D.G. de Ritis, and A. Curti et al. Hepatocyte growth factor favors monocyte differentiation into regulatory interleukin (IL)-10++IL-12low/neg accessory cells with dendritic-cell features Blood 108 2006 218 227
    • (2006) Blood , vol.108 , pp. 218-227
    • Rutella, S.1    Bonanno, G.2    Procoli, A.3    Mariotti, A.4    De Ritis, D.G.5    Curti, A.6
  • 22
    • 77958610661 scopus 로고    scopus 로고
    • An integrated genomic and epigenomic approach predicts therapeutic response to zebularine in human liver cancer
    • J.B. Andersen, V.M. Factor, J.U. Marquardt, C. Raggi, Y.H. Lee, and D. Seo et al. An integrated genomic and epigenomic approach predicts therapeutic response to zebularine in human liver cancer Sci Transl Med 2 2010 54ra77
    • (2010) Sci Transl Med , vol.2
    • Andersen, J.B.1    Factor, V.M.2    Marquardt, J.U.3    Raggi, C.4    Lee, Y.H.5    Seo, D.6
  • 23
    • 84861625981 scopus 로고    scopus 로고
    • Integrated analysis of somatic mutations and focal copy-number changes identifies key genes and pathways in hepatocellular carcinoma
    • C. Guichard, G. Amaddeo, S. Imbeaud, Y. Ladeiro, L. Pelletier, and I.B. Maad et al. Integrated analysis of somatic mutations and focal copy-number changes identifies key genes and pathways in hepatocellular carcinoma Nat Genet 44 2012 694 698
    • (2012) Nat Genet , vol.44 , pp. 694-698
    • Guichard, C.1    Amaddeo, G.2    Imbeaud, S.3    Ladeiro, Y.4    Pelletier, L.5    Maad, I.B.6
  • 24
    • 84862976633 scopus 로고    scopus 로고
    • Whole-genome sequencing of liver cancers identifies etiological influences on mutation patterns and recurrent mutations in chromatin regulators
    • A. Fujimoto, Y. Totoki, T. Abe, K.A. Boroevich, F. Hosoda, and H.H. Nguyen et al. Whole-genome sequencing of liver cancers identifies etiological influences on mutation patterns and recurrent mutations in chromatin regulators Nat Genet 44 2012 760 764
    • (2012) Nat Genet , vol.44 , pp. 760-764
    • Fujimoto, A.1    Totoki, Y.2    Abe, T.3    Boroevich, K.A.4    Hosoda, F.5    Nguyen, H.H.6
  • 25
    • 66149152693 scopus 로고    scopus 로고
    • Central role of c-Myc during malignant conversion in human hepatocarcinogenesis
    • P. Kaposi-Novak, L. Libbrecht, H.G. Woo, Y.H. Lee, N.C. Sears, and E.A. Conner et al. Central role of c-Myc during malignant conversion in human hepatocarcinogenesis Cancer Res 69 2009 2775 2782
    • (2009) Cancer Res , vol.69 , pp. 2775-2782
    • Kaposi-Novak, P.1    Libbrecht, L.2    Woo, H.G.3    Lee, Y.H.4    Sears, N.C.5    Conner, E.A.6
  • 26
    • 79960444450 scopus 로고    scopus 로고
    • The almighty MYC: Orchestrating the micro-RNA universe to generate aggressive liver cancer
    • S.S. Thorgeirsson The almighty MYC: orchestrating the micro-RNA universe to generate aggressive liver cancer J Hepatol 55 2011 486 487
    • (2011) J Hepatol , vol.55 , pp. 486-487
    • Thorgeirsson, S.S.1
  • 27
    • 84872157669 scopus 로고    scopus 로고
    • Sex bias occurrence of hepatocellular carcinoma in Poly7 molecular subclass is associated with EGFR
    • V.W. Keng, D. Sia, A.L. Sarver, B.R. Tschida, D. Fan, and C. Alsinet et al. Sex bias occurrence of hepatocellular carcinoma in Poly7 molecular subclass is associated with EGFR Hepatology 57 2013 120 130
    • (2013) Hepatology , vol.57 , pp. 120-130
    • Keng, V.W.1    Sia, D.2    Sarver, A.L.3    Tschida, B.R.4    Fan, D.5    Alsinet, C.6
  • 28
    • 84862909192 scopus 로고    scopus 로고
    • Foxa1 and Foxa2 are essential for sexual dimorphism in liver cancer
    • Z. Li, G. Tuteja, J. Schug, and K.H. Kaestner Foxa1 and Foxa2 are essential for sexual dimorphism in liver cancer Cell 148 2012 72 83
    • (2012) Cell , vol.148 , pp. 72-83
    • Li, Z.1    Tuteja, G.2    Schug, J.3    Kaestner, K.H.4
  • 29
    • 77953694704 scopus 로고    scopus 로고
    • Histopathological classification of hepatocellular carcinoma
    • M. Roncalli, Y.N. Park, and L. Di Tommaso Histopathological classification of hepatocellular carcinoma Dig Liver Dis 42 2010 S228 S234
    • (2010) Dig Liver Dis , vol.42
    • Roncalli, M.1    Park, Y.N.2    Di Tommaso, L.3
  • 30
    • 80051552454 scopus 로고    scopus 로고
    • Role of MMP14 gene polymorphisms in susceptibility and pathological development to hepatocellular carcinoma
    • T.Y. Chen, Y.C. Li, Y.F. Liu, C.M. Tsai, Y.H. Hsieh, and C.W. Lin et al. Role of MMP14 gene polymorphisms in susceptibility and pathological development to hepatocellular carcinoma Ann Surg Oncol 18 2011 2348 2356
    • (2011) Ann Surg Oncol , vol.18 , pp. 2348-2356
    • Chen, T.Y.1    Li, Y.C.2    Liu, Y.F.3    Tsai, C.M.4    Hsieh, Y.H.5    Lin, C.W.6
  • 31
    • 79953673876 scopus 로고    scopus 로고
    • Genetic polymorphisms in DNA double-strand break repair genes XRCC5, XRCC6 and susceptibility to hepatocellular carcinoma
    • R. Li, Y. Yang, Y. An, Y. Zhou, Y. Liu, and Q. Yu et al. Genetic polymorphisms in DNA double-strand break repair genes XRCC5, XRCC6 and susceptibility to hepatocellular carcinoma Carcinogenesis 32 2011 530 536
    • (2011) Carcinogenesis , vol.32 , pp. 530-536
    • Li, R.1    Yang, Y.2    An, Y.3    Zhou, Y.4    Liu, Y.5    Yu, Q.6
  • 32
    • 33750613935 scopus 로고    scopus 로고
    • Transcriptomic and genomic analysis of human hepatocellular carcinomas and hepatoblastomas
    • J.H. Luo, B. Ren, S. Keryanov, G.C. Tseng, U.N. Rao, and S.P. Monga et al. Transcriptomic and genomic analysis of human hepatocellular carcinomas and hepatoblastomas Hepatology 44 2006 1012 1024
    • (2006) Hepatology , vol.44 , pp. 1012-1024
    • Luo, J.H.1    Ren, B.2    Keryanov, S.3    Tseng, G.C.4    Rao, U.N.5    Monga, S.P.6
  • 33
    • 20044377406 scopus 로고    scopus 로고
    • Cytokine gene polymorphisms in Japanese patients with hepatitis B virus infection-association between TGF-beta1 polymorphisms and hepatocellular carcinoma
    • K. Migita, S. Miyazoe, Y. Maeda, M. Daikoku, S. Abiru, and T. Ueki et al. Cytokine gene polymorphisms in Japanese patients with hepatitis B virus infection-association between TGF-beta1 polymorphisms and hepatocellular carcinoma J Hepatol 42 2005 505 510
    • (2005) J Hepatol , vol.42 , pp. 505-510
    • Migita, K.1    Miyazoe, S.2    Maeda, Y.3    Daikoku, M.4    Abiru, S.5    Ueki, T.6
  • 34
    • 67649134946 scopus 로고    scopus 로고
    • Overexpression of Dickkopf 3 in hepatoblastomas and hepatocellular carcinomas
    • Y. Pei, J. Kano, T. Iijima, Y. Morishita, Y. Inadome, and M. Noguchi Overexpression of Dickkopf 3 in hepatoblastomas and hepatocellular carcinomas Virchows Arch 454 2009 639 646
    • (2009) Virchows Arch , vol.454 , pp. 639-646
    • Pei, Y.1    Kano, J.2    Iijima, T.3    Morishita, Y.4    Inadome, Y.5    Noguchi, M.6
  • 35
    • 39549122562 scopus 로고    scopus 로고
    • Association of gankyrin protein expression with early clinical stages and insulin-like growth factor-binding protein 5 expression in human hepatocellular carcinoma
    • A. Umemura, Y. Itoh, K. Itoh, K. Yamaguchi, T. Nakajima, and H. Higashitsuji et al. Association of gankyrin protein expression with early clinical stages and insulin-like growth factor-binding protein 5 expression in human hepatocellular carcinoma Hepatology 47 2008 493 502
    • (2008) Hepatology , vol.47 , pp. 493-502
    • Umemura, A.1    Itoh, Y.2    Itoh, K.3    Yamaguchi, K.4    Nakajima, T.5    Higashitsuji, H.6
  • 37
    • 65649096940 scopus 로고    scopus 로고
    • Mutational analysis of JAK1 gene in human hepatocellular carcinoma
    • H.J. Xie, H.J. Bae, J.H. Noh, J.W. Eun, J.K. Kim, and K.H. Jung et al. Mutational analysis of JAK1 gene in human hepatocellular carcinoma Neoplasma 56 2009 136 140
    • (2009) Neoplasma , vol.56 , pp. 136-140
    • Xie, H.J.1    Bae, H.J.2    Noh, J.H.3    Eun, J.W.4    Kim, J.K.5    Jung, K.H.6
  • 38
    • 65949098918 scopus 로고    scopus 로고
    • Identification of potential driver genes in human liver carcinoma by genomewide screening
    • H.G. Woo, E.S. Park, J.S. Lee, Y.H. Lee, T. Ishikawa, and Y.J. Kim et al. Identification of potential driver genes in human liver carcinoma by genomewide screening Cancer Res 69 2009 4059 4066
    • (2009) Cancer Res , vol.69 , pp. 4059-4066
    • Woo, H.G.1    Park, E.S.2    Lee, J.S.3    Lee, Y.H.4    Ishikawa, T.5    Kim, Y.J.6
  • 39
    • 84873531277 scopus 로고    scopus 로고
    • Recoding RNA editing of AZIN1 predisposes to hepatocellular carcinoma
    • L. Chen, Y. Li, C.H. Lin, T.H. Chan, R.K. Chow, and Y. Song et al. Recoding RNA editing of AZIN1 predisposes to hepatocellular carcinoma Nat Med 19 2013 209 216
    • (2013) Nat Med , vol.19 , pp. 209-216
    • Chen, L.1    Li, Y.2    Lin, C.H.3    Chan, T.H.4    Chow, R.K.5    Song, Y.6
  • 40
    • 84881436148 scopus 로고    scopus 로고
    • High frequency of telomerase reverse-transcriptase promoter somatic mutations in hepatocellular carcinoma and preneoplastic lesions
    • J.C. Nault, M. Mallet, C. Pilati, J. Calderaro, P. Bioulac-Sage, and C. Laurent et al. High frequency of telomerase reverse-transcriptase promoter somatic mutations in hepatocellular carcinoma and preneoplastic lesions Nat Commun 4 2013
    • (2013) Nat Commun , vol.4
    • Nault, J.C.1    Mallet, M.2    Pilati, C.3    Calderaro, J.4    Bioulac-Sage, P.5    Laurent, C.6
  • 41
    • 84868201629 scopus 로고    scopus 로고
    • Methylome analysis and integrative profiling of human HCCs identify novel protumorigenic factors
    • O. Neumann, M. Kesselmeier, R. Geffers, R. Pellegrino, B. Radlwimmer, and K. Hoffmann et al. Methylome analysis and integrative profiling of human HCCs identify novel protumorigenic factors Hepatology 56 2012 1817 1827
    • (2012) Hepatology , vol.56 , pp. 1817-1827
    • Neumann, O.1    Kesselmeier, M.2    Geffers, R.3    Pellegrino, R.4    Radlwimmer, B.5    Hoffmann, K.6
  • 42
    • 80052412407 scopus 로고    scopus 로고
    • Role of the RNA-binding protein IMP-2 in muscle cell motility
    • S. Boudoukha, S. Cuvellier, and A. Polesskaya Role of the RNA-binding protein IMP-2 in muscle cell motility Mol Cell Biol 30 2010 5710 5725
    • (2010) Mol Cell Biol , vol.30 , pp. 5710-5725
    • Boudoukha, S.1    Cuvellier, S.2    Polesskaya, A.3
  • 43
    • 4744366693 scopus 로고    scopus 로고
    • Gene discovery by microarray: Identification of novel genes induced during growth factor-mediated muscle cell survival and differentiation
    • D. Kuninger, R. Kuzmickas, B. Peng, J.E. Pintar, and P. Rotwein Gene discovery by microarray: identification of novel genes induced during growth factor-mediated muscle cell survival and differentiation Genomics 84 2004 876 889
    • (2004) Genomics , vol.84 , pp. 876-889
    • Kuninger, D.1    Kuzmickas, R.2    Peng, B.3    Pintar, J.E.4    Rotwein, P.5
  • 44
    • 34247549347 scopus 로고    scopus 로고
    • Genome-wide molecular profiles of HCV-induced dysplasia and hepatocellular carcinoma
    • E. Wurmbach, Y.B. Chen, G. Khitrov, W. Zhang, S. Roayaie, and M. Schwartz et al. Genome-wide molecular profiles of HCV-induced dysplasia and hepatocellular carcinoma Hepatology 45 2007 938 947
    • (2007) Hepatology , vol.45 , pp. 938-947
    • Wurmbach, E.1    Chen, Y.B.2    Khitrov, G.3    Zhang, W.4    Roayaie, S.5    Schwartz, M.6
  • 45
    • 78650361904 scopus 로고    scopus 로고
    • A unique metastasis gene signature enables prediction of tumor relapse in early-stage hepatocellular carcinoma patients
    • S. Roessler, H.L. Jia, A. Budhu, M. Forgues, Q.H. Ye, and J.S. Lee et al. A unique metastasis gene signature enables prediction of tumor relapse in early-stage hepatocellular carcinoma patients Cancer Res 70 2010 10202 10212
    • (2010) Cancer Res , vol.70 , pp. 10202-10212
    • Roessler, S.1    Jia, H.L.2    Budhu, A.3    Forgues, M.4    Ye, Q.H.5    Lee, J.S.6
  • 46
    • 64549087538 scopus 로고    scopus 로고
    • Genes involved in viral carcinogenesis and tumor initiation in hepatitis C virus-induced hepatocellular carcinoma
    • V.R. Mas, D.G. Maluf, K.J. Archer, K. Yanek, X. Kong, and L. Kulik et al. Genes involved in viral carcinogenesis and tumor initiation in hepatitis C virus-induced hepatocellular carcinoma Mol Med 15 2009 85 94
    • (2009) Mol Med , vol.15 , pp. 85-94
    • Mas, V.R.1    Maluf, D.G.2    Archer, K.J.3    Yanek, K.4    Kong, X.5    Kulik, L.6


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