############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data curatedCRCData ### ############################################################################## ############################################################################## * checking for file ‘curatedCRCData/DESCRIPTION’ ... OK * preparing ‘curatedCRCData’: * checking DESCRIPTION meta-information ... OK * installing the package to process help pages * building the PDF package manual Hmm ... looks like a package Converting Rd files to LaTeX ... Creating pdf output from LaTeX ... 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DNA copy-number alterations underlie gene expression differences betwe en microsatellite stable and unstable colorectal cancers. Clin Cancer Res 2008 Dec 15[] Overfull \hbox (258.0597pt too wide) in paragraph at lines 594--594 [] \T1/zi4/m/n/10 Title: DNA copy-number alterations underlie gene expression differences between microsatellite stable and unstable colorectal cancers.[] [13] [14] Overfull \hbox (686.3385pt too wide) in paragraph at lines 677--677 [] \T1/zi4/m/n/10 Experimenter name: Watanabe T, Kobunai T, Yamamoto Y, Matsu da K et al.??Gene expression signature and response to the use of leucovorin, f luorouracil and oxaliplatin in colorectal cancer patients.??Clin Transl Oncol?? 2011 Jun[] Overfull \hbox (238.04947pt too wide) in paragraph at lines 680--680 [] \T1/zi4/m/n/10 Title: Gene expression signature and response to the use of leucovorin, fluorouracil and oxaliplatin in colorectal cancer patients.[] [15] [16] Overfull \hbox (679.66843pt too wide) in paragraph at lines 759--759 [] \T1/zi4/m/n/10 Experimenter name: Jorissen RN, Gibbs P, Christie M, Prakas h S et al.??Metastasis-Associated Gene Expression Changes Predict Poor Outcomes in Patients with Dukes Stage B and C Colorectal Cancer.??Clin Cancer Res??2009 Dec 15[] Overfull \hbox (233.04947pt too wide) in paragraph at lines 762--762 [] \T1/zi4/m/n/10 Title: Metastasis-Associated Gene Expression Changes Predic t Poor Outcomes in Patients with Dukes Stage B and C Colorectal Cancer.[] [17] [18] [19] Overfull \hbox (503.02902pt too wide) in paragraph at lines 897--897 [] \T1/zi4/m/n/10 Experimenter name: Reid JF, Gariboldi M, Sokolova V, Capobi anco P et al.??Integrative approach for prioritizing cancer genes in sporadic c olon cancer.??Genes Chromosomes Cancer??2009 Nov[] Overfull \hbox (9.73999pt too wide) in paragraph at lines 900--900 [] \T1/zi4/m/n/10 Title: Integrative approach for prioritizing cancer genes i n sporadic colon cancer.[] [20] [21] [22] Overfull \hbox (623.0188pt too wide) in paragraph at lines 1043--1043 [] \T1/zi4/m/n/10 Experimenter name: Smith JJ, Deane NG, Wu F, Merchant NB et al.??Experimentally derived metastasis gene expression profile predicts recurr ence and death in patients with colon cancer.??Gastroenterology??2010 Mar[] Overfull \hbox (211.38962pt too wide) in paragraph at lines 1046--1046 [] \T1/zi4/m/n/10 Title: Experimentally derived metastasis gene expression pr ofile predicts recurrence and death in patients with colon cancer.[] [23] [24] Underfull \vbox (badness 10000) has occurred while \output is active [25] Overfull \hbox (623.0188pt too wide) in paragraph at lines 1207--1207 [] \T1/zi4/m/n/10 Experimenter name: Smith JJ, Deane NG, Wu F, Merchant NB et al.??Experimentally derived metastasis gene expression profile predicts recurr ence and death in patients with colon cancer.??Gastroenterology??2010 Mar[] Overfull \hbox (211.38962pt too wide) in paragraph at lines 1210--1210 [] \T1/zi4/m/n/10 Title: Experimentally derived metastasis gene expression pr ofile predicts recurrence and death in patients with colon cancer.[] [26] [27] Underfull \vbox (badness 10000) has occurred while \output is active [28] Overfull \hbox (623.0188pt too wide) in paragraph at lines 1367--1367 [] \T1/zi4/m/n/10 Experimenter name: Smith JJ, Deane NG, Wu F, Merchant NB et al.??Experimentally derived metastasis gene expression profile predicts recurr ence and death in patients with colon cancer.??Gastroenterology??2010 Mar[] [29] Overfull \hbox (211.38962pt too wide) in paragraph at lines 1370--1370 [] \T1/zi4/m/n/10 Title: Experimentally derived metastasis gene expression pr ofile predicts recurrence and death in patients with colon cancer.[] [30] Underfull \vbox (badness 10000) has occurred while \output is active [31] [32] Overfull \hbox (579.66843pt too wide) in paragraph at lines 1523--1523 [] \T1/zi4/m/n/10 Experimenter name: Matsuyama T, Ishikawa T, Mogushi K, Yosh ida T et al.??MUC12 mRNA expression is an independent marker of prognosis in st age II and stage III colorectal cancer.??Int J Cancer??2010 Nov 15[] Overfull \hbox (138.04947pt too wide) in paragraph at lines 1526--1526 [] \T1/zi4/m/n/10 Title: MUC12 mRNA expression is an independent marker of pr ognosis in stage II and stage III colorectal cancer.[] [33] [34] Overfull \hbox (101.41006pt too wide) in paragraph at lines 1629--1629 [] \T1/zi4/m/n/10 Experimenter name: EXpression Project for Oncology, Interna tional Genomics Consortium, www.intgen.org[] [35] Underfull \vbox (badness 10000) has occurred while \output is active [36] Overfull \hbox (8.67705pt too wide) in paragraph at lines 1746--1747 []\T1/ptm/m/n/10 This study aimed to iden-tify a novel biomarker or a tar-get o f treat-ment for col-orec-tal can-cer (CRC).The Overfull \hbox (463.02902pt too wide) in paragraph at lines 1759--1759 [] \T1/zi4/m/n/10 Experimenter name: Tsukamoto S, Ishikawa T, Iida S, Ishigur o M et al.??Clinical significance of osteoprotegerin expression in human colore ctal cancer.??Clin Cancer Res2011 Apr 15[] Overfull \hbox (26.41006pt too wide) in paragraph at lines 1762--1762 [] \T1/zi4/m/n/10 Title: Clinical significance of osteoprotegerin expression in human colorectal cancer.[] [37] [38] Overfull \hbox (721.3385pt too wide) in paragraph at lines 1861--1861 [] \T1/zi4/m/n/10 Experimenter name: Kogo R, Shimamura T, Mimori K, Kawahara K et al.??Long noncoding RNA HOTAIR regulates polycomb-dependent chromatin modi fication and is associated with poor prognosis in colorectal cancers.??Cancer R es??2011 Oct 15[] Overfull \hbox (308.04947pt too wide) in paragraph at lines 1864--1864 [] \T1/zi4/m/n/10 Title: Long noncoding RNA HOTAIR regulates polycomb-depende nt chromatin modification and is associated with poor prognosis in colorectal c ancers.[] [39] [40] [41] Overfull \hbox (859.66843pt too wide) in paragraph at lines 1988--1988 [] \T1/zi4/m/n/10 Experimenter name: Sveen A,????esen TH,??Rognum TO,??Lothe RA,??Skotheim RI. Transcriptome instability in colorectal cancer identified by exon microarray analyses: Associations with splicing factor expression levels a nd patient survival. Genome Med 2011 May 27[] Overfull \hbox (414.70932pt too wide) in paragraph at lines 1991--1991 [] \T1/zi4/m/n/10 Title: Transcriptome instability in colorectal cancer ident ified by exon microarray analyses: Associations with splicing factor expression levels and patient survival.[] [42] [43] [44] Overfull \hbox (822.99835pt too wide) in paragraph at lines 2111--2111 [] \T1/zi4/m/n/10 Experimenter name: Sveen A, Agesen TH, Nesbakken A, Rognum TO et al.??Transcriptome instability in colorectal cancer identified by exon mi croarray analyses: Associations with splicing factor expression levels and pati ent survival.Genome Med??2011 May 27[] Overfull \hbox (414.70932pt too wide) in paragraph at lines 2114--2114 [] \T1/zi4/m/n/10 Title: Transcriptome instability in colorectal cancer ident ified by exon microarray analyses: Associations with splicing factor expression levels and patient survival.[] [45] Underfull \vbox (badness 10000) has occurred while \output is active [46] Overfull \hbox (709.66843pt too wide) in paragraph at lines 2234--2234 [] \T1/zi4/m/n/10 Experimenter name: Bandr??E,??Malumbres R,??Cubedo E,??Sola J,??Garc??Foncillas J,??Labarga A. A gene signature of 8 genes could identify the risk of recurrence and progression in Dukes\TS1/zi4/m/n/10 ' \T1/zi4/m/n/10 B colon cancer patients. Oncol Rep 2007 May[] Overfull \hbox (54.75021pt too wide) in paragraph at lines 2235--2235 [] \T1/zi4/m/n/10 Laboratory: Bandr??E,??Malumbres R,??Cubedo E,??Sola J,??Ga rc??Foncillas J,??Labarga A 2005[] Overfull \hbox (193.03925pt too wide) in paragraph at lines 2237--2237 [] \T1/zi4/m/n/10 Title: A gene signature of 8 genes could identify the risk of recurrence and progression in Dukes\TS1/zi4/m/n/10 ' \T1/zi4/m/n/10 B colon cancer patients.[] [47] [48] [49] Overfull \hbox (1029.66843pt too wide) in paragraph at lines 2376--2376 [] \T1/zi4/m/n/10 Experimenter name: Vilar E,??Gruber SB,??Rennert G,??Bartni k CM,??Stenzel SL,??Iniesta MD,??Raskin L,Mukherjee B,??Ahn J,??Moreno V,??Morg an MA. MRE11 deficiency increases sensitivity to poly(ADP-ribose) polymerase in hibition in microsatellite unstable colorectal cancers. Cancer Res 2011 Apr 1[] Overfull \hbox (259.72977pt too wide) in paragraph at lines 2379--2379 [] \T1/zi4/m/n/10 Title: MRE11 deficiency increases sensitivity to poly(ADP-r ibose) polymerase inhibition in microsatellite unstable colorectal cancers.[] [50] [51] Overfull \hbox (1029.66843pt too wide) in paragraph at lines 2470--2470 [] \T1/zi4/m/n/10 Experimenter name: Vilar E,??Gruber SB,??Rennert G,??Bartni k CM,??Stenzel SL,??Iniesta MD,??Raskin L,Mukherjee B,??Ahn J,??Moreno V,??Morg an MA. MRE11 deficiency increases sensitivity to poly(ADP-ribose) polymerase in hibition in microsatellite unstable colorectal cancers. Cancer Res 2011 Apr 1[] Overfull \hbox (259.72977pt too wide) in paragraph at lines 2473--2473 [] \T1/zi4/m/n/10 Title: MRE11 deficiency increases sensitivity to poly(ADP-r ibose) polymerase inhibition in microsatellite unstable colorectal cancers.[] [52] [53] Overfull \hbox (411.35895pt too wide) in paragraph at lines 2564--2564 [] \T1/zi4/m/n/10 Experimenter name: Birnbaum DJ, Laibe S, Ferrari A, Lagarde A et al.??Expression Profiles in Stage II Colon Cancer According to APC Gene S tatus.??Transl Oncol??2012 Apr[] [54] [55] [56] Overfull \hbox (78.08014pt too wide) in paragraph at lines 2702--2702 [] \T1/zi4/m/n/10 Experimenter name: Bernal M,??Garc??Alcalde F,??Concha ???? Blanco A,??Garrido F,??Ruiz-Cabello F[] Overfull \hbox (68.08014pt too wide) in paragraph at lines 2703--2703 [] \T1/zi4/m/n/10 Laboratory: Bernal M,??Garc??Alcalde F,??Concha ????Blanco A,??Garrido F,??Ruiz-Cabello F 2011[] Overfull \hbox (228.04947pt too wide) in paragraph at lines 2705--2705 [] \T1/zi4/m/n/10 Title: Genome-wide profiling characterizes CRCs with geneti c instability and specific routes to HLA class I loss and immunoescape[] [57] Overfull \hbox (483.0188pt too wide) in paragraph at lines 2788--2788 [] \T1/zi4/m/n/10 Experimenter name: Tsuji S, Midorikawa Y, Takahashi T, Yagi K et al.??Potential responders to FOLFOX therapy for colorectal cancer by Rand om Forests analysis.??Br J Cancer??2012 Jan 3[] Overfull \hbox (66.39984pt too wide) in paragraph at lines 2791--2791 [] \T1/zi4/m/n/10 Title: Potential responders to FOLFOX therapy for colorecta l cancer by Random Forests analysis.[] [58] [59] Underfull \vbox (badness 10000) has occurred while \output is active [60] Overfull \hbox (568.00858pt too wide) in paragraph at lines 2926--2926 [] \T1/zi4/m/n/10 Experimenter name: Bianchini M, Levy E, Zucchini C, Pinski V et al.??Comparative study of gene expression by cDNA microarray in human colo rectal cancer tissues and normal mucosa.??Int J Oncol??2006 Jul[] Overfull \hbox (164.71954pt too wide) in paragraph at lines 2929--2929 [] \T1/zi4/m/n/10 Title: Comparative study of gene expression by cDNA microar ray in human colorectal cancer tissues and normal mucosa.[] [61] [62] [63] Overfull \hbox (661.3385pt too wide) in paragraph at lines 3052--3052 [] \T1/zi4/m/n/10 Experimenter name: de Sousa E Melo F, Colak S, Buikhuisen J , Koster J et al.??Methylation of cancer-stem-cell-associated Wnt target genes predicts poor prognosis in colorectal cancer patients.??Cell Stem Cell??2011 No v 4[] Overfull \hbox (73.0597pt too wide) in paragraph at lines 3055--3055 [] \T1/zi4/m/n/10 Title: Mutations in the Ras-Raf Axis underlie the prognosti c value of CD133 in colorectal cancer.[] [64] [65] Overfull \hbox (604.68887pt too wide) in paragraph at lines 3162--3162 [] \T1/zi4/m/n/10 Experimenter name: Marisa L, de Reyni??A, Duval A, Selves J et al.??Gene expression classification of colon cancer into molecular subtypes : characterization, validation, and prognostic value.??PLoS Med??2013[] Overfull \hbox (238.0597pt too wide) in paragraph at lines 3165--3165 [] \T1/zi4/m/n/10 Title: Gene expression classification of colon cancer into molecular subtypes: characterization, validation, and prognostic value.[] [66] [67] Underfull \vbox (badness 10000) has occurred while \output is active [68] [69] Overfull \hbox (369.70932pt too wide) in paragraph at lines 3316--3316 [] \T1/zi4/m/n/10 Experimenter name: Graudens E, Boulanger V, Mollard C, Mari age-Samson R et al.??Deciphering cellular states of innate tumor drug responses .??Genome Biol??2006[] [70] Underfull \vbox (badness 10000) has occurred while \output is active [71] Overfull \hbox (466.35895pt too wide) in paragraph at lines 3462--3462 [] \T1/zi4/m/n/10 Experimenter name: Laiho P, Kokko A, Vanharanta S, Salovaar a R et al.??Serrated carcinomas form a subclass of colorectal cancer with disti nct molecular basis.??Oncogene2007 Jan 11[] [72] Overfull \hbox (61.39984pt too wide) in paragraph at lines 3465--3465 [] \T1/zi4/m/n/10 Title: Serrated carcinomas form a subclass of colorectal ca ncer with distinct molecular basis.[] [73] Underfull \vbox (badness 10000) has occurred while \output is active [74] Overfull \hbox (409.6991pt too wide) in paragraph at lines 3588--3588 [] \T1/zi4/m/n/10 Experimenter name: Watanabe T, Kobunai T, Sakamoto E, Yamam oto Y et al.??Gene expression signature for recurrence in stage III colorectal cancers.??Cancer??2009 Jan 15[] [75] [76] Overfull \hbox (303.03925pt too wide) in paragraph at lines 3694--3694 [] \T1/zi4/m/n/10 Experimenter name: Profiling project of a panel of tubular adenoma and serrated adenoma patient material collected in the Academic Medical Center[] Overfull \hbox (134.72977pt too wide) in paragraph at lines 3695--3695 [] \T1/zi4/m/n/10 Laboratory: Medema JP,??de Sousa E Melo F,??Vermeulen L,??J ansen M,??Dekker E,??Van Noesel C,??Fessler E 2013[] [77] [78] Overfull \hbox (179.72977pt too wide) in paragraph at lines 3772--3772 [] \T1/zi4/m/n/10 Experimenter name: Comprehensive molecular characterization of human colon and rectal cancer. Nature 2012, 487:330-337[] Overfull \hbox (1.41006pt too wide) in paragraph at lines 3775--3775 [] \T1/zi4/m/n/10 Title: Comprehensive molecular characterization of human co lon and rectal cancer.[] [79] Underfull \vbox (badness 10000) has occurred while \output is active [80] Underfull \vbox (badness 10000) has occurred while \output is active [81] Underfull \vbox (badness 10000) has occurred while \output is active [82] Overfull \hbox (179.72977pt too wide) in paragraph at lines 4005--4005 [] \T1/zi4/m/n/10 Experimenter name: Comprehensive molecular characterization of human colon and rectal cancer. Nature 2012, 487:330-337[] Overfull \hbox (1.41006pt too wide) in paragraph at lines 4008--4008 [] \T1/zi4/m/n/10 Title: Comprehensive molecular characterization of human co lon and rectal cancer.[] [83] [84] Underfull \vbox (badness 10000) has occurred while \output is active [85] Underfull \vbox (badness 10000) has occurred while \output is active [86] Underfull \vbox (badness 10000) has occurred while \output is active [87] Overfull \hbox (179.72977pt too wide) in paragraph at lines 4254--4254 [] \T1/zi4/m/n/10 Experimenter name: Comprehensive molecular characterization of human colon and rectal cancer. Nature 2012, 487:330-337[] Overfull \hbox (1.41006pt too wide) in paragraph at lines 4257--4257 [] \T1/zi4/m/n/10 Title: Comprehensive molecular characterization of human co lon and rectal cancer.[] [88] [89] Underfull \vbox (badness 10000) has occurred while \output is active [90] [91] Overfull \hbox (179.72977pt too wide) in paragraph at lines 4423--4423 [] \T1/zi4/m/n/10 Experimenter name: Comprehensive molecular characterization of human colon and rectal cancer. Nature 2012, 487:330-337[] Overfull \hbox (1.41006pt too wide) in paragraph at lines 4426--4426 [] \T1/zi4/m/n/10 Title: Comprehensive molecular characterization of human co lon and rectal cancer.[] [92] Underfull \vbox (badness 10000) has occurred while \output is active [93] Underfull \vbox (badness 10000) has occurred while \output is active [94] Underfull \vbox (badness 10000) has occurred while \output is active [95] No file Rd2.ind. 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DNA copy-number alterations underlie gene expression differences betwe en microsatellite stable and unstable colorectal cancers. Clin Cancer Res 2008 Dec 15[] Overfull \hbox (258.0597pt too wide) in paragraph at lines 594--594 [] \T1/zi4/m/n/10 Title: DNA copy-number alterations underlie gene expression differences between microsatellite stable and unstable colorectal cancers.[] [14] [15] Overfull \hbox (686.3385pt too wide) in paragraph at lines 677--677 [] \T1/zi4/m/n/10 Experimenter name: Watanabe T, Kobunai T, Yamamoto Y, Matsu da K et al.??Gene expression signature and response to the use of leucovorin, f luorouracil and oxaliplatin in colorectal cancer patients.??Clin Transl Oncol?? 2011 Jun[] Overfull \hbox (238.04947pt too wide) in paragraph at lines 680--680 [] \T1/zi4/m/n/10 Title: Gene expression signature and response to the use of leucovorin, fluorouracil and oxaliplatin in colorectal cancer patients.[] [16] Overfull \hbox (679.66843pt too wide) in paragraph at lines 759--759 [] \T1/zi4/m/n/10 Experimenter name: Jorissen RN, Gibbs P, Christie M, Prakas h S et al.??Metastasis-Associated Gene Expression Changes Predict Poor Outcomes in Patients with Dukes Stage B and C Colorectal Cancer.??Clin Cancer Res??2009 Dec 15[] Overfull \hbox (233.04947pt too wide) in paragraph at lines 762--762 [] \T1/zi4/m/n/10 Title: Metastasis-Associated Gene Expression Changes Predic t Poor Outcomes in Patients with Dukes Stage B and C Colorectal Cancer.[] [17] [18] Underfull \vbox (badness 10000) has occurred while \output is active [19] Overfull \hbox (503.02902pt too wide) in paragraph at lines 897--897 [] \T1/zi4/m/n/10 Experimenter name: Reid JF, Gariboldi M, Sokolova V, Capobi anco P et al.??Integrative approach for prioritizing cancer genes in sporadic c olon cancer.??Genes Chromosomes Cancer??2009 Nov[] Overfull \hbox (9.73999pt too wide) in paragraph at lines 900--900 [] \T1/zi4/m/n/10 Title: Integrative approach for prioritizing cancer genes i n sporadic colon cancer.[] [20] [21] Underfull \vbox (badness 10000) has occurred while \output is active [22] Overfull \hbox (623.0188pt too wide) in paragraph at lines 1043--1043 [] \T1/zi4/m/n/10 Experimenter name: Smith JJ, Deane NG, Wu F, Merchant NB et al.??Experimentally derived metastasis gene expression profile predicts recurr ence and death in patients with colon cancer.??Gastroenterology??2010 Mar[] Overfull \hbox (211.38962pt too wide) in paragraph at lines 1046--1046 [] \T1/zi4/m/n/10 Title: Experimentally derived metastasis gene expression pr ofile predicts recurrence and death in patients with colon cancer.[] [23] [24] Underfull \vbox (badness 10000) has occurred while \output is active [25] [26] Overfull \hbox (623.0188pt too wide) in paragraph at lines 1207--1207 [] \T1/zi4/m/n/10 Experimenter name: Smith JJ, Deane NG, Wu F, Merchant NB et al.??Experimentally derived metastasis gene expression profile predicts recurr ence and death in patients with colon cancer.??Gastroenterology??2010 Mar[] Overfull \hbox (211.38962pt too wide) in paragraph at lines 1210--1210 [] \T1/zi4/m/n/10 Title: Experimentally derived metastasis gene expression pr ofile predicts recurrence and death in patients with colon cancer.[] [27] Underfull \vbox (badness 10000) has occurred while \output is active [28] [29] Overfull \hbox (623.0188pt too wide) in paragraph at lines 1367--1367 [] \T1/zi4/m/n/10 Experimenter name: Smith JJ, Deane NG, Wu F, Merchant NB et al.??Experimentally derived metastasis gene expression profile predicts recurr ence and death in patients with colon cancer.??Gastroenterology??2010 Mar[] Overfull \hbox (211.38962pt too wide) in paragraph at lines 1370--1370 [] \T1/zi4/m/n/10 Title: Experimentally derived metastasis gene expression pr ofile predicts recurrence and death in patients with colon cancer.[] [30] [31] [32] Overfull \hbox (579.66843pt too wide) in paragraph at lines 1523--1523 [] \T1/zi4/m/n/10 Experimenter name: Matsuyama T, Ishikawa T, Mogushi K, Yosh ida T et al.??MUC12 mRNA expression is an independent marker of prognosis in st age II and stage III colorectal cancer.??Int J Cancer??2010 Nov 15[] Overfull \hbox (138.04947pt too wide) in paragraph at lines 1526--1526 [] \T1/zi4/m/n/10 Title: MUC12 mRNA expression is an independent marker of pr ognosis in stage II and stage III colorectal cancer.[] [33] [34] Overfull \hbox (101.41006pt too wide) in paragraph at lines 1629--1629 [] \T1/zi4/m/n/10 Experimenter name: EXpression Project for Oncology, Interna tional Genomics Consortium, www.intgen.org[] [35] [36] Overfull \hbox (8.67705pt too wide) in paragraph at lines 1746--1747 []\T1/ptm/m/n/10 This study aimed to iden-tify a novel biomarker or a tar-get o f treat-ment for col-orec-tal can-cer (CRC).The [37] Overfull \hbox (463.02902pt too wide) in paragraph at lines 1759--1759 [] \T1/zi4/m/n/10 Experimenter name: Tsukamoto S, Ishikawa T, Iida S, Ishigur o M et al.??Clinical significance of osteoprotegerin expression in human colore ctal cancer.??Clin Cancer Res2011 Apr 15[] Overfull \hbox (26.41006pt too wide) in paragraph at lines 1762--1762 [] \T1/zi4/m/n/10 Title: Clinical significance of osteoprotegerin expression in human colorectal cancer.[] [38] [39] Overfull \hbox (721.3385pt too wide) in paragraph at lines 1861--1861 [] \T1/zi4/m/n/10 Experimenter name: Kogo R, Shimamura T, Mimori K, Kawahara K et al.??Long noncoding RNA HOTAIR regulates polycomb-dependent chromatin modi fication and is associated with poor prognosis in colorectal cancers.??Cancer R es??2011 Oct 15[] Overfull \hbox (308.04947pt too wide) in paragraph at lines 1864--1864 [] \T1/zi4/m/n/10 Title: Long noncoding RNA HOTAIR regulates polycomb-depende nt chromatin modification and is associated with poor prognosis in colorectal c ancers.[] Underfull \vbox (badness 1881) has occurred while \output is active [40] [41] [42] Overfull \hbox (859.66843pt too wide) in paragraph at lines 1988--1988 [] \T1/zi4/m/n/10 Experimenter name: Sveen A,????esen TH,??Rognum TO,??Lothe RA,??Skotheim RI. Transcriptome instability in colorectal cancer identified by exon microarray analyses: Associations with splicing factor expression levels a nd patient survival. Genome Med 2011 May 27[] Overfull \hbox (414.70932pt too wide) in paragraph at lines 1991--1991 [] \T1/zi4/m/n/10 Title: Transcriptome instability in colorectal cancer ident ified by exon microarray analyses: Associations with splicing factor expression levels and patient survival.[] [43] [44] Overfull \hbox (822.99835pt too wide) in paragraph at lines 2111--2111 [] \T1/zi4/m/n/10 Experimenter name: Sveen A, Agesen TH, Nesbakken A, Rognum TO et al.??Transcriptome instability in colorectal cancer identified by exon mi croarray analyses: Associations with splicing factor expression levels and pati ent survival.Genome Med??2011 May 27[] Overfull \hbox (414.70932pt too wide) in paragraph at lines 2114--2114 [] \T1/zi4/m/n/10 Title: Transcriptome instability in colorectal cancer ident ified by exon microarray analyses: Associations with splicing factor expression levels and patient survival.[] [45] [46] [47] Overfull \hbox (709.66843pt too wide) in paragraph at lines 2234--2234 [] \T1/zi4/m/n/10 Experimenter name: Bandr??E,??Malumbres R,??Cubedo E,??Sola J,??Garc??Foncillas J,??Labarga A. A gene signature of 8 genes could identify the risk of recurrence and progression in Dukes\TS1/zi4/m/n/10 ' \T1/zi4/m/n/10 B colon cancer patients. Oncol Rep 2007 May[] Overfull \hbox (54.75021pt too wide) in paragraph at lines 2235--2235 [] \T1/zi4/m/n/10 Laboratory: Bandr??E,??Malumbres R,??Cubedo E,??Sola J,??Ga rc??Foncillas J,??Labarga A 2005[] Overfull \hbox (193.03925pt too wide) in paragraph at lines 2237--2237 [] \T1/zi4/m/n/10 Title: A gene signature of 8 genes could identify the risk of recurrence and progression in Dukes\TS1/zi4/m/n/10 ' \T1/zi4/m/n/10 B colon cancer patients.[] [48] Underfull \vbox (badness 10000) has occurred while \output is active [49] [50] Overfull \hbox (1029.66843pt too wide) in paragraph at lines 2376--2376 [] \T1/zi4/m/n/10 Experimenter name: Vilar E,??Gruber SB,??Rennert G,??Bartni k CM,??Stenzel SL,??Iniesta MD,??Raskin L,Mukherjee B,??Ahn J,??Moreno V,??Morg an MA. MRE11 deficiency increases sensitivity to poly(ADP-ribose) polymerase in hibition in microsatellite unstable colorectal cancers. Cancer Res 2011 Apr 1[] Overfull \hbox (259.72977pt too wide) in paragraph at lines 2379--2379 [] \T1/zi4/m/n/10 Title: MRE11 deficiency increases sensitivity to poly(ADP-r ibose) polymerase inhibition in microsatellite unstable colorectal cancers.[] [51] [52] Overfull \hbox (1029.66843pt too wide) in paragraph at lines 2470--2470 [] \T1/zi4/m/n/10 Experimenter name: Vilar E,??Gruber SB,??Rennert G,??Bartni k CM,??Stenzel SL,??Iniesta MD,??Raskin L,Mukherjee B,??Ahn J,??Moreno V,??Morg an MA. MRE11 deficiency increases sensitivity to poly(ADP-ribose) polymerase in hibition in microsatellite unstable colorectal cancers. Cancer Res 2011 Apr 1[] Overfull \hbox (259.72977pt too wide) in paragraph at lines 2473--2473 [] \T1/zi4/m/n/10 Title: MRE11 deficiency increases sensitivity to poly(ADP-r ibose) polymerase inhibition in microsatellite unstable colorectal cancers.[] [53] Overfull \hbox (411.35895pt too wide) in paragraph at lines 2564--2564 [] \T1/zi4/m/n/10 Experimenter name: Birnbaum DJ, Laibe S, Ferrari A, Lagarde A et al.??Expression Profiles in Stage II Colon Cancer According to APC Gene S tatus.??Transl Oncol??2012 Apr[] [54] [55] Underfull \vbox (badness 10000) has occurred while \output is active [56] Overfull \hbox (78.08014pt too wide) in paragraph at lines 2702--2702 [] \T1/zi4/m/n/10 Experimenter name: Bernal M,??Garc??Alcalde F,??Concha ???? Blanco A,??Garrido F,??Ruiz-Cabello F[] Overfull \hbox (68.08014pt too wide) in paragraph at lines 2703--2703 [] \T1/zi4/m/n/10 Laboratory: Bernal M,??Garc??Alcalde F,??Concha ????Blanco A,??Garrido F,??Ruiz-Cabello F 2011[] Overfull \hbox (228.04947pt too wide) in paragraph at lines 2705--2705 [] \T1/zi4/m/n/10 Title: Genome-wide profiling characterizes CRCs with geneti c instability and specific routes to HLA class I loss and immunoescape[] [57] [58] Overfull \hbox (483.0188pt too wide) in paragraph at lines 2788--2788 [] \T1/zi4/m/n/10 Experimenter name: Tsuji S, Midorikawa Y, Takahashi T, Yagi K et al.??Potential responders to FOLFOX therapy for colorectal cancer by Rand om Forests analysis.??Br J Cancer??2012 Jan 3[] Overfull \hbox (66.39984pt too wide) in paragraph at lines 2791--2791 [] \T1/zi4/m/n/10 Title: Potential responders to FOLFOX therapy for colorecta l cancer by Random Forests analysis.[] [59] [60] [61] Overfull \hbox (568.00858pt too wide) in paragraph at lines 2926--2926 [] \T1/zi4/m/n/10 Experimenter name: Bianchini M, Levy E, Zucchini C, Pinski V et al.??Comparative study of gene expression by cDNA microarray in human colo rectal cancer tissues and normal mucosa.??Int J Oncol??2006 Jul[] Overfull \hbox (164.71954pt too wide) in paragraph at lines 2929--2929 [] \T1/zi4/m/n/10 Title: Comparative study of gene expression by cDNA microar ray in human colorectal cancer tissues and normal mucosa.[] [62] Underfull \vbox (badness 10000) has occurred while \output is active [63] Overfull \hbox (661.3385pt too wide) in paragraph at lines 3052--3052 [] \T1/zi4/m/n/10 Experimenter name: de Sousa E Melo F, Colak S, Buikhuisen J , Koster J et al.??Methylation of cancer-stem-cell-associated Wnt target genes predicts poor prognosis in colorectal cancer patients.??Cell Stem Cell??2011 No v 4[] Overfull \hbox (73.0597pt too wide) in paragraph at lines 3055--3055 [] \T1/zi4/m/n/10 Title: Mutations in the Ras-Raf Axis underlie the prognosti c value of CD133 in colorectal cancer.[] [64] [65] [66] Overfull \hbox (604.68887pt too wide) in paragraph at lines 3162--3162 [] \T1/zi4/m/n/10 Experimenter name: Marisa L, de Reyni??A, Duval A, Selves J et al.??Gene expression classification of colon cancer into molecular subtypes : characterization, validation, and prognostic value.??PLoS Med??2013[] Overfull \hbox (238.0597pt too wide) in paragraph at lines 3165--3165 [] \T1/zi4/m/n/10 Title: Gene expression classification of colon cancer into molecular subtypes: characterization, validation, and prognostic value.[] [67] [68] [69] Overfull \hbox (369.70932pt too wide) in paragraph at lines 3316--3316 [] \T1/zi4/m/n/10 Experimenter name: Graudens E, Boulanger V, Mollard C, Mari age-Samson R et al.??Deciphering cellular states of innate tumor drug responses .??Genome Biol??2006[] [70] [71] [72] Overfull \hbox (466.35895pt too wide) in paragraph at lines 3462--3462 [] \T1/zi4/m/n/10 Experimenter name: Laiho P, Kokko A, Vanharanta S, Salovaar a R et al.??Serrated carcinomas form a subclass of colorectal cancer with disti nct molecular basis.??Oncogene2007 Jan 11[] Overfull \hbox (61.39984pt too wide) in paragraph at lines 3465--3465 [] \T1/zi4/m/n/10 Title: Serrated carcinomas form a subclass of colorectal ca ncer with distinct molecular basis.[] [73] [74] [75] Overfull \hbox (409.6991pt too wide) in paragraph at lines 3588--3588 [] \T1/zi4/m/n/10 Experimenter name: Watanabe T, Kobunai T, Sakamoto E, Yamam oto Y et al.??Gene expression signature for recurrence in stage III colorectal cancers.??Cancer??2009 Jan 15[] [76] Overfull \hbox (303.03925pt too wide) in paragraph at lines 3694--3694 [] \T1/zi4/m/n/10 Experimenter name: Profiling project of a panel of tubular adenoma and serrated adenoma patient material collected in the Academic Medical Center[] Overfull \hbox (134.72977pt too wide) in paragraph at lines 3695--3695 [] \T1/zi4/m/n/10 Laboratory: Medema JP,??de Sousa E Melo F,??Vermeulen L,??J ansen M,??Dekker E,??Van Noesel C,??Fessler E 2013[] [77] [78] Overfull \hbox (179.72977pt too wide) in paragraph at lines 3772--3772 [] \T1/zi4/m/n/10 Experimenter name: Comprehensive molecular characterization of human colon and rectal cancer. Nature 2012, 487:330-337[] Overfull \hbox (1.41006pt too wide) in paragraph at lines 3775--3775 [] \T1/zi4/m/n/10 Title: Comprehensive molecular characterization of human co lon and rectal cancer.[] [79] [80] Underfull \vbox (badness 10000) has occurred while \output is active [81] Underfull \vbox (badness 10000) has occurred while \output is active [82] [83] Overfull \hbox (179.72977pt too wide) in paragraph at lines 4005--4005 [] \T1/zi4/m/n/10 Experimenter name: Comprehensive molecular characterization of human colon and rectal cancer. Nature 2012, 487:330-337[] Overfull \hbox (1.41006pt too wide) in paragraph at lines 4008--4008 [] \T1/zi4/m/n/10 Title: Comprehensive molecular characterization of human co lon and rectal cancer.[] [84] Underfull \vbox (badness 10000) has occurred while \output is active [85] Underfull \vbox (badness 10000) has occurred while \output is active [86] Underfull \vbox (badness 10000) has occurred while \output is active [87] [88] Overfull \hbox (179.72977pt too wide) in paragraph at lines 4254--4254 [] \T1/zi4/m/n/10 Experimenter name: Comprehensive molecular characterization of human colon and rectal cancer. Nature 2012, 487:330-337[] Overfull \hbox (1.41006pt too wide) in paragraph at lines 4257--4257 [] \T1/zi4/m/n/10 Title: Comprehensive molecular characterization of human co lon and rectal cancer.[] [89] Underfull \vbox (badness 10000) has occurred while \output is active [90] [91] Overfull \hbox (179.72977pt too wide) in paragraph at lines 4423--4423 [] \T1/zi4/m/n/10 Experimenter name: Comprehensive molecular characterization of human colon and rectal cancer. Nature 2012, 487:330-337[] Overfull \hbox (1.41006pt too wide) in paragraph at lines 4426--4426 [] \T1/zi4/m/n/10 Title: Comprehensive molecular characterization of human co lon and rectal cancer.[] [92] [93] Underfull \vbox (badness 10000) has occurred while \output is active [94] Underfull \vbox (badness 10000) has occurred while \output is active [95] No file Rd2.ind. 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DNA copy-number alterations underlie gene expression differences betwe en microsatellite stable and unstable colorectal cancers. Clin Cancer Res 2008 Dec 15[] Overfull \hbox (258.0597pt too wide) in paragraph at lines 594--594 [] \T1/zi4/m/n/10 Title: DNA copy-number alterations underlie gene expression differences between microsatellite stable and unstable colorectal cancers.[] [14] [15] Overfull \hbox (686.3385pt too wide) in paragraph at lines 677--677 [] \T1/zi4/m/n/10 Experimenter name: Watanabe T, Kobunai T, Yamamoto Y, Matsu da K et al.??Gene expression signature and response to the use of leucovorin, f luorouracil and oxaliplatin in colorectal cancer patients.??Clin Transl Oncol?? 2011 Jun[] Overfull \hbox (238.04947pt too wide) in paragraph at lines 680--680 [] \T1/zi4/m/n/10 Title: Gene expression signature and response to the use of leucovorin, fluorouracil and oxaliplatin in colorectal cancer patients.[] [16] Overfull \hbox (679.66843pt too wide) in paragraph at lines 759--759 [] \T1/zi4/m/n/10 Experimenter name: Jorissen RN, Gibbs P, Christie M, Prakas h S et al.??Metastasis-Associated Gene Expression Changes Predict Poor Outcomes in Patients with Dukes Stage B and C Colorectal Cancer.??Clin Cancer Res??2009 Dec 15[] Overfull \hbox (233.04947pt too wide) in paragraph at lines 762--762 [] \T1/zi4/m/n/10 Title: Metastasis-Associated Gene Expression Changes Predic t Poor Outcomes in Patients with Dukes Stage B and C Colorectal Cancer.[] [17] [18] Underfull \vbox (badness 10000) has occurred while \output is active [19] Overfull \hbox (503.02902pt too wide) in paragraph at lines 897--897 [] \T1/zi4/m/n/10 Experimenter name: Reid JF, Gariboldi M, Sokolova V, Capobi anco P et al.??Integrative approach for prioritizing cancer genes in sporadic c olon cancer.??Genes Chromosomes Cancer??2009 Nov[] Overfull \hbox (9.73999pt too wide) in paragraph at lines 900--900 [] \T1/zi4/m/n/10 Title: Integrative approach for prioritizing cancer genes i n sporadic colon cancer.[] [20] [21] Underfull \vbox (badness 10000) has occurred while \output is active [22] Overfull \hbox (623.0188pt too wide) in paragraph at lines 1043--1043 [] \T1/zi4/m/n/10 Experimenter name: Smith JJ, Deane NG, Wu F, Merchant NB et al.??Experimentally derived metastasis gene expression profile predicts recurr ence and death in patients with colon cancer.??Gastroenterology??2010 Mar[] Overfull \hbox (211.38962pt too wide) in paragraph at lines 1046--1046 [] \T1/zi4/m/n/10 Title: Experimentally derived metastasis gene expression pr ofile predicts recurrence and death in patients with colon cancer.[] [23] [24] Underfull \vbox (badness 10000) has occurred while \output is active [25] [26] Overfull \hbox (623.0188pt too wide) in paragraph at lines 1207--1207 [] \T1/zi4/m/n/10 Experimenter name: Smith JJ, Deane NG, Wu F, Merchant NB et al.??Experimentally derived metastasis gene expression profile predicts recurr ence and death in patients with colon cancer.??Gastroenterology??2010 Mar[] Overfull \hbox (211.38962pt too wide) in paragraph at lines 1210--1210 [] \T1/zi4/m/n/10 Title: Experimentally derived metastasis gene expression pr ofile predicts recurrence and death in patients with colon cancer.[] [27] Underfull \vbox (badness 10000) has occurred while \output is active [28] [29] Overfull \hbox (623.0188pt too wide) in paragraph at lines 1367--1367 [] \T1/zi4/m/n/10 Experimenter name: Smith JJ, Deane NG, Wu F, Merchant NB et al.??Experimentally derived metastasis gene expression profile predicts recurr ence and death in patients with colon cancer.??Gastroenterology??2010 Mar[] Overfull \hbox (211.38962pt too wide) in paragraph at lines 1370--1370 [] \T1/zi4/m/n/10 Title: Experimentally derived metastasis gene expression pr ofile predicts recurrence and death in patients with colon cancer.[] [30] [31] [32] Overfull \hbox (579.66843pt too wide) in paragraph at lines 1523--1523 [] \T1/zi4/m/n/10 Experimenter name: Matsuyama T, Ishikawa T, Mogushi K, Yosh ida T et al.??MUC12 mRNA expression is an independent marker of prognosis in st age II and stage III colorectal cancer.??Int J Cancer??2010 Nov 15[] Overfull \hbox (138.04947pt too wide) in paragraph at lines 1526--1526 [] \T1/zi4/m/n/10 Title: MUC12 mRNA expression is an independent marker of pr ognosis in stage II and stage III colorectal cancer.[] [33] [34] Overfull \hbox (101.41006pt too wide) in paragraph at lines 1629--1629 [] \T1/zi4/m/n/10 Experimenter name: EXpression Project for Oncology, Interna tional Genomics Consortium, www.intgen.org[] [35] [36] Overfull \hbox (8.67705pt too wide) in paragraph at lines 1746--1747 []\T1/ptm/m/n/10 This study aimed to iden-tify a novel biomarker or a tar-get o f treat-ment for col-orec-tal can-cer (CRC).The [37] Overfull \hbox (463.02902pt too wide) in paragraph at lines 1759--1759 [] \T1/zi4/m/n/10 Experimenter name: Tsukamoto S, Ishikawa T, Iida S, Ishigur o M et al.??Clinical significance of osteoprotegerin expression in human colore ctal cancer.??Clin Cancer Res2011 Apr 15[] Overfull \hbox (26.41006pt too wide) in paragraph at lines 1762--1762 [] \T1/zi4/m/n/10 Title: Clinical significance of osteoprotegerin expression in human colorectal cancer.[] [38] [39] Overfull \hbox (721.3385pt too wide) in paragraph at lines 1861--1861 [] \T1/zi4/m/n/10 Experimenter name: Kogo R, Shimamura T, Mimori K, Kawahara K et al.??Long noncoding RNA HOTAIR regulates polycomb-dependent chromatin modi fication and is associated with poor prognosis in colorectal cancers.??Cancer R es??2011 Oct 15[] Overfull \hbox (308.04947pt too wide) in paragraph at lines 1864--1864 [] \T1/zi4/m/n/10 Title: Long noncoding RNA HOTAIR regulates polycomb-depende nt chromatin modification and is associated with poor prognosis in colorectal c ancers.[] Underfull \vbox (badness 1881) has occurred while \output is active [40] [41] [42] Overfull \hbox (859.66843pt too wide) in paragraph at lines 1988--1988 [] \T1/zi4/m/n/10 Experimenter name: Sveen A,????esen TH,??Rognum TO,??Lothe RA,??Skotheim RI. Transcriptome instability in colorectal cancer identified by exon microarray analyses: Associations with splicing factor expression levels a nd patient survival. Genome Med 2011 May 27[] Overfull \hbox (414.70932pt too wide) in paragraph at lines 1991--1991 [] \T1/zi4/m/n/10 Title: Transcriptome instability in colorectal cancer ident ified by exon microarray analyses: Associations with splicing factor expression levels and patient survival.[] [43] [44] Overfull \hbox (822.99835pt too wide) in paragraph at lines 2111--2111 [] \T1/zi4/m/n/10 Experimenter name: Sveen A, Agesen TH, Nesbakken A, Rognum TO et al.??Transcriptome instability in colorectal cancer identified by exon mi croarray analyses: Associations with splicing factor expression levels and pati ent survival.Genome Med??2011 May 27[] Overfull \hbox (414.70932pt too wide) in paragraph at lines 2114--2114 [] \T1/zi4/m/n/10 Title: Transcriptome instability in colorectal cancer ident ified by exon microarray analyses: Associations with splicing factor expression levels and patient survival.[] [45] [46] [47] Overfull \hbox (709.66843pt too wide) in paragraph at lines 2234--2234 [] \T1/zi4/m/n/10 Experimenter name: Bandr??E,??Malumbres R,??Cubedo E,??Sola J,??Garc??Foncillas J,??Labarga A. A gene signature of 8 genes could identify the risk of recurrence and progression in Dukes\TS1/zi4/m/n/10 ' \T1/zi4/m/n/10 B colon cancer patients. Oncol Rep 2007 May[] Overfull \hbox (54.75021pt too wide) in paragraph at lines 2235--2235 [] \T1/zi4/m/n/10 Laboratory: Bandr??E,??Malumbres R,??Cubedo E,??Sola J,??Ga rc??Foncillas J,??Labarga A 2005[] Overfull \hbox (193.03925pt too wide) in paragraph at lines 2237--2237 [] \T1/zi4/m/n/10 Title: A gene signature of 8 genes could identify the risk of recurrence and progression in Dukes\TS1/zi4/m/n/10 ' \T1/zi4/m/n/10 B colon cancer patients.[] [48] Underfull \vbox (badness 10000) has occurred while \output is active [49] [50] Overfull \hbox (1029.66843pt too wide) in paragraph at lines 2376--2376 [] \T1/zi4/m/n/10 Experimenter name: Vilar E,??Gruber SB,??Rennert G,??Bartni k CM,??Stenzel SL,??Iniesta MD,??Raskin L,Mukherjee B,??Ahn J,??Moreno V,??Morg an MA. MRE11 deficiency increases sensitivity to poly(ADP-ribose) polymerase in hibition in microsatellite unstable colorectal cancers. Cancer Res 2011 Apr 1[] Overfull \hbox (259.72977pt too wide) in paragraph at lines 2379--2379 [] \T1/zi4/m/n/10 Title: MRE11 deficiency increases sensitivity to poly(ADP-r ibose) polymerase inhibition in microsatellite unstable colorectal cancers.[] [51] [52] Overfull \hbox (1029.66843pt too wide) in paragraph at lines 2470--2470 [] \T1/zi4/m/n/10 Experimenter name: Vilar E,??Gruber SB,??Rennert G,??Bartni k CM,??Stenzel SL,??Iniesta MD,??Raskin L,Mukherjee B,??Ahn J,??Moreno V,??Morg an MA. MRE11 deficiency increases sensitivity to poly(ADP-ribose) polymerase in hibition in microsatellite unstable colorectal cancers. Cancer Res 2011 Apr 1[] Overfull \hbox (259.72977pt too wide) in paragraph at lines 2473--2473 [] \T1/zi4/m/n/10 Title: MRE11 deficiency increases sensitivity to poly(ADP-r ibose) polymerase inhibition in microsatellite unstable colorectal cancers.[] [53] Overfull \hbox (411.35895pt too wide) in paragraph at lines 2564--2564 [] \T1/zi4/m/n/10 Experimenter name: Birnbaum DJ, Laibe S, Ferrari A, Lagarde A et al.??Expression Profiles in Stage II Colon Cancer According to APC Gene S tatus.??Transl Oncol??2012 Apr[] [54] [55] Underfull \vbox (badness 10000) has occurred while \output is active [56] Overfull \hbox (78.08014pt too wide) in paragraph at lines 2702--2702 [] \T1/zi4/m/n/10 Experimenter name: Bernal M,??Garc??Alcalde F,??Concha ???? Blanco A,??Garrido F,??Ruiz-Cabello F[] Overfull \hbox (68.08014pt too wide) in paragraph at lines 2703--2703 [] \T1/zi4/m/n/10 Laboratory: Bernal M,??Garc??Alcalde F,??Concha ????Blanco A,??Garrido F,??Ruiz-Cabello F 2011[] Overfull \hbox (228.04947pt too wide) in paragraph at lines 2705--2705 [] \T1/zi4/m/n/10 Title: Genome-wide profiling characterizes CRCs with geneti c instability and specific routes to HLA class I loss and immunoescape[] [57] [58] Overfull \hbox (483.0188pt too wide) in paragraph at lines 2788--2788 [] \T1/zi4/m/n/10 Experimenter name: Tsuji S, Midorikawa Y, Takahashi T, Yagi K et al.??Potential responders to FOLFOX therapy for colorectal cancer by Rand om Forests analysis.??Br J Cancer??2012 Jan 3[] Overfull \hbox (66.39984pt too wide) in paragraph at lines 2791--2791 [] \T1/zi4/m/n/10 Title: Potential responders to FOLFOX therapy for colorecta l cancer by Random Forests analysis.[] [59] [60] [61] Overfull \hbox (568.00858pt too wide) in paragraph at lines 2926--2926 [] \T1/zi4/m/n/10 Experimenter name: Bianchini M, Levy E, Zucchini C, Pinski V et al.??Comparative study of gene expression by cDNA microarray in human colo rectal cancer tissues and normal mucosa.??Int J Oncol??2006 Jul[] Overfull \hbox (164.71954pt too wide) in paragraph at lines 2929--2929 [] \T1/zi4/m/n/10 Title: Comparative study of gene expression by cDNA microar ray in human colorectal cancer tissues and normal mucosa.[] [62] Underfull \vbox (badness 10000) has occurred while \output is active [63] Overfull \hbox (661.3385pt too wide) in paragraph at lines 3052--3052 [] \T1/zi4/m/n/10 Experimenter name: de Sousa E Melo F, Colak S, Buikhuisen J , Koster J et al.??Methylation of cancer-stem-cell-associated Wnt target genes predicts poor prognosis in colorectal cancer patients.??Cell Stem Cell??2011 No v 4[] Overfull \hbox (73.0597pt too wide) in paragraph at lines 3055--3055 [] \T1/zi4/m/n/10 Title: Mutations in the Ras-Raf Axis underlie the prognosti c value of CD133 in colorectal cancer.[] [64] [65] [66] Overfull \hbox (604.68887pt too wide) in paragraph at lines 3162--3162 [] \T1/zi4/m/n/10 Experimenter name: Marisa L, de Reyni??A, Duval A, Selves J et al.??Gene expression classification of colon cancer into molecular subtypes : characterization, validation, and prognostic value.??PLoS Med??2013[] Overfull \hbox (238.0597pt too wide) in paragraph at lines 3165--3165 [] \T1/zi4/m/n/10 Title: Gene expression classification of colon cancer into molecular subtypes: characterization, validation, and prognostic value.[] [67] [68] [69] Overfull \hbox (369.70932pt too wide) in paragraph at lines 3316--3316 [] \T1/zi4/m/n/10 Experimenter name: Graudens E, Boulanger V, Mollard C, Mari age-Samson R et al.??Deciphering cellular states of innate tumor drug responses .??Genome Biol??2006[] [70] [71] [72] Overfull \hbox (466.35895pt too wide) in paragraph at lines 3462--3462 [] \T1/zi4/m/n/10 Experimenter name: Laiho P, Kokko A, Vanharanta S, Salovaar a R et al.??Serrated carcinomas form a subclass of colorectal cancer with disti nct molecular basis.??Oncogene2007 Jan 11[] Overfull \hbox (61.39984pt too wide) in paragraph at lines 3465--3465 [] \T1/zi4/m/n/10 Title: Serrated carcinomas form a subclass of colorectal ca ncer with distinct molecular basis.[] [73] [74] [75] Overfull \hbox (409.6991pt too wide) in paragraph at lines 3588--3588 [] \T1/zi4/m/n/10 Experimenter name: Watanabe T, Kobunai T, Sakamoto E, Yamam oto Y et al.??Gene expression signature for recurrence in stage III colorectal cancers.??Cancer??2009 Jan 15[] [76] Overfull \hbox (303.03925pt too wide) in paragraph at lines 3694--3694 [] \T1/zi4/m/n/10 Experimenter name: Profiling project of a panel of tubular adenoma and serrated adenoma patient material collected in the Academic Medical Center[] Overfull \hbox (134.72977pt too wide) in paragraph at lines 3695--3695 [] \T1/zi4/m/n/10 Laboratory: Medema JP,??de Sousa E Melo F,??Vermeulen L,??J ansen M,??Dekker E,??Van Noesel C,??Fessler E 2013[] [77] [78] Overfull \hbox (179.72977pt too wide) in paragraph at lines 3772--3772 [] \T1/zi4/m/n/10 Experimenter name: Comprehensive molecular characterization of human colon and rectal cancer. Nature 2012, 487:330-337[] Overfull \hbox (1.41006pt too wide) in paragraph at lines 3775--3775 [] \T1/zi4/m/n/10 Title: Comprehensive molecular characterization of human co lon and rectal cancer.[] [79] [80] Underfull \vbox (badness 10000) has occurred while \output is active [81] Underfull \vbox (badness 10000) has occurred while \output is active [82] [83] Overfull \hbox (179.72977pt too wide) in paragraph at lines 4005--4005 [] \T1/zi4/m/n/10 Experimenter name: Comprehensive molecular characterization of human colon and rectal cancer. Nature 2012, 487:330-337[] Overfull \hbox (1.41006pt too wide) in paragraph at lines 4008--4008 [] \T1/zi4/m/n/10 Title: Comprehensive molecular characterization of human co lon and rectal cancer.[] [84] Underfull \vbox (badness 10000) has occurred while \output is active [85] Underfull \vbox (badness 10000) has occurred while \output is active [86] Underfull \vbox (badness 10000) has occurred while \output is active [87] [88] Overfull \hbox (179.72977pt too wide) in paragraph at lines 4254--4254 [] \T1/zi4/m/n/10 Experimenter name: Comprehensive molecular characterization of human colon and rectal cancer. Nature 2012, 487:330-337[] Overfull \hbox (1.41006pt too wide) in paragraph at lines 4257--4257 [] \T1/zi4/m/n/10 Title: Comprehensive molecular characterization of human co lon and rectal cancer.[] [89] Underfull \vbox (badness 10000) has occurred while \output is active [90] [91] Overfull \hbox (179.72977pt too wide) in paragraph at lines 4423--4423 [] \T1/zi4/m/n/10 Experimenter name: Comprehensive molecular characterization of human colon and rectal cancer. 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DNA copy-number alterations underlie gene expression differences betwe en microsatellite stable and unstable colorectal cancers. Clin Cancer Res 2008 Dec 15[] Overfull \hbox (258.0597pt too wide) in paragraph at lines 594--594 [] \T1/zi4/m/n/10 Title: DNA copy-number alterations underlie gene expression differences between microsatellite stable and unstable colorectal cancers.[] [14] [15] Overfull \hbox (686.3385pt too wide) in paragraph at lines 677--677 [] \T1/zi4/m/n/10 Experimenter name: Watanabe T, Kobunai T, Yamamoto Y, Matsu da K et al.??Gene expression signature and response to the use of leucovorin, f luorouracil and oxaliplatin in colorectal cancer patients.??Clin Transl Oncol?? 2011 Jun[] Overfull \hbox (238.04947pt too wide) in paragraph at lines 680--680 [] \T1/zi4/m/n/10 Title: Gene expression signature and response to the use of leucovorin, fluorouracil and oxaliplatin in colorectal cancer patients.[] [16] Overfull \hbox (679.66843pt too wide) in paragraph at lines 759--759 [] \T1/zi4/m/n/10 Experimenter name: Jorissen RN, Gibbs P, Christie M, Prakas h S et al.??Metastasis-Associated Gene Expression Changes Predict Poor Outcomes in Patients with Dukes Stage B and C Colorectal Cancer.??Clin Cancer Res??2009 Dec 15[] Overfull \hbox (233.04947pt too wide) in paragraph at lines 762--762 [] \T1/zi4/m/n/10 Title: Metastasis-Associated Gene Expression Changes Predic t Poor Outcomes in Patients with Dukes Stage B and C Colorectal Cancer.[] [17] [18] Underfull \vbox (badness 10000) has occurred while \output is active [19] Overfull \hbox (503.02902pt too wide) in paragraph at lines 897--897 [] \T1/zi4/m/n/10 Experimenter name: Reid JF, Gariboldi M, Sokolova V, Capobi anco P et al.??Integrative approach for prioritizing cancer genes in sporadic c olon cancer.??Genes Chromosomes Cancer??2009 Nov[] Overfull \hbox (9.73999pt too wide) in paragraph at lines 900--900 [] \T1/zi4/m/n/10 Title: Integrative approach for prioritizing cancer genes i n sporadic colon cancer.[] [20] [21] Underfull \vbox (badness 10000) has occurred while \output is active [22] Overfull \hbox (623.0188pt too wide) in paragraph at lines 1043--1043 [] \T1/zi4/m/n/10 Experimenter name: Smith JJ, Deane NG, Wu F, Merchant NB et al.??Experimentally derived metastasis gene expression profile predicts recurr ence and death in patients with colon cancer.??Gastroenterology??2010 Mar[] Overfull \hbox (211.38962pt too wide) in paragraph at lines 1046--1046 [] \T1/zi4/m/n/10 Title: Experimentally derived metastasis gene expression pr ofile predicts recurrence and death in patients with colon cancer.[] [23] [24] Underfull \vbox (badness 10000) has occurred while \output is active [25] [26] Overfull \hbox (623.0188pt too wide) in paragraph at lines 1207--1207 [] \T1/zi4/m/n/10 Experimenter name: Smith JJ, Deane NG, Wu F, Merchant NB et al.??Experimentally derived metastasis gene expression profile predicts recurr ence and death in patients with colon cancer.??Gastroenterology??2010 Mar[] Overfull \hbox (211.38962pt too wide) in paragraph at lines 1210--1210 [] \T1/zi4/m/n/10 Title: Experimentally derived metastasis gene expression pr ofile predicts recurrence and death in patients with colon cancer.[] [27] Underfull \vbox (badness 10000) has occurred while \output is active [28] [29] Overfull \hbox (623.0188pt too wide) in paragraph at lines 1367--1367 [] \T1/zi4/m/n/10 Experimenter name: Smith JJ, Deane NG, Wu F, Merchant NB et al.??Experimentally derived metastasis gene expression profile predicts recurr ence and death in patients with colon cancer.??Gastroenterology??2010 Mar[] Overfull \hbox (211.38962pt too wide) in paragraph at lines 1370--1370 [] \T1/zi4/m/n/10 Title: Experimentally derived metastasis gene expression pr ofile predicts recurrence and death in patients with colon cancer.[] [30] [31] [32] Overfull \hbox (579.66843pt too wide) in paragraph at lines 1523--1523 [] \T1/zi4/m/n/10 Experimenter name: Matsuyama T, Ishikawa T, Mogushi K, Yosh ida T et al.??MUC12 mRNA expression is an independent marker of prognosis in st age II and stage III colorectal cancer.??Int J Cancer??2010 Nov 15[] Overfull \hbox (138.04947pt too wide) in paragraph at lines 1526--1526 [] \T1/zi4/m/n/10 Title: MUC12 mRNA expression is an independent marker of pr ognosis in stage II and stage III colorectal cancer.[] [33] [34] Overfull \hbox (101.41006pt too wide) in paragraph at lines 1629--1629 [] \T1/zi4/m/n/10 Experimenter name: EXpression Project for Oncology, Interna tional Genomics Consortium, www.intgen.org[] [35] [36] Overfull \hbox (8.67705pt too wide) in paragraph at lines 1746--1747 []\T1/ptm/m/n/10 This study aimed to iden-tify a novel biomarker or a tar-get o f treat-ment for col-orec-tal can-cer (CRC).The [37] Overfull \hbox (463.02902pt too wide) in paragraph at lines 1759--1759 [] \T1/zi4/m/n/10 Experimenter name: Tsukamoto S, Ishikawa T, Iida S, Ishigur o M et al.??Clinical significance of osteoprotegerin expression in human colore ctal cancer.??Clin Cancer Res2011 Apr 15[] Overfull \hbox (26.41006pt too wide) in paragraph at lines 1762--1762 [] 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Transcriptome instability in colorectal cancer identified by exon microarray analyses: Associations with splicing factor expression levels a nd patient survival. Genome Med 2011 May 27[] Overfull \hbox (414.70932pt too wide) in paragraph at lines 1991--1991 [] \T1/zi4/m/n/10 Title: Transcriptome instability in colorectal cancer ident ified by exon microarray analyses: Associations with splicing factor expression levels and patient survival.[] [43] [44] Overfull \hbox (822.99835pt too wide) in paragraph at lines 2111--2111 [] \T1/zi4/m/n/10 Experimenter name: Sveen A, Agesen TH, Nesbakken A, Rognum TO et al.??Transcriptome instability in colorectal cancer identified by exon mi croarray analyses: Associations with splicing factor expression levels and pati ent survival.Genome Med??2011 May 27[] Overfull \hbox (414.70932pt too wide) in paragraph at lines 2114--2114 [] \T1/zi4/m/n/10 Title: Transcriptome instability in colorectal cancer ident ified by exon microarray analyses: Associations with splicing factor expression levels and patient survival.[] [45] [46] [47] Overfull \hbox (709.66843pt too wide) in paragraph at lines 2234--2234 [] \T1/zi4/m/n/10 Experimenter name: Bandr??E,??Malumbres R,??Cubedo E,??Sola J,??Garc??Foncillas J,??Labarga A. A gene signature of 8 genes could identify the risk of recurrence and progression in Dukes\TS1/zi4/m/n/10 ' \T1/zi4/m/n/10 B colon cancer patients. Oncol Rep 2007 May[] Overfull \hbox (54.75021pt too wide) in paragraph at lines 2235--2235 [] \T1/zi4/m/n/10 Laboratory: Bandr??E,??Malumbres R,??Cubedo E,??Sola J,??Ga rc??Foncillas J,??Labarga A 2005[] Overfull \hbox (193.03925pt too wide) in paragraph at lines 2237--2237 [] \T1/zi4/m/n/10 Title: A gene signature of 8 genes could identify the risk of recurrence and progression in Dukes\TS1/zi4/m/n/10 ' \T1/zi4/m/n/10 B colon cancer patients.[] [48] Underfull \vbox (badness 10000) has occurred while \output is active [49] [50] Overfull \hbox (1029.66843pt too wide) in paragraph at lines 2376--2376 [] \T1/zi4/m/n/10 Experimenter name: Vilar E,??Gruber SB,??Rennert G,??Bartni k CM,??Stenzel SL,??Iniesta MD,??Raskin L,Mukherjee B,??Ahn J,??Moreno V,??Morg an MA. MRE11 deficiency increases sensitivity to poly(ADP-ribose) polymerase in hibition in microsatellite unstable colorectal cancers. Cancer Res 2011 Apr 1[] Overfull \hbox (259.72977pt too wide) in paragraph at lines 2379--2379 [] \T1/zi4/m/n/10 Title: MRE11 deficiency increases sensitivity to poly(ADP-r ibose) polymerase inhibition in microsatellite unstable colorectal cancers.[] [51] [52] Overfull \hbox (1029.66843pt too wide) in paragraph at lines 2470--2470 [] \T1/zi4/m/n/10 Experimenter name: Vilar E,??Gruber SB,??Rennert G,??Bartni k CM,??Stenzel SL,??Iniesta MD,??Raskin L,Mukherjee B,??Ahn J,??Moreno V,??Morg an MA. MRE11 deficiency increases sensitivity to poly(ADP-ribose) polymerase in hibition in microsatellite unstable colorectal cancers. Cancer Res 2011 Apr 1[] Overfull \hbox (259.72977pt too wide) in paragraph at lines 2473--2473 [] \T1/zi4/m/n/10 Title: MRE11 deficiency increases sensitivity to poly(ADP-r ibose) polymerase inhibition in microsatellite unstable colorectal cancers.[] [53] Overfull \hbox (411.35895pt too wide) in paragraph at lines 2564--2564 [] \T1/zi4/m/n/10 Experimenter name: Birnbaum DJ, Laibe S, Ferrari A, Lagarde A et al.??Expression Profiles in Stage II Colon Cancer According to APC Gene S tatus.??Transl Oncol??2012 Apr[] [54] [55] Underfull \vbox (badness 10000) has occurred while \output is active [56] Overfull \hbox (78.08014pt too wide) in paragraph at lines 2702--2702 [] \T1/zi4/m/n/10 Experimenter name: Bernal M,??Garc??Alcalde F,??Concha ???? Blanco A,??Garrido F,??Ruiz-Cabello F[] Overfull \hbox (68.08014pt too wide) in paragraph at lines 2703--2703 [] \T1/zi4/m/n/10 Laboratory: Bernal M,??Garc??Alcalde F,??Concha ????Blanco A,??Garrido F,??Ruiz-Cabello F 2011[] Overfull \hbox (228.04947pt too wide) in paragraph at lines 2705--2705 [] \T1/zi4/m/n/10 Title: Genome-wide profiling characterizes CRCs with geneti c instability and specific routes to HLA class I loss and immunoescape[] [57] [58] Overfull \hbox (483.0188pt too wide) in paragraph at lines 2788--2788 [] \T1/zi4/m/n/10 Experimenter name: Tsuji S, Midorikawa Y, Takahashi T, Yagi K et al.??Potential responders to FOLFOX therapy for colorectal cancer by Rand om Forests analysis.??Br J Cancer??2012 Jan 3[] Overfull \hbox (66.39984pt too wide) in paragraph at lines 2791--2791 [] \T1/zi4/m/n/10 Title: Potential responders to FOLFOX therapy for colorecta l cancer by Random Forests analysis.[] [59] [60] [61] Overfull \hbox (568.00858pt too wide) in paragraph at lines 2926--2926 [] \T1/zi4/m/n/10 Experimenter name: Bianchini M, Levy E, Zucchini C, Pinski V et al.??Comparative study of gene expression by cDNA microarray in human colo rectal cancer tissues and normal mucosa.??Int J Oncol??2006 Jul[] Overfull \hbox (164.71954pt too wide) in paragraph at lines 2929--2929 [] \T1/zi4/m/n/10 Title: Comparative study of gene expression by cDNA microar ray in human colorectal cancer tissues and normal mucosa.[] [62] Underfull \vbox (badness 10000) has occurred while \output is active [63] Overfull \hbox (661.3385pt too wide) in paragraph at lines 3052--3052 [] \T1/zi4/m/n/10 Experimenter name: de Sousa E Melo F, Colak S, Buikhuisen J , Koster J et al.??Methylation of cancer-stem-cell-associated Wnt target genes predicts poor prognosis in colorectal cancer patients.??Cell Stem Cell??2011 No v 4[] Overfull \hbox (73.0597pt too wide) in paragraph at lines 3055--3055 [] \T1/zi4/m/n/10 Title: Mutations in the Ras-Raf Axis underlie the prognosti c value of CD133 in colorectal cancer.[] [64] [65] [66] Overfull \hbox (604.68887pt too wide) in paragraph at lines 3162--3162 [] \T1/zi4/m/n/10 Experimenter name: Marisa L, de Reyni??A, Duval A, Selves J et al.??Gene expression classification of colon cancer into molecular subtypes : characterization, validation, and prognostic value.??PLoS Med??2013[] Overfull \hbox (238.0597pt too wide) in paragraph at lines 3165--3165 [] \T1/zi4/m/n/10 Title: Gene expression classification of colon cancer into molecular subtypes: characterization, validation, and prognostic value.[] [67] [68] [69] Overfull \hbox (369.70932pt too wide) in paragraph at lines 3316--3316 [] \T1/zi4/m/n/10 Experimenter name: Graudens E, Boulanger V, Mollard C, Mari age-Samson R et al.??Deciphering cellular states of innate tumor drug responses .??Genome Biol??2006[] [70] [71] [72] Overfull \hbox (466.35895pt too wide) in paragraph at lines 3462--3462 [] \T1/zi4/m/n/10 Experimenter name: Laiho P, Kokko A, Vanharanta S, Salovaar a R et al.??Serrated carcinomas form a subclass of colorectal cancer with disti nct molecular basis.??Oncogene2007 Jan 11[] Overfull \hbox (61.39984pt too wide) in paragraph at lines 3465--3465 [] \T1/zi4/m/n/10 Title: Serrated carcinomas form a subclass of colorectal ca ncer with distinct molecular basis.[] [73] [74] [75] Overfull \hbox (409.6991pt too wide) in paragraph at lines 3588--3588 [] \T1/zi4/m/n/10 Experimenter name: Watanabe T, Kobunai T, Sakamoto E, Yamam oto Y et al.??Gene expression signature for recurrence in stage III colorectal cancers.??Cancer??2009 Jan 15[] [76] Overfull \hbox (303.03925pt too wide) in paragraph at lines 3694--3694 [] \T1/zi4/m/n/10 Experimenter name: Profiling project of a panel of tubular adenoma and serrated adenoma patient material collected in the Academic Medical Center[] Overfull \hbox (134.72977pt too wide) in paragraph at lines 3695--3695 [] \T1/zi4/m/n/10 Laboratory: Medema JP,??de Sousa E Melo F,??Vermeulen L,??J ansen M,??Dekker E,??Van Noesel C,??Fessler E 2013[] [77] [78] Overfull \hbox (179.72977pt too wide) in paragraph at lines 3772--3772 [] \T1/zi4/m/n/10 Experimenter name: Comprehensive molecular characterization of human colon and rectal cancer. Nature 2012, 487:330-337[] Overfull \hbox (1.41006pt too wide) in paragraph at lines 3775--3775 [] \T1/zi4/m/n/10 Title: Comprehensive molecular characterization of human co lon and rectal cancer.[] [79] [80] Underfull \vbox (badness 10000) has occurred while \output is active [81] Underfull \vbox (badness 10000) has occurred while \output is active [82] [83] Overfull \hbox (179.72977pt too wide) in paragraph at lines 4005--4005 [] \T1/zi4/m/n/10 Experimenter name: Comprehensive molecular characterization of human colon and rectal cancer. 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