111
Views
0
CrossRef citations to date
0
Altmetric
Technology Report

Nucleic Acid Quantification and Disease Outcome Prediction in Colorectal Cancer

Pages 207-216 | Published online: 05 May 2006

Bibliography

  • Boyle P , FerlayJ: Cancer incidence and mortality in Europe, 2004.Ann Oncol.16, 481–488 (2005).
  • Jemal A , MurrayT, WardE et al.: Cancer statistics, 2005. CA Cancer J. Clin.55, 10–30 (2005).
  • Hermanek P : pTNM and residual tumor classifications: problems of assessment and prognostic significance.World J. Surg.19, 184–190 (1995).
  • Ahmed FE : Artificial neural networks for diagnosis and survival prediction in colon cancer.Mol. Cancer4, 29 (2005).
  • Ahmed FE : Molecular markers that predict response to colon cancer therapy.Expert Rev. Mol. Diagn.5, 353–375 (2005).
  • Ahmed FE : Development of novel diagnostic and prognostic molecular markers for sporadic colon cancer.Expert Rev. Mol. Diagn.5, 337–352 (2005).
  • Bustin SA , DorudiS: Molecular assessment of tumor stage and disease recurrence using PCR-based assays.Mol. Med. Today4, 389–396 (1998).
  • Ramaswamy S , RossKN, LanderES, Golub TR:A molecular signature of metastasis in primary solid tumors. Nature Genet.33, 49–54 (2003).
  • Ribic CM , SargentDJ, MooreMJ et al.: Tumor microsatellite-instability status as a predictor of benefit from fluorouracil-based adjuvant chemotherapy for colon cancer. N. Engl. J. Med.349, 247–257 (2003).
  • Hawkins NJ , TomlinsonI, MeagherA, WardRL: Microsatellite-stable diploid carcinoma: a biologically distinct and aggressive subset of sporadic colorectal cancer.Br. J. Cancer84, 232–236 (2001).
  • Wang Y , JatkoeT, ZhangY et al.: Gene expression profiles and molecular markers to predict recurrence of Dukes’ B colon cancer. J. Clin. Oncol.22, 1564–1571 (2004).
  • Bustin SA , MuellerR: Real-time reverse transcription PCR (qRT-PCR) and its potential use in clinical diagnosis.Clin. Sci. (Lond.)109, 365–379 (2005).
  • Bustin SA , MuellerR: Real-time reverse transcription PCR and the detection of occult disease in colorectal cancer.Mol. Aspects Med.27, 192–223 (2006).
  • Hayashi N , ItoI, YanagisawaA et al.: Genetic diagnosis of lymph-node metastasis in colorectal cancer. Lancet345, 1257–1259 (1995).
  • Clarke GA , RyanE, CroweJP, O’KeaneJC, MacMathunaP: Tumor-derived mutated K-ras codon 12 expression in regional lymph nodes of stage II colorectal cancer patients is not associated with increased risk of cancer-related death.Int. J. Colorectal Dis.16, 108–111 (2001).
  • Anker P , LefortF, VasioukhinV et al.: K-ras mutations are found in DNA extracted from the plasma of patients with colorectal cancer. Gastroenterology112, 1114–1120 (1997).
  • Lecomte T , BergerA, ZinzindohoueF et al.: Detection of free-circulating tumor-associated DNA in plasma of colorectal cancer patients and its association with prognosis. Int. J. Cancer100, 542–548 (2002).
  • Ng EK , TsuiNB, LamNY et al.: Presence of filterable and nonfilterable mRNA in the plasma of cancer patients and healthy individuals. Clin. Chem.48, 1212–1217 (2002).
  • Bustin SA , GyselmanVG, WilliamsNS, DorudiS: Detection of cytokeratins 19/20 and guanylyl cyclase C in peripheral blood of colorectal cancer patients.Br. J. Cancer79, 1813–1820 (1999).
  • Wyld DK , SelbyP, PerrenTJ et al.: Detection of colorectal cancer cells in peripheral blood by reverse-transcriptase polymerase chain reaction for cytokeratin 20. Int. J. Cancer79, 288–293 (1998).
  • Champelovier P , MongelardF, Seigneurin D: CK20 gene expression: technical limits for the detection of circulating tumor cells. Anticancer Res.19, 2073–2078 (1999).
  • Wharton RQ , JonasSK, GloverC et al.: Increased detection of circulating tumor cells in the blood of colorectal carcinoma patients using two reverse transcription-PCR assays and multiple blood samples. Clin. Cancer Res.5, 4158–4163 (1999).
  • Bustin SA , GyselmanVG, SiddiqiS, Dorudi S: Cytokeratin 20 is not a tissue-specific marker for the detection of malignant epithelial cells in the blood of colorectal cancer patients.Int. J. Surg. Invest.2, 49–57 (2000).
  • Bustin SA , SiddiqiS, AhmedS, HandsR, DorudiS: Quantification of cytokeratin 20, carcinoembryonic antigen and guanylyl cyclase C mRNA levels in lymph nodes may not predict treatment failure in colorectal cancer patients.Int. J. Cancer108, 412–417 (2004).
  • Oberg AN , LindmarkGE, IsraelssonAC, HammarstromSG, HammarstromML: Detection of occult tumor cells in lymph nodes of colorectal cancer patients using real-time quantitative RT-PCR for CEA and CK20 mRNAs.Int. J. Cancer111, 101–110 (2004).
  • Keilholz U , WillhauckM, RimoldiD et al.: Reliability of reverse transcription-polymerase chain reaction (RT-PCR)- based assays for the detection of circulating tumor cells: a quality-assurance initiative of the EORTC Melanoma Cooperative Group. Eur. J. Cancer34, 750–753 (1998).
  • Lacroix J , DoeberitzMK: Technical aspects of minimal residual disease detection in carcinoma patients.Semin. Surg. Oncol.20, 252–264 (2001).
  • Heid CA , StevensJ, LivakKJ, WilliamsPM: Real time quantitative PCR.Genome Res.6, 986–994 (1996).
  • Bustin SA : Absolute quantification of mRNA using real-time reverse transcription polymerase chain reaction assays.J. Mol. Endocrinol.25, 169–193 (2000).
  • Bustin SA , NolanT: Pitfalls of quantitative real-time reverse-transcription polymerase chain reaction.J. Biomol. Tech.15, 155–166 (2004).
  • Bustin SA : Quantification of mRNA using real-time reverse transcription PCR (RT-PCR): trends and problems.J. Mol. Endocrinol.29, 23–39 (2002).
  • Muller MC , HordtT, PaschkaP et al.: Standardization of preanalytical factors for minimal residual disease analysis in chronic myelogenous leukemia. Acta Haematol.112, 30–33 (2004).
  • Bustin SA : A-Z of quantitative PCR. IUL Press, La Jolla, CA, USA (2004).
  • Afzal MA , OsterhausAD, CosbySL et al.: Comparative evaluation of measles virus-specific RT-PCR methods through an international collaborative study. J. Med. Virol.70, 171–176 (2003).
  • Niesters HG : Quantitation of viral load using real-time amplification techniques.Methods25, 419–429 (2001).
  • Gabert J , BeillardE, van der Velden VH et al.: Standardization and quality control studies of ’real-time’ quantitative reverse transcriptase polymerase chain reaction of fusion gene transcripts for residual disease detection in leukemia – a Europe Against Cancer program. Leukemia17, 2318–2357 (2003).
  • Niesters HG : Molecular and diagnostic clinical virology in real time.Clin. Microbiol. Infect.10, 5–11 (2004).
  • Bustin SA : Real-time, fluorescence-based quantitative PCR: a snapshot of current procedures and preferences.Expert Rev. Mol. Diagn.5, 493–498 (2005).
  • Ladanyi A , SoongR, TabitiK, MolnarB, TulassayZ: Quantitative reverse transcription-PCR comparison of tumor cell enrichment methods.Clin. Chem.47, 1860–1863 (2001).
  • Vlems F , SoongR, DiepstraH et al.: Effect of blood sample handling and reverse transcriptase-polymerase chain reaction assay sensitivity on detection of CK20 expression in healthy donor blood. Diagn. Mol. Pathol.11, 90–97 (2002).
  • Max N , WillhauckM, WolfK et al.: Reliability of PCR-based detection of occult tumor cells: lessons from real-time RT-PCR. Melanoma Res.11, 371–378 (2001).
  • Zippelius A , LutterbuseR, RiethmullerG, PantelK: Analytical variables of reverse transcription-polymerase chain reaction-based detection of disseminated prostate cancer cells.Clin. Cancer Res.6, 2741–2750 (2000).
  • Vlems FA , DiepstraJH, CornelissenIM et al.: Limitations of cytokeratin 20 RT-PCR to detect disseminated tumor cells in blood and bone marrow of patients with colorectal cancer: expression in controls and downregulation in tumor tissue. Mol. Pathol.55, 156–163 (2002).
  • Raggi CC , VerderioP, PazzagliM et al.: An Italian program of external quality control for quantitative assays based on real-time PCR with Taq-Man probes. Clin. Chem. Lab. Med.43, 542–548 (2005).
  • Willey JC , CrawfordEL, JacksonCM et al.: Expression measurement of many genes simultaneously by quantitative RT-PCR using standardized mixtures of competitive templates. Am. J. Respir. Cell Mol. Biol.19, 6–17 (1998).
  • Crawford EL , WarnerKA, KhuderSA, ZahorchakRJ, WilleyJC: Multiplex standardized RT-PCR for expression analysis of many genes in small samples.Biochem. Biophys. Res. Commun.293, 509–516 (2002).
  • Willey JC , CrawfordEL, KnightCR et al.: Standardized RT-PCR and the standardized expression measurement center. Methods Mol. Biol.258, 13–41 (2004).
  • Willey JC , KnightCR, CrawfordEL et al.: Use of standardized reverse transcription-polymerase chain reaction and the standardized expression measurement center in multi-institutional trials to develop meaningful lung cancer classification based on molecular genetic criteria. Chest125, 155S–156S (2004).
  • Pagliarulo V , GeorgeB, BeilSJ et al.: Sensitivity and reproducibility of standardized-competitive RT-PCR for transcript quantification and its comparison with real time RT-PCR. Mol. Cancer3, 5 (2004).
  • Sanchez JA , PierceKE, RiceJE, WanghLJ: Linear-after-the-exponential (LATE)-PCR: an advanced method of asymmetric PCR and its uses in quantitative real-time analysis.Proc. Natl Acad. Sci. USA101, 1933–1938 (2004).
  • Hartshorn C , AnshelevichA, WanghLJ: Rapid, single-tube method for quantitative preparation and analysis of RNA and DNA in samples as small as one cell.BMC Biotechnol.5, 2 (2005).
  • Zetter BR : The cellular basis of site-specific tumor metastasis.N. Engl. J. Med.322, 605–612 (1990).
  • Ramaswamy S , GolubTR: DNA microarrays in clinical oncology.J. Clin. Oncol.20, 1932–1941 (2002).
  • Shih W , ChettyR, TsaoMS: Expression profiling by microarrays in colorectal cancer.Oncol. Rep.13, 517–524 (2005).
  • Alon U , BarkaiN, NottermanDA et al.: Broad patterns of gene expression revealed by clustering analysis of tumor and normal colon tissues probed by oligonucleotide arrays. Proc. Natl Acad. Sci. USA96, 6745–6750 (1999).
  • Notterman DA , AlonU, SierkAJ, Levine AJ: Transcriptional gene expression profiles of colorectal adenoma, adenocarcinoma, and normal tissue examined by oligonucleotide arrays. Cancer Res.61, 3124–3130 (2001).
  • Lin YM , FurukawaY, TsunodaT et al.: Molecular diagnosis of colorectal tumors by expression profiles of 50 genes expressed differentially in adenomas and carcinomas. Oncogene21, 4120–4128 (2002).
  • Hegde P , QiR, GaspardR et al.: Identification of tumor markers in models of human colorectal cancer using a 19,200-element complementary DNA microarray. Cancer Res.61, 7792–7797 (2001).
  • Kwon HC , KimSH, RohMS et al.: Gene expression profiling in lymph node-positive and lymph node-negative colorectal cancer. Dis Colon Rectum47, 141–152 (2004).
  • Yanagawa R , FurukawaY, TsunodaT et al.: Genome-wide screening of genes showing altered expression in liver metastases of human colorectal cancers by cDNA microarray. Neoplasia3, 395–401 (2001).
  • Bertucci F , SalasS, EysteriesS et al.: Gene expression profiling of colon cancer by DNA microarrays and correlation with histoclinical parameters. Oncogene23, 1377–1391 (2004).
  • Eschrich S , YangI, BloomG et al.: Molecular staging for survival prediction of colorectal cancer patients. J. Clin. Oncol.23, 3526–3535 (2005).
  • Arango D , LaihoP, KokkoA et al.: Gene-expression profiling predicts recurrence in Dukes’ C colorectal cancer. Gastroenterology129, 874–884 (2005).
  • Bustin SA , DorudiS: The value of microarray techniques for quantitative gene profiling in molecular diagnostics.Trends Mol. Med.8, 269–272 (2002).
  • Hoos A , NissanA, StojadinovicA et al.: Tissue microarray molecular profiling of early, node-negative adenocarcinoma of the rectum: a comprehensive analysis. Clin Cancer Res.8, 3841–3849 (2002).
  • Choi JK , ChoiJY, KimDG et al.: Integrative analysis of multiple gene expression profiles applied to liver cancer study. FEBS Lett.565, 93–100 (2004).
  • Hosack DA , DennisG Jr, Sherman BT, Lane HC, Lempicki RA: Identifying biological themes within lists of genes with EASE. Genome Biol.4, R70 (2003).
  • Choi JK , YuU, YooOJ, KimS: Differential coexpression analysis using microarray data and its application to human cancer.Bioinformatics21, 4348–4355 (2005).
  • Hunter K : Host genetics influence tumor metastasis.Nature Rev. Cancer6, 141–146 (2006).
  • Boedefeld WM 2nd, Bland KI, Heslin MJ: Recent insights into angiogenesis, apoptosis, invasion, and metastasis in colorectal carcinoma. Ann. Surg. Oncol.10, 839–851 (2003).
  • Al-Mulla F , KeithWN, PickfordIR, Going JJ, Birnie GD: Comparative genomic hybridization analysis of primary colorectal carcinomas and their synchronous metastases. Genes Chromosomes Cancer24, 306–314 (1999).
  • Baisse B , BouzoureneH, SaragaEP, BosmanFT, BenhattarJ: Intratumor genetic heterogeneity in advanced human colorectal adenocarcinoma.Int. J. Cancer93, 346–352 (2001).
  • Losi L , BaisseB, BouzoureneH, Benhattar J: Evolution of intratumoral genetic heterogeneity during colorectal cancer progression. Carcinogenesis26, 916–922 (2005).
  • Kitahara O , FurukawaY, TanakaT et al.: Alterations of gene expression during colorectal carcinogenesis revealed by cDNA microarrays after laser-capture microdissection of tumor tissues and normal epithelia. Cancer Res.61, 3544–3549 (2001).
  • Hendrix MJ , SeftorEA, MeltzerPS et al.: Expression and functional significance of VE-cadherin in aggressive human melanoma cells: role in vasculogenic mimicry. Proc. Natl Acad. Sci. USA98, 8018–8023 (2001).
  • Koukourakis MI , GiatromanolakiA, Harris AL, Sivridis E: Comparison of metabolic pathways between cancer cells and stromal cells in colorectal carcinomas: a metabolic survival role for tumor-associated stroma. Cancer Res.66, 632–637 (2006).
  • Joyce JA : Therapeutic targeting of the tumor microenvironment.Cancer Cell7, 513–520 (2005).

Reprints and Corporate Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

To request a reprint or corporate permissions for this article, please click on the relevant link below:

Academic Permissions

Please note: Selecting permissions does not provide access to the full text of the article, please see our help page How do I view content?

Obtain permissions instantly via Rightslink by clicking on the button below:

If you are unable to obtain permissions via Rightslink, please complete and submit this Permissions form. For more information, please visit our Permissions help page.