Novel genetic and epigenetic alterations in ... - Ous-research.no
Novel genetic and epigenetic alterations in ... - Ous-research.no Novel genetic and epigenetic alterations in ... - Ous-research.no
Future PerspectivesMolecular risk assessmentIn addition to our protocol for identification of novel methylation markers, an ongoingproject is designed to allow for detection of markers rarely found in polyps but frequent incancer and as such may be used in risk assessment. A parallel study will analyze some of thenewly suggested biomarkers (including MAL) in a new clinical series obtained throughcollaboration with Stavanger University Hospital, including ~200 colorectal tumors and anaverage of 4 lymph nodes from each patient in order to examine the presence of thesebiomarkers in the lymph nodes. The aim of the study is to identify a subgroup of stage IIpatients with molecular evidence of lymph node metastases missed by conventionaldiagnostics. These will be designated high-risk stage II patients and are likely to benefit fromadjuvant chemotherapy.Quantitative and qualitative transcriptomics.The tumor transcriptome from patients in two prospective series from different time periodsare under analyses using in-lab Affymetrix Exon microarrays. The purpose is to compare thegene signatures of stage II and III colorectal carcinomas from a series collected during 1987-89 (n = 100), a period where no CRC patients received adjuvant chemotherapy, with thevalidation series from 1997-2003 (n = 100) in which stage III patients and some stage IIreceived adjuvant chemotherapy. The two groups of each series are stratified according toknown good or poor disease outcome. With this study design ethical issues regarding thedifferent use of treatment arms are avoided, and potentially we may identify those that willbenefit from surgery alone as well as those that will benefit from adjuvant treatment. Theexon arrays will also provide data for structural changes within individual genes, which maybe due to splice variants or fusion genes. Such changes may be cancer specific and incombination with epigenetic markers these may be used for cancer risk assessment after theinitial early tumor detection.The dynamic genetics and epigenetics of large bowel tumorigenesis.The challenge in analyses of large datasets obtained through high throughput technologies iseven more evident when integrating the various sets. However, such large data sets exist andmore will come. The biological value of the pinpointed genes and the transfer to clinicalapplications will depend on the quality of the study design, including the clinical sampling66
Future Perspectivesand follow up. Combining the molecular results with more detailed biology will improve ourunderstanding of the dynamics in genome stability during the development of a malignancyfrom a precursor lesion in the large bowel. The necessity of parallel functional studies can beexemplified by the last study of this thesis in which a marker is found associated with goodprognosis and currently we do not know why.67
- Page 16 and 17: Introductionmethylation during embr
- Page 18 and 19: IntroductionDNA is most of the time
- Page 20 and 21: IntroductionFigure 5. DNA methylati
- Page 22 and 23: IntroductionFigure 6. Incidence rat
- Page 24 and 25: IntroductionFigure 8. Tumor staging
- Page 26 and 27: Introductioninasmuch as 80% of colo
- Page 28 and 29: IntroductionInstabilities involved
- Page 30 and 31: Introductionthere seems to be a fid
- Page 32 and 33: Introductionsevere alterations are
- Page 34 and 35: Introductionpopulation-wide screeni
- Page 36 and 37: IntroductionFigure 12. Present and
- Page 38 and 39: RESULTS IN BRIEFPaper Ia. “DNA hy
- Page 40 and 41: Results in Briefinstability, and se
- Page 42 and 43: Results in BriefUnivariate survival
- Page 44 and 45: Discussionseveral factors, and full
- Page 46 and 47: Discussionlow threshold, we increas
- Page 48 and 49: DiscussionIt may seem like unnecess
- Page 50 and 51: Discussionthan 96% DHPLC do not sta
- Page 52 and 53: DiscussionFigure 13. Mutation detec
- Page 54 and 55: DiscussionClinical impact of molecu
- Page 56 and 57: Discussionmarkers with a very high
- Page 58 and 59: Discussionchromosomes in metaphase[
- Page 60 and 61: DiscussionThese examples underline
- Page 62 and 63: Discussiongenes. One is based on mu
- Page 64 and 65: CONCLUSIONSWe have identified novel
- Page 68 and 69: REFERENCES1. Breasted J (1930) The
- Page 70 and 71: References29. Deng G, Chen A, Pong
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- Page 74 and 75: References84. Kunkel TA (1993) Nucl
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- Page 82 and 83: ReferencesT, Song X, Day RH, Sledzi
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- Page 86 and 87: ORIGINAL ARTICLESAPPENDIXAppendix I
- Page 89 and 90: GASTROENTEROLOGY 2007;132:1631-1639
- Page 91: Paper IbGuro E Lind, Terje Ahlquist
- Page 94 and 95: Journal of Translational Medicine 2
- Page 96 and 97: Journal of Translational Medicine 2
- Page 98 and 99: Journal of Translational Medicine 2
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- Page 102 and 103: Journal of Translational Medicine 2
- Page 105: Paper IITerje Ahlquist, Guro E Lind
- Page 108 and 109: BackgroundMost cases of colorectal
- Page 110 and 111: ADAMTS1 CDKN2A CRABP1 HOXA9 MAL MGM
- Page 112 and 113: pseudogene, leading to a high rate
- Page 114 and 115: strands. Proc Natl Acad Sci U S A 1
Future Perspectives<strong>and</strong> follow up. Comb<strong>in</strong><strong>in</strong>g the molecular results with more detailed biology will improve ourunderst<strong>and</strong><strong>in</strong>g of the dynamics <strong>in</strong> ge<strong>no</strong>me stability dur<strong>in</strong>g the development of a malignancyfrom a precursor lesion <strong>in</strong> the large bowel. The necessity of parallel functional studies can beexemplified by the last study of this thesis <strong>in</strong> which a marker is found associated with goodprog<strong>no</strong>sis <strong>and</strong> currently we do <strong>no</strong>t k<strong>no</strong>w why.67