Gene methylation profiles of normal mucosa, and benign and malignant colorectal tumors identify early onset markers

doi:10.1186/1476-4598-7-94

Molecular Cancer

Volume 7

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Ahlquist T
Lind GE
Costa VL
Meling GI
Vatn M
Hoff GS
Rognum TO
Skotheim RI
Thiis-Evensen E
Lothe RA

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Ahlquist T
Lind GE
Costa VL
Meling GI
Vatn M
Hoff GS
Rognum TO
Skotheim RI
Thiis-Evensen E
Lothe RA
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Gene methylation profiles of normal mucosa, and benign and malignant colorectal tumors identify early onset markers

Terje Ahlquist¹^,2 , Guro E Lind¹^,2 , Vera L Costa¹^,3 , Gunn I Meling⁴^,5^,9 , Morten Vatn⁵^,6 , Geir S Hoff⁷ , Torleiv O Rognum⁴^,5 , Rolf I Skotheim¹^,2 , Espen Thiis-Evensen⁶ and Ragnhild A Lothe¹^,2^,8

¹Department of Cancer Prevention, Institute for Cancer Research, Norwegian Radium Hospital, Rikshospitalet University Hospital, Oslo, Norway

²Centre for Cancer Biomedicine, University of Oslo, Norway

³Department of Genetics, Portuguese Oncology Institute, Porto, Portugal

⁴Institute of Forensic Medicine, Rikshospitalet Medical Centre, University of Oslo, Oslo, Norway

⁵Faculty of Medicine, University of Oslo, Norway

⁶Medical Department, Rikshospitalet Medical Centre, Oslo, Norway

⁷Department of Medicine, Division of Gastroenterology, Telemark Hospital, Skien, Norway

⁸Department of Molecular Biosciences, University of Oslo, Oslo, Norway

⁹Surgical Department, Faculty Division Akershus University Hospital, University of Oslo, Oslo, Norway

author email corresponding author email

Molecular Cancer 2008, 7:94doi:10.1186/1476-4598-7-94


Published:	31 December 2008

Additional files

Additional file 1:

Supplementary information. Methodological details which are not crucial for the understanding of the work, as well as Additional figure legends.

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Additional file 2:

Titration of methylated DNA template illustrates the scoring thresholds for the methylation-specific polymerase chain reaction. Determination of scoring thresholds is visualized by a titration series of the RUNX3 gene.

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Additional file 3:

PCR primers used for methylation-specific PCR and microsatellite instability analyses. Information on primers and PCR details.

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Additional file 4:

Genetic and epigenetic raw data. Raw data from all analyses are listed for each tumor included.

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Additional file 5:

Summarized methylation raw data. Methylation frequencies are presented for each of the eleven analyzed genes in the 4 different sample types according to what methylation level they exhibited (strong, weak or no methylation).

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Additional file 6:

Comparison between MSP and quantitative MSP in normal mucosa samples. Hypermethylation of was analyzed with both non-quantitative- and quantitative MSP. Here the results from each method are presented.

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Additional file 7:

Correlation between methylated genes. A correlation table including all analyzed for promoter hypermethylation shown that genes commonly methylated in MSI tumors are highly correlated.

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Additional file 8:

Widespread methylation among normal colorectal samples, adenomas, and carcinomas. A histogram showing the total number of methylated genes per sample in non-cancerous normal mucosa, normal mucosa taken in distance from a primary tumor, adenomas, and carcinomas stratified according to MSI status.

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