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| Status |
Public on Oct 18, 2016 |
| Title |
Methylation dataset of multi regional colorectal carcinoma. |
| Organism |
Homo sapiens |
| Experiment type |
Methylation profiling by genome tiling array
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| Summary |
Understanding intratumor heterogeneity is clinically important because it could cause therapeutic failure by fostering evolutionary adaptation. To this end, we profiled the genome and epigenome in multiple regions within each of eight colorectal tumors. Extensive intertumor heterogeneity is observed, from which we inferred the evolutionary history of the tumors. First, clonally shared alterations appeared, in which C>T transitions at CpG site and CpG island hypermethylation were relatively enriched. Correlation between mutation counts and patients’ ages suggests that the early-acquired alterations resulted from aging. In the late phase, a parental clone was branched into numerous subclones. Known driver alterations were observed frequently in the early-acquired alterations, but rarely in the late-acquired alterations. Consistently, our computational simulation of the branching evolution suggests that extensive intratumor heterogeneity could be generated by neutral evolution. Collectively, we propose a new model of colorectal cancer evolution, which is useful for understanding and confronting this heterogeneous disease.
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| Overall design |
We isolated genomic DNA from geographically separated samples of eight series of colorectal carcinoma and matched normal mucosa to bisulphite and hybridise to the llumina HumanMethylation450 BeadChip
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| Contributor(s) |
Uchi R, Takahashi Y, Niida A, Shimamura T, Hirata H, Sugimachi K, Sawada G, Iwaya T, Kurashige J, Shinden Y, Iguchi T, Eguchi H, Chiba K, Shiraishi Y, Nagae G, Yoshida K, Nagata Y, Haeno H, Yamamoto H, Ishii H, Doki Y, Iinuma H, Sasaki S, Nagayama S, Yamada K, Yachida S, Kato M, Shibata T, Oki E, Saeki H, Shirabe K, Oda Y, Maehara Y, Komune S, Mori M, Suzuki Y, Yamamoto K, Aburatani H, Ogawa S, Miyano S, Mimori K |
| Citation(s) |
28542232 |
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| Submission date |
Oct 17, 2016 |
| Last update date |
Sep 02, 2019 |
| Contact name |
RYUTARO UCHI |
| Organization name |
KYUSHUUNIVERSItY
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| Street address |
MAIDASHI3-1-1
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| City |
FUKUOKA |
| State/province |
FUKUOKA |
| ZIP/Postal code |
812-8582 |
| Country |
Japan |
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| Platforms (1) |
| GPL13534 |
Illumina HumanMethylation450 BeadChip (HumanMethylation450_15017482) |
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| Samples (75)
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| This SubSeries is part of SuperSeries: |
| GSE90709 |
Methylation, expression, and SNP data of multi regional colorectal carcinoma |
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| Relations |
| BioProject |
PRJNA348738 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE88821_RAW.tar |
183.1 Mb |
(http)(custom) |
TAR |
| Processed data included within Sample table |
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