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| Status |
Public on Nov 23, 2009 |
| Title |
DNA methylation in infant ALL |
| Organism |
Homo sapiens |
| Experiment type |
Methylation profiling by genome tiling array
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| Summary |
The aggressive MLL-rearranged leukemias are well-known for their unique gene-expression profiles. The goal of this study was to characterize the MLL-specific DNA methylation profiles in infant acute lymphoblastic leukemia (ALL). Genome-wide DNA methylation profiling was performed on primary infant ALL samples. The majority of infant ALL samples demonstrated severe DNA hypermethylation compared with normal pediatric bone marrows, which implies that targeting of DNA methylation may be an interesting option for future therapeutic strategies in MLL-rearranged infant ALL.
Using ALL cell lines carrying the MLL translocation t(4;11) (SEMK2 and RS4;11) as a model for the patient cells, we demonstrated that the hypermethylated genes are sensitive to demethylation.
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| Overall design |
DNA methylation profiling was performed on t(4;11)-positive (n=16), t(11;19)-positive (n=15), t(9;11)-positive (n=6) and untranslocated (n=12) infant ALL samples compared with whole normal bone marrow samples (n=7). Cell lines SEMK2 and RS4;11 were profiled with and without the demethylating agent zebularine.
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| Contributor(s) |
Stumpel DJ, Stam RW, Schneider P |
| Citation(s) |
19855078, 21116279 |
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| Submission date |
Oct 02, 2009 |
| Last update date |
Dec 06, 2012 |
| Contact name |
Dominique Stumpel |
| Organization name |
Erasmus MC _ Sophia Children's Hospital
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| Department |
Pediatric Oncology/ Hematology
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| Lab |
Pediatric Oncology/ Hematology
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| Street address |
Dr. Molewaterplein 50-room Ee15-14
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| City |
Rotterdam |
| ZIP/Postal code |
3061KS |
| Country |
Netherlands |
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| Platforms (1) |
| GPL4126 |
Agilent-014791 Human CpG Island ChIP-on-Chip Microarray 244K (G4492A) (Feature Number version) |
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| Samples (60)
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| GSM458843 |
MLL-AF4 infant ALL, 597 |
| GSM458844 |
MLL-AF4 infant ALL, 601 |
| GSM458845 |
MLL-AF4 infant ALL, 640 |
| GSM458846 |
MLL-AF4 infant ALL, 641 |
| GSM458847 |
MLL-AF4 infant ALL, 546 |
| GSM458848 |
MLL-AF4 infant ALL, 592 |
| GSM458849 |
MLL-AF4 infant ALL, 603 |
| GSM458850 |
MLL-AF4 infant ALL, 472 |
| GSM458851 |
MLL-AF4 infant ALL, 679 |
| GSM458852 |
MLL-AF4 infant ALL, 604 |
| GSM458853 |
MLL-AF4 infant ALL, 473 |
| GSM458854 |
MLL-AF4 infant ALL, 606 |
| GSM458855 |
MLL-AF4 infant ALL, 495 |
| GSM458856 |
MLL-ENL infant ALL, 474 |
| GSM458857 |
MLL-ENL infant ALL, 608 |
| GSM458858 |
MLL-ENL infant ALL, 642 |
| GSM458859 |
MLL-ENL infant ALL, 681 |
| GSM458860 |
MLL-ENL infant ALL, 500 |
| GSM458861 |
MLL-ENL infant ALL, 609 |
| GSM458862 |
MLL-ENL infant ALL, 539 |
| GSM458863 |
MLL-ENL infant ALL, 650 |
| GSM458864 |
MLL-ENL infant ALL, 583 |
| GSM458865 |
MLL-ENL infant ALL, 540 |
| GSM458866 |
MLL-ENL infant ALL, 447 |
| GSM458867 |
MLL-ENL infant ALL, 475 |
| GSM458868 |
MLL-ENL infant ALL, 573 |
| GSM458869 |
MLL-ENL infant ALL, 632 |
| GSM458870 |
MLL-ENL infant ALL, 680 |
| GSM458871 |
MLL-AF9 infant ALL, 649 |
| GSM458872 |
MLL-AF9 infant ALL, 476 |
| GSM458873 |
MLL-AF9 infant ALL, 574 |
| GSM458874 |
MLL-AF9 infant ALL, 588 |
| GSM458875 |
MLL-AF9 infant ALL, 582 |
| GSM458876 |
MLL-AF9 infant ALL, 541 |
| GSM458877 |
Untranslocated infant ALL, 634 |
| GSM458878 |
Untranslocated infant ALL, 449 |
| GSM458879 |
Untranslocated infant ALL, 633 |
| GSM458880 |
Untranslocated infant ALL, 543 |
| GSM458881 |
Untranslocated infant ALL, 682 |
| GSM458882 |
Untranslocated infant ALL, 625 |
| GSM458883 |
Untranslocated infant ALL, 586 |
| GSM458884 |
Untranslocated infant ALL, 683 |
| GSM458885 |
Untranslocated infant ALL, 593 |
| GSM458886 |
Untranslocated infant ALL, 587 |
| GSM458887 |
Untranslocated infant ALL, 626 |
| GSM458888 |
Untranslocated infant ALL, 450 |
| GSM458889 |
Normal bone marrow, 656 |
| GSM458890 |
Normal bone marrow, 576 |
| GSM458891 |
Normal bone marrow, 584 |
| GSM458892 |
Normal bone marrow, 577 |
| GSM458893 |
Normal bone marrow, 585 |
| GSM458894 |
Normal bone marrow, 624 |
| GSM458895 |
Normal bone marrow, 629 |
| GSM458896 |
cell line RS4;11 |
| GSM458897 |
cell line RS4;11 with zebularine |
| GSM458898 |
cell line SEMK2 |
| GSM458899 |
cell line SEMK2 with zebularine |
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| Relations |
| BioProject |
PRJNA118091 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE18400_RAW.tar |
4.0 Gb |
(http)(custom) |
TAR (of TXT) |
| Processed data included within Sample table |
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