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| Status |
Public on Feb 09, 2017 |
| Title |
High throughput bisulfite sequencing of the MLH1 promoter in human hematiopoietic progenitor cell clones |
| Organism |
Homo sapiens |
| Experiment type |
Methylation profiling by high throughput sequencing
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| Summary |
Using single molecule ultra-deep bisulfite sequencing we characterized the CpG methylation landscape from –938 to –337 bp upstream of the MLH1 transcriptional start site position 0, from 30 hematopoietic colony forming cell clones (CFC) either expressing or not expressing MLH1. We identify a correlation between MLH1 promoter methylation and loss of MLH1 expression. Additionally, using the CpG site methylation frequencies obtained in this study we are able to generate a classification algorithm capable of sorting the expressing and non-expressing CFC. Thus, as previously described for many tumor cell types, MLH1 promoter methylation in hematopoietic stem cell clones correlates with the loss of MLH1 expression, a critically important gene in the mismatch repair pathway.
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| Overall design |
Examination of CpG methylation landscape upstream of the MLH1 transcriptional start site in human hematiopoietic progenitor cell clones
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| Contributor(s) |
Kenyon JD, Nickel G, Qing Y, Santos-Guasch G, Drake E, Fu P, Sun S, Bai X, Wald D, Arts E, Gerson SL |
| Citation(s) |
27570841 |
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| Submission date |
Oct 08, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Jonathan D Kenyon |
| Organization name |
Case Western Reserve University
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| Department |
Pathology
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| Lab |
2-104 WRB
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| Street address |
2103 Cornell
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| City |
Cleveland |
| State/province |
OH |
| ZIP/Postal code |
44106 |
| Country |
USA |
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| Platforms (1) |
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| Samples (39)
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| Relations |
| BioProject |
PRJNA298249 |
| SRA |
SRP064627 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE73868_RAW.tar |
12.5 Mb |
(http)(custom) |
TAR (of CSV, TAB) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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