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| Status |
Public on Jun 30, 2023 |
| Title |
Genome-wide methylation analysis of human breast cancer subtype group (Luminal A, Luminal B, HER2+ and TNBC) |
| Organism |
Homo sapiens |
| Experiment type |
Methylation profiling by high throughput sequencing
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| Summary |
To identify Differentially methylated regions (DMRs) in TNBCs, we performed methyl binding domain protein 2 enrichment of DNA followed by massively parallel sequencing (MBD-seq) using 10 breast tumors and 10 matched normal samples for each of the four subtypes (LumA, LumB, HER2, and TNBC), classified according to ER, PR, and HER2 expression. ~~. 468 genes were significantly hypomethylated and 353 genes were significantly hypermethylated in promoter and CDS regions in only TNBC.
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| Overall design |
The sonicated genomic DNA was immunoprecipitated with human MBD2 protein. Next, MBD2-enriched DNA for each breast cancer subtype was used to construct DNA libraries according to the Illumina protocol.
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| Contributor(s) |
Park JH, Kim YS, Chung W, Kong HK |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Jul 10, 2018 |
| Last update date |
Jun 30, 2023 |
| Contact name |
Jong Hoon Park |
| E-mail(s) |
parkjh@sm.ac.kr
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| Phone |
822-710-9414
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| Organization name |
Sookmyung Women's university
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| Lab |
Molecular Medicine Lab
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| Street address |
Cheongpa-ro 47-gil 100, Yongsan-gu,
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| City |
Seoul |
| ZIP/Postal code |
04310 |
| Country |
South Korea |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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| Samples (20)
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| Relations |
| BioProject |
PRJNA480639 |
| SRA |
SRP153039 |
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