{"database":"ENA","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Fastqsanger.gz":["ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR280/009/SRR2809399/SRR2809399.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR280/000/SRR2809400/SRR2809400.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR280/002/SRR2809402/SRR2809402.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR280/001/SRR2809401/SRR2809401.fastq.gz"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"omics_type":["Genomics"],"center_name":["Jin Lab, Human Genetics, Emory University"],"full_dataset_link":["https://www.ebi.ac.uk/ena/browser/view/PRJNA299767"],"scientific_name":["Homo sapiens"],"long_description":["Medulloblastoma (MB) is the most common malignant brain tumor in children and most of its morbidity is caused by relapse or metastasis. Genome-wide 5-hydroxymethylcytosine (5hmC) decrease has been recognized as one of hallmarks for many malignant tumors. Here we show the dramatic decrease of 5hmC abundance in MB, but with wide variations (p<0.001). Genome-wide 5hmC profiling indicates the acquisition of 5hmC at the genomic loci involved in the Notch signaling pathway. Differentially hydroxymethylated genomic regions (DhMRs) in tumor tissues showed similar features with fetus, but not adult, suggesting that DhMRs in tumor prevent tumor from differentiation for normal brain development. By combining the 5hmC abundance and the postoperative survival of the patients, we found that the decrease of 5hmC could serve as a marker and unfavorable prognosis indicator of MB. These results indicate a potential important role of 5hmC in MB. Overall design: To understand the alteration of 5hmC in medulloblastoma, we determined the genome-wide 5hmC distribution in both tumor and normal samples by employing a previously established chemical labeling and affinity purification method coupled with high-throughput sequencing. Using the pipeline that we have established, we identified common differentially hydroxymethylated genomic regions (DhMRs) among tumor samples."],"repository":["ENA"],"additional_accession":[]},"is_claimable":false,"name":"Homo sapiens","description":"Genome-wide 5-hydroxymethylcytosine Alterations in Medulloblastoma","dates":{"last_updated":"2025-09-24","first_public":"2021-04-08"},"accession":"PRJNA299767","cross_references":{"GEO":["GSE74336"],"taxon":["9606"]}}