DIAMOND_Methyl_Haplo_table

methylationLevels.csv

Metadata by Klaus Von GRAFENSTEIN, Engineer

24/06/2024

Data from Michel, et al. « Non-Invasive Multi-Cancer Diagnosis Using DNA Hypomethylation of LINE-1 Retrotransposons ». Preprint. Oncology, 23 janvier 2024. doi:10.1101/2024.01.20.23288905

Generated with code : https://github.com/ProudhonLab/DIAMOND

Columns:

•     Sample_ID = Sample identifier composed of  : the sequencing dataset code, followed by "S" and the sample number inside the sequencing batch*
•     Cohorte = Cohort of the sample (Discovery or Validation)
•     Disease_status = Biological class of the sample
•    Metastasis_status = Factor of if the sample is from a metastatic patient or not (M+ or M0). NA when the sample is healthy plasma or Metastasis_status is unknown
•     Stage = Cancer stage of the sample ( 1 to 4 ). NA when the sample is healthy plasma or Stage is unknown
•     Age.range = Age between a 5-year range of the patient or donor
•     Sex = Sex of the patient or donor (F or M). NA when the sex is unknown
•     Haplotype proportions = columns with the name of the amplicon (1,2,4,5,6 or 7) and haplotype code (0 unmethylated, 1 methylated, for each CpG site of the amplicon). Value between 0 and 1
•     Methylation rate = columns with the name of the amplicon (1,2,4,5,6 or 7) and CpG site number. Value between 0 and 1