Supplementary Table S5 from Nucleosome Patterns in Circulating Tumor DNA Reveal Transcriptional Regulation of Advanced Prostate Cancer Phenotypes

Unsupervised model predictions and patient/validation cohort sequencing metrics
Sheet 1: DFCI Cohort I: Tumor phenotype by histology and estimates of tumor fraction, subtyping score, and inferred subtype calls using ctdPheno.
Sheet 2: DFCI cohort I: Tumor phenotype by histology and estimates of tumor fraction, subtyping score, and inferred phenotypic subtype calls using different ATAC-seq site restricted analysis using ctdPheno.
Sheet 3: DFCI cohort I: Tumor phenotype by histology and estimates of tumor fraction, subtyping score, and inferred phenotypic subtype calls using different ATAC-seq site restricted analysis using Keraon.
Sheet 4: DFCI Cohort II: Tumor phenotype by histology, summary of clinical correlatives and estimates of tumor fraction, subtyping score, and inferred subtype calls using ctdPheno.
Sheet 5: Histology, tumor fraction, subtype score, NEPC fraction, and subtype calls for WGS and ULP patient samples (UW cohort).
Sheet 6: Complete sequencing metrics for DFCI cohort I.
Sheet 7: Complete sequencing metrics for DFCI cohort II (ULP).
Sheet 8: Complete sequencing metrics for DFCI cohort II (deep WGS)
Sheet 9: Complete sequencing metrics and ichorCNA estimated tumor fractions for the UW cohort (ULP).
Sheet 10: Complete sequencing metrics for the UW cohort (deep WGS)
Sheet 11: Complete sequencing metrics for the healthy donor cohort.
Sheet 12: Clinical data summary for UW cohort.