Copied to clipboard!

Validation of cfDNA fragmentome analyses for early detection of liver cancer

Type: Cancer Genomics
Archiver: European Genome-phenome Archive (EGA)

2 Datasets 1 Publication

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD00001015538	The dataset for “Validation of cfDNA fragmentome analyses for early detection of liver cancer” includes 380 cram files from whole genome next-generation sequencing on the Illumina NovaSeq 6000 with 10x coverage. The samples analyzed include plasma samples from patients with cancer and liver disease.	Illumina NovaSeq 6000	380
EGAD00001015823	The dataset includes 63 BAM files from Oxford Nanopore PromethION whole-genome sequencing, generated by base calling POD5 files with Dorado (super-accurate, modified base model v5.0.0_5mCG_5hmCG@v3) and aligning reads to the hg19 reference genome.	PromethION	4

Publications	Citations
Cell-free DNA fragmentomes for noninvasive detection of liver cirrhosis and other diseases. Annapragada AV, Foda ZH, Orjuela H, Norton C, Koul S, Niknafs N, Short S, Boyapati K, Bartolomucci A, Mathios D, Noë M, Cherry C, Carey J, Leal A, Chesnick B, Dracopoli NC, Medina JE, Vulpescu NA, Bruhm DC, Bacus S, Adleff V, Kim AK, Baylin SB, Kirk GD, Sorop A, Iacob R, Iacob S, Gheorghe L, Dima S, Ramírez-Zea M, McGlynn KA, Feltoft CL, Johansen JS, Groopman J, Phallen J, Scharpf RB, Velculescu VE. Sci Transl Med 18: 2026 eadw2603	0

Publications

Citations

Cell-free DNA fragmentomes for noninvasive detection of liver cirrhosis and other diseases.
Annapragada AV, Foda ZH, Orjuela H, Norton C, Koul S, Niknafs N, Short S, Boyapati K, Bartolomucci A, Mathios D, Noë M, Cherry C, Carey J, Leal A, Chesnick B, Dracopoli NC, Medina JE, Vulpescu NA, Bruhm DC, Bacus S, Adleff V, Kim AK, Baylin SB, Kirk GD, Sorop A, Iacob R, Iacob S, Gheorghe L, Dima S, Ramírez-Zea M, McGlynn KA, Feltoft CL, Johansen JS, Groopman J, Phallen J, Scharpf RB, Velculescu VE. Sci Transl Med 18: 2026 eadw2603