CCGD-ESCC

Chinese Cancer Genomic Database-Esophageal Squamous-Cell Carcinoma

Somatic Mutation: SNVs/indels Associated with ESCC Patients’ Survival

675 ESCC patients with survival information

Genes mutated in more than 1% of all samples

Survival log-rank test in each study, respectively, and in the combined samples

675 samples and 2,203 genes on autosomes

Mutational landscape of somatic
alterations in 704 ESCC samples

662 genes with P < 0.05

Study	Sequencing platform	Somatic mutation calling tools	Samples analyzed
Chang J, et al. (PMID: 28548104), 2017	WGS: Illumina HiSeq X Ten System	Strelka	94
Cancer Genome Atlas Research. (PMID: 28052061), 2017	WES: Illumina HiSeq 2000	MuTect, indel locator; RADIA; Strelka; Samtools1, Strelka3, VarScan4, GATK5, Pindel6	90
Qin HD, et al. (PMID: 27058444), 2016	WGS & WES: Illumina HiSeq 2000	VarScan 2	66
Sawada G, et al. (PMID: 26873401), 2016	WES: Illumina HiSeq 2000	Genomon-exome	144
Zhang L, et al. (PMID: 25839328), 2015	WGS & WES: Illumina HiSeq 2000	SAMtools and VarScan 2.2.5	80
Gao YB, et al. (PMID: 25151357), 2014	WES: Illumina HiSeq 2000	CASAVA 1.7	113
Song Y, et al. (PMID: 24670651), 2014	WGS & WES: Illumina HiSeq 2000	VarScan 2.2.5 and GATK SomaticIndelDetector	88
Combined			675

WGS: whole-genome sequencing; WES: whole-exome sequencing.

Chang J, et al. (2017). Genomic analysis of esophageal squamous-cell carcinoma identifies alcohol drinking-related mutation signature and genomic alterations. Nat Commun. 8, 15290. PMID: 28548104.
Cancer Genome Atlas Research. (2017). Integrated genomic characterization of oesophageal carcinoma. Nature. 541(7636):169-175. PMID: 28052061.
Qin HD, et al. (2016). Genomic characterization of esophageal squamous cell carcinoma reveals critical genes underlying tumorigenesis and poor prognosis. Am J Hum Genet. 98(4):709-27. PMID: 27058444.
Sawada G, et al. (2016). Genomic landscape of esophageal squamous cell carcinoma in a Japanese population. Gastroenterology. 150(5):1171-82. PMID: 26873401.
Zhang L, et al. (2015). Genomic analyses reveal mutational signatures and frequently altered genes in esophageal squamous cell carcinoma. Am J Hum Genet. 96(4):597-611. PMID: 25839328.
Gao YB, et al. (2014). Genetic landscape of esophageal squamous cell carcinoma. Nat Genet. 46(10):1097-102. PMID: 25151357.
Song Y, et al. (2014). Identification of genomic alterations in oesophageal squamous cell cancer. Nature. 509(7498):91-5. PMID: 24670651.