Supporting data for "Genomic analyses revealFAM84B and the NOTCH pathway are associated with the progression of esophageal squamous cell carcinoma".

Dataset type: Genomic, Imaging
Data released on December 31, 2015

Cheng C; Cui H; Zhang L; Jia Z; Song B; Wang F; Zhou Y; Li Y; Liu J; Wang J; Kong P; Shi R; Bi Y; Yang B; Wang J; Zhao Z; Zhang Y; Hu X; Yang J; He C; Zhao Z; Wang J; Xi Y; Xu E; Li G; Guo S; Chen Y; Yang X; Chen X; Liang J; Guo J; Li Y; Huanming Yang XZ; Cheng X; Wang J; Wang C; Zhan Q; Cui Y (2015): Supporting data for "Genomic analyses revealFAM84B and the NOTCH pathway are associated with the progression of esophageal squamous cell carcinoma". GigaScience Database. http://dx.doi.org/10.5524/100181

DOI10.5524/100181

Esophageal squamous cell carcinoma (ESCC) is the sixth most lethal cancer worldwide and the fourth most lethal cancer in China. Although copy number alterations and somaticpoint mutations associated with the development of ESCC have been identified by array-based technologies and genome-wide studies respectively. The genomic characterization of ESCC from different stages of the disease has not been explored and is likely to reveal additional oncogenic mechanisms. Here we have performed either whole-genome sequencing or whole-exome sequencing on 51 stage I and 53 stage III ESCC patients to characterize the genomic alterations that occur during the various clinical stages of ESCC, and further validated these changes in 36 atypical hyperplasia samples.
Due to the sensitive nature of this dataset it is being hosted in the secure restricted access database European Genome-Phenome Archive at the EBI. It has been assigned the accession number EGAD00001001487.
To gain access to this dataset you will need to apply for permission from the Shanxi Medical University and BGI Data Access Committee (DAC). There are two forms available to download from GigaDB FTP server (below), both should be completed and emailed to Dr Yongping Cui, who is the named representative of the combined Shanxi Medical Uni and BGI DAC.
After sending the forms to the DAC you will be contacted either by the DAC to decline your application or from the EGA with login details if your application is approved. This process can take several days.

Additional details

Read the peer-reviewed publication(s):

Cheng, C., Cui, H., Zhang, L., Jia, Z., Song, B., Wang, F., … Cui, Y. (2016). Genomic analyses reveal FAM84B and the NOTCH pathway are associated with the progression of esophageal squamous cell carcinoma. GigaScience, 5(1). doi:10.1186/s13742-015-0107-0

Accessions (data included in GigaDB):

EGA: EGAS00001001487





File NameSample IDData TypeFile FormatSizeRelease Date 
ArticleDOC85.94 KB2015-12-31
ArticleDOCX41.99 KB2015-12-31
ReadmeTEXT1.35 KB2015-12-10
ImageTIF5.44 MB2015-12-31
Displaying 1-4 of 4 File(s).
Date Action
January 1, 2016 Dataset publish
January 12, 2016 Manuscript Link added : 10.1186/s13742-015-0107-0
December 6, 2017 Dataset Type added : Imaging