Whole genome analysis of mutation hotspots in gastric cancer

Tissue-specific driver mutations in non-coding genomic regions remain undefined for most cancer types. In this study, we unbiasedly analysed 212 gastric cancer whole genomes to identify recurrently mutated non-coding regions in gastric cancer. Applying comprehensive statistical approa- ches to accurately model background mutational processes, we observe significant enrich- ment of non-coding indels (insertions/deletions) in three gastric lineage-specific genes. We further identify 34 mutation hotspots, of which 11 overlap CTCF binding sites (CBSs).

Type: Other
Archiver: European Genome-Phenome Archive (EGA)

1 Dataset 2 Publications

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
EGAD00001004279	Genomic DNA of tumours and matched normal gastric tissues was extracted (QIAGEN). Libraries were constructed with 300-400 bp insert length, and 101bp or 151bp paired-end sequencing was performed on Illumina Hiseq instruments	HiSeq X Ten Illumina HiSeq 2000 Illumina HiSeq 2500	80

Publications	Citations
Mutation hotspots at CTCF binding sites coupled to chromosomal instability in gastrointestinal cancers. Guo YA, Chang MM, Huang W, Ooi WF, Xing M, Tan P, Skanderup AJ. Nat Commun 9: 2018 1520	79
ERR-activated GPR35 promotes immune infiltration level of macrophages in gastric cancer tissues. Shu C, Wang C, Chen S, Huang X, Cui J, Li W, Xu B. Cell Death Discov 8: 2022 444	3