D
De-Chen Lin
Researcher at Cedars-Sinai Medical Center
Publications - 119
Citations - 7530
De-Chen Lin is an academic researcher from Cedars-Sinai Medical Center. The author has contributed to research in topics: Cancer & Epigenomics. The author has an hindex of 36, co-authored 105 publications receiving 4614 citations. Previous affiliations of De-Chen Lin include Sun Yat-sen University & Peking Union Medical College.
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Journal ArticleDOI
Maftools: efficient and comprehensive analysis of somatic variants in cancer.
Anand Mayakonda,Anand Mayakonda,De-Chen Lin,Yassen Assenov,Yassen Assenov,Christoph Plass,Christoph Plass,H. Phillip Koeffler,H. Phillip Koeffler +8 more
TL;DR: An R Bioconductor package, Maftools, is described, which offers a multitude of analysis and visualization modules that are commonly used in cancer genomic studies, including driver gene identification, pathway, signature, enrichment, and association analyses, and is independent of larger alignment files.
Journal ArticleDOI
Genomic and molecular characterization of esophageal squamous cell carcinoma
De-Chen Lin,De-Chen Lin,Jia-Jie Hao,Yasunobu Nagata,Liang Xu,Li Shang,Xuan Meng,Yusuke Sato,Yusuke Okuno,Ana Maria Varela,Ling-Wen Ding,Manoj Garg,Li-Zhen Liu,Henry Yang,Dong Yin,Zhi-Zhou Shi,Yan-Yi Jiang,Wen-Yue Gu,Ting Gong,Yu Zhang,Xin Xu,Ori Kalid,Sharon Shacham,Seishi Ogawa,Ming-Rong Wang,H. Phillip Koeffler,H. Phillip Koeffler +26 more
TL;DR: The whole-exome or targeted deep sequencing of 139 paired ESCC cases and analysis of somatic copy number variations (SCNV) of over 180 ESCCs provide an important molecular foundation for understanding esophageal tumors and developing therapeutic targets.
Journal ArticleDOI
Extracellular vesicle-packaged HIF-1α-stabilizing lncRNA from tumour-associated macrophages regulates aerobic glycolysis of breast cancer cells.
Fei Chen,Jianing Chen,Linbin Yang,Jiang Liu,Xiaoqian Zhang,Yin Zhang,Qingqiang Tu,Dong Yin,De-Chen Lin,Ping-Pui Wong,Di Huang,Yue Xing,Jinghua Zhao,Mengfeng Li,Qiang Liu,Fengxi Su,Shicheng Su,Erwei Song,Erwei Song +18 more
TL;DR: It is demonstrated that tumour-associated macrophages enhance the aerobic glycolysis and apoptotic resistance of breast cancer cells via the extracellular vesicle transmission of a myeloid-specific lncRNA, HIF-1α-stabilizing long noncoding RNA (HISLA).
Journal ArticleDOI
The genomic landscape of nasopharyngeal carcinoma
De-Chen Lin,Xuan Meng,Masaharu Hazawa,Yasunobu Nagata,Ana Maria Varela,Liang Xu,Yusuke Sato,Li-Zhen Liu,Ling-Wen Ding,Arjun Sharma,Boon Cher Goh,Soo-Chin Lee,Bengt Fredrik Petersson,Feng Gang Yu,Paul A. MacAry,Min Zin Oo,Chan Soh Ha,Henry Yang,Seishi Ogawa,Kwok Seng Loh,H. Phillip Koeffler +20 more
TL;DR: The mutational landscape of 128 cases with NPC is determined using whole-exome and targeted deep sequencing, as well as SNP array analysis, which revealed a distinct mutational signature and nine significantly mutated genes, many of which have not been implicated previously in NPC.
Journal ArticleDOI
Spatial intratumoral heterogeneity and temporal clonal evolution in esophageal squamous cell carcinoma
Jia-Jie Hao,De-Chen Lin,De-Chen Lin,Huy Q. Dinh,Anand Mayakonda,Yan-Yi Jiang,Chen Chang,Ye Jiang,Chen-Chen Lu,Zhi-Zhou Shi,Xin Xu,Yu Zhang,Yan Cai,Jin-Wu Wang,Qimin Zhan,Wen-Qiang Wei,Benjamin P. Berman,Ming-Rong Wang,H. Phillip Koeffler,H. Phillip Koeffler +19 more
TL;DR: These integrated investigations of spatial ITH and clonal evolution provide an important molecular foundation for enhanced understanding of tumorigenesis and progression in ESCC.