scholarly journals Whole genome sequencing of matched tumor, adjacent non-tumor tissues and corresponding normal blood samples of hepatocellular carcinoma patients revealed dynamic changes of the mutations profiles during hepatocarcinogenesis

Oncotarget ◽  
2017 ◽  
Vol 8 (16) ◽  
pp. 26185-26199 ◽  
Author(s):  
Ruifang Mao ◽  
Jie Liu ◽  
Guanfeng Liu ◽  
Shanshan Jin ◽  
Qingzhong Xue ◽  
...  
Oncotarget ◽  
2015 ◽  
Vol 6 (2) ◽  
pp. 755-770 ◽  
Author(s):  
David G. Darcy ◽  
Rachel Chiaroni-Clarke ◽  
Jennifer M. Murphy ◽  
Joshua N. Honeyman ◽  
Umesh Bhanot ◽  
...  

2013 ◽  
Vol 23 (9) ◽  
pp. 1422-1433 ◽  
Author(s):  
Z. Kan ◽  
H. Zheng ◽  
X. Liu ◽  
S. Li ◽  
T. D. Barber ◽  
...  

2013 ◽  
Author(s):  
Mao Mao ◽  
Hancheng Zheng ◽  
Zhengyan Kan ◽  
Jiangchun Xu ◽  
Xiao Liu ◽  
...  

PLoS ONE ◽  
2013 ◽  
Vol 8 (6) ◽  
pp. e66129 ◽  
Author(s):  
Elizabeth M. Batty ◽  
T. H. Nicholas Wong ◽  
Amy Trebes ◽  
Karène Argoud ◽  
Moustafa Attar ◽  
...  

2017 ◽  
Vol 66 (2) ◽  
pp. 363-373 ◽  
Author(s):  
Mayuko Furuta ◽  
Masaki Ueno ◽  
Akihiro Fujimoto ◽  
Shinya Hayami ◽  
Satoru Yasukawa ◽  
...  

2013 ◽  
Vol 88 (1) ◽  
pp. 774-774 ◽  
Author(s):  
E. S. Amirian ◽  
M. L. Bondy ◽  
Q. Mo ◽  
M. N. Bainbridge ◽  
M. E. Scheurer

Blood ◽  
2016 ◽  
Vol 128 (22) ◽  
pp. 5287-5287
Author(s):  
Yu Wu ◽  
Juan Xu ◽  
Yuan Tang ◽  
Yongqian Jia

Abstract BACKGROUND: This study was to evaluate the efficacy and safety of chidamide monotherapy, which is a new histone deacetylase inhibitor (HDAci) of the benzamide class, in relapsed or refractory Angioimmunoblastic T cell lymphoma (AITL), to investigate its genomic expression signatures as well as the mechanisms of chidamide's anti-lymphoma effect and its resistance. METHODS: Two cases with relapsed or refractory AITL were treated with chidamide. We performed a repeated biopsy on relapsed lymphomas and did whole genome next-generation sequencing (NGS) testing on drug -resistant tumor samples. RESULTS: The first patient is a 54-year-old man presented with stage Ⅳ AITL. He underwent autologous stem cell transplantation in his first complete remission (CR) but relapsed 7 months later. In view of resistance to multiple lines of chemotherapy and poor performance status, chidamide was adaministered orally at a standard dose of 30mg twice a week. Pulmonary lesions regressed quickly and a second CR was achieved. Adverse events included grade 2 cytopenias, diarrhea, and reversible QT interval prolongation. The disease free survival was 6 months and AITL relapsed again 4 months ago. He responded to low-dose chidamide combined with lenalidomide and dexamethasone and remains well. Formalin-fixed, paraffin-embeded tumor tissues collected at first relapse were tackled for whole-genome sequencing. The other patient is a 62-year-old woman who had stage Ⅲ AITL. Disease progressed after two cycles of combined chemotherapy, thereafter a standard dose of chidamide monotherapy was initiated. With well tolerability, an unconfirmed CR was achieved and lasted for nearly 3 months. She is still alive but remains refractory to various salvage therapeutics, including chemotherapies, arsenic trioxide, thalidomide, and pralatrexate. A rebiopsy was perferomed and the histopathological findings confirmed the relapse of AITL, associated with Epstein-barr virus infection. Fresh tumor tissues were sent for whole-genome sequencing. In both cases, NGS testing identified mutations of RHOA gene, epigenetic regulators TET2, IDH1, and DNMT3A, as well as CD28. CONCLUSIONS: Chidamide, a low nanomolar inhibitor of HDAC1, 2, 3, and 10, was approved in China for the management of relapsed and/or refractory peripheral T cell lymphoma. It's reported that patients with AITL tended to have higher response rates and more durable responses to chidamide treatment. Our report showed single-agent chidamide is a reasonable approach to treat the formidable disease but seemed difficult to achieve a sustained remission. Various genetic, epigenetic, and immune alterations involve in the pathogensis of AITL, which provide targets for chidamide therapy. High-throughput sequencing approach is very helpful to clarify the mechanisms. Disclosures No relevant conflicts of interest to declare.


2020 ◽  
Vol 252 (4) ◽  
pp. 398-410 ◽  
Author(s):  
Haruhiko Takeda ◽  
Atsushi Takai ◽  
Ken Kumagai ◽  
Eriko Iguchi ◽  
Soichi Arasawa ◽  
...  

2018 ◽  
Vol 36 (4_suppl) ◽  
pp. 290-290
Author(s):  
Colin MacDonald Court ◽  
Shuang Hou ◽  
Paul Winograd ◽  
Saeed Sadeghi ◽  
Richard S. Finn ◽  
...  

290 Background: Copy number variations (CNVs) have shown prognostic and predictive utility in hepatocellular carcinoma (HCC) but their use from percutaneous biopsies is limited due to HCC’s significant tumor heterogeneity. We investigated the feasibility of obtaining CNV profiles from circulating tumor cells (CTCs) as a liquid biopsy for HCC. Methods: Using a microfluidic HCC-specific CTC assay, CTCs were isolated from 10 patients with HCC and low-resolution (~0.01x) whole genome sequencing performed to establish CNV profiles. Primary tumor, peritumoral liver, and germline DNA was sequenced for comparison. Results: Sequencing of 18 CTC samples (median 4 CTCs/sample) from 10 HCC patients using a low-resolution whole genome sequencing strategy (median 0.88 million reads/sample) revealed frequent copy number changes in previously reported HCC regions such as 8q amplifications and 17p deletions. Analysis of CNV profiles revealed that CTCs share a median of 80% concordance with the primary tumor and that CTCs clustered with their respective primary tumor for 9/10 samples. Sequencing of 7 different CTC samples from a single patient established the reproducibility of the assay. CTCs also demonstrated CNVs not seen in the primary tumor, some with prognostic implications. Conclusions: CNV profiling of HCC-CTCs is feasible and accurately recapitulates CNVs seen in the primary tumor. The use of CTC-derived genetic profiles as clinically relevant surrogates of HCC tumors demonstrates potential and should be explored further. [Table: see text]


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