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Methylome Profiling of PD-L1-Expressing Glioblastomas Shows Enrichment of Post-Transcriptional and RNA-Associated Gene Regulation. Cancers (Basel) 2022; 14:cancers14215375. [PMID: 36358793 PMCID: PMC9656473 DOI: 10.3390/cancers14215375] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2022] [Revised: 10/21/2022] [Accepted: 10/28/2022] [Indexed: 11/06/2022] Open
Abstract
Glioblastomas are the most frequent primary brain tumors in adults. They show highly malignant behavior and devastating outcomes. Since there are still no targeted therapies available, median survival remains in the range of 12 to 15 months for glioblastoma patients. Programmed Cell Death Ligand 1 (PD-L1) is a promising novel candidate in precision medicine. Here, we performed integrated epigenome-wide methylation profiling of 866,895 methylation-specific sites in 20 glioblastoma samples comparing PD-L1 high- (i.e., TPS (tumor proportion score) > 30%) and PD-L1 low-expressing glioblastomas (i.e., TPS < 10%). We found 12,597 significantly differentially methylated CpGs (DMCG) (Δβ ≥ 0.1 and p-value < 0.05) in PD-L1 high- compared with PD-L1 low-expressing glioblastomas. These DMCGs were annotated to 2546 tiling regions, 139 promoters, 107 genes, and 107 CpG islands. PD-L1 high-expressing glioblastomas showed hypomethylation in 68% of all DMCGs. Interestingly, the list of the top 100 significantly differentially methylated genes showed the enrichment of regulatory RNAs with 19 DMCGs in miRNA, snoRNAs, lincRNAs, and asRNAs. Gene Ontology analysis showed the enrichment of post-transcriptional and RNA-associated pathways in the hypermethylated gene regions. In summary, dissecting the methylomes depending on PD-L1 status revealed significant alterations in RNA regulation and novel molecular targets in glioblastomas.
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Wang H, Chen X, Xu Z, Tan Y, Qi X, Zhang L, Xu A, Ren F. Identification of a novel fusion gene, RUNX1-PRPF38A, in acute myeloid leukemia. Int J Lab Hematol 2017; 39:e90-e93. [PMID: 28263028 DOI: 10.1111/ijlh.12642] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Affiliation(s)
- H Wang
- Department of Hematology, The Second Hospital of Shanxi Medical University, Taiyuan, China
| | - X Chen
- Department of Hematology, The Second Hospital of Shanxi Medical University, Taiyuan, China
| | - Z Xu
- Department of Hematology, The Second Hospital of Shanxi Medical University, Taiyuan, China
| | - Y Tan
- Department of Hematology, The Second Hospital of Shanxi Medical University, Taiyuan, China
| | - X Qi
- Department of Hematology, The Second Hospital of Shanxi Medical University, Taiyuan, China
| | - L Zhang
- Department of Hematology, The Second Hospital of Shanxi Medical University, Taiyuan, China
| | - A Xu
- Department of Hematology, The Second Hospital of Shanxi Medical University, Taiyuan, China
| | - F Ren
- Department of Hematology, The Second Hospital of Shanxi Medical University, Taiyuan, China
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Abe A, Yamamoto Y, Iba S, Kanie T, Okamoto A, Tokuda M, Inaguma Y, Yanada M, Morishima S, Mizuta S, Akatsuka Y, Okamoto M, Kameyama T, Mayeda A, Emi N. ETV6-LPXN fusion transcript generated by t(11;12)(q12.1;p13) in a patient with relapsing acute myeloid leukemia with NUP98-HOXA9. Genes Chromosomes Cancer 2016; 55:242-50. [PMID: 26542893 DOI: 10.1002/gcc.22327] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2015] [Revised: 10/14/2015] [Accepted: 10/15/2015] [Indexed: 11/09/2022] Open
Abstract
ETV6, which encodes an ETS family transcription factor, is frequently rearranged in human leukemias. We show here that a patient with acute myeloid leukemia with t(7;11)(p15;p15) gained, at the time of relapse, t(11;12)(q12.1;p13) with a split ETV6 FISH signal. Using 3'-RACE PCR analysis, we found that ETV6 was fused to LPXN at 11q12.1, which encodes leupaxin. ETV6-LPXN, an in-frame fusion between exon 4 of ETV6 and exon 2 of LPXN, did not transform the interleukin-3-dependent 32D myeloid cell line to cytokine independence; however, an enhanced proliferative response was observed when these cells were treated with G-CSF without inhibition of granulocytic differentiation. The 32D and human leukemia cell lines each transduced with ETV6-LPXN showed enhanced migration towards the chemokine CXCL12. We show here for the first time that LPXN is a fusion partner of ETV6 and present evidence indicating that ETV6-LPXN plays a crucial role in leukemia progression through enhancing the response to G-CSF and CXCL12.
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Affiliation(s)
- Akihiro Abe
- Department of Hematology, Fujita Health University, Toyoake, Aichi, Japan
| | - Yukiya Yamamoto
- Department of Hematology, Fujita Health University, Toyoake, Aichi, Japan
| | - Sachiko Iba
- Department of Hematology, Fujita Health University, Toyoake, Aichi, Japan
| | - Tadaharu Kanie
- Department of Hematology, Fujita Health University, Toyoake, Aichi, Japan
| | - Akinao Okamoto
- Department of Hematology, Fujita Health University, Toyoake, Aichi, Japan
| | - Masutaka Tokuda
- Department of Hematology, Fujita Health University, Toyoake, Aichi, Japan
| | - Yoko Inaguma
- Department of Hematology, Fujita Health University, Toyoake, Aichi, Japan
| | - Masamitsu Yanada
- Department of Hematology, Fujita Health University, Toyoake, Aichi, Japan
| | - Satoko Morishima
- Department of Hematology, Fujita Health University, Toyoake, Aichi, Japan
| | - Shuichi Mizuta
- Department of Hematology, Fujita Health University, Toyoake, Aichi, Japan
| | - Yoshiki Akatsuka
- Department of Hematology, Fujita Health University, Toyoake, Aichi, Japan
| | - Masataka Okamoto
- Department of Hematology, Fujita Health University, Toyoake, Aichi, Japan
| | - Toshiki Kameyama
- Division of Gene Expression Mechanism, Institute for Comprehensive Medical Science, Fujita Health University, Toyoake, Aichi, Japan
| | - Akila Mayeda
- Division of Gene Expression Mechanism, Institute for Comprehensive Medical Science, Fujita Health University, Toyoake, Aichi, Japan
| | - Nobuhiko Emi
- Department of Hematology, Fujita Health University, Toyoake, Aichi, Japan
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Rodriguez-Perales S, Torres-Ruiz R, Suela J, Acquadro F, Martin MC, Yebra E, Ramirez JC, Alvarez S, Cigudosa JC. Truncated RUNX1 protein generated by a novel t(1;21)(p32;q22) chromosomal translocation impairs the proliferation and differentiation of human hematopoietic progenitors. Oncogene 2015; 35:125-34. [DOI: 10.1038/onc.2015.70] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2014] [Revised: 01/21/2015] [Accepted: 02/02/2015] [Indexed: 12/15/2022]
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