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蛋白质基因组学揭示了卵巢癌中大量共享的肿瘤特异性抗原。

Proteogenomics Uncovers a Vast Repertoire of Shared Tumor-Specific Antigens in Ovarian Cancer.

机构信息

Institute for Research in Immunology and Cancer, Université de Montréal, Montreal, Quebec, Canada.

Department of Medicine, Université de Montréal, Montreal, Quebec, Canada.

出版信息

Cancer Immunol Res. 2020 Apr;8(4):544-555. doi: 10.1158/2326-6066.CIR-19-0541. Epub 2020 Feb 11.


DOI:10.1158/2326-6066.CIR-19-0541
PMID:32047025
Abstract

High-grade serous ovarian cancer (HGSC), the principal cause of death from gynecologic malignancies in the world, has not significantly benefited from advances in cancer immunotherapy. Although HGSC infiltration by lymphocytes correlates with superior survival, the nature of antigens that can elicit anti-HGSC immune responses is unknown. The goal of this study was to establish the global landscape of HGSC tumor-specific antigens (TSA) using a mass spectrometry pipeline that interrogated all reading frames of all genomic regions. In 23 HGSC tumors, we identified 103 TSAs. Classic TSA discovery approaches focusing only on mutated exonic sequences would have uncovered only three of these TSAs. Other mutated TSAs resulted from out-of-frame exonic translation ( = 2) or from noncoding sequences ( = 7). One group of TSAs ( = 91) derived from aberrantly expressed unmutated genomic sequences, which were not expressed in normal tissues. These aberrantly expressed TSAs (aeTSA) originated primarily from nonexonic sequences, in particular intronic (29%) and intergenic (22%) sequences. Their expression was regulated at the transcriptional level by variations in gene copy number and DNA methylation. Although mutated TSAs were unique to individual tumors, aeTSAs were shared by a large proportion of HGSCs. Taking into account the frequency of aeTSA expression and HLA allele frequencies, we calculated that, in Caucasians, the median number of aeTSAs per tumor would be five. We conclude that, in view of their number and the fact that they are shared by many tumors, aeTSAs may be the most attractive targets for HGSC immunotherapy.

摘要

高级别浆液性卵巢癌(HGSC)是全球妇科恶性肿瘤死亡的主要原因,它并没有从癌症免疫治疗的进展中显著获益。尽管淋巴细胞浸润 HGSC 与更好的生存相关,但能够引发抗 HGSC 免疫反应的抗原的性质尚不清楚。本研究的目的是使用一种质谱分析管道来建立 HGSC 肿瘤特异性抗原(TSA)的全球图谱,该管道可检测所有基因组区域的所有阅读框。在 23 例 HGSC 肿瘤中,我们鉴定了 103 个 TSA。仅关注突变外显子序列的经典 TSA 发现方法只能发现其中的 3 个 TSA。其他突变的 TSA 是由于框外外显子翻译(=2)或非编码序列(=7)引起的。一组 TSA(=91)源自异常表达的未突变基因组序列,这些序列在正常组织中不表达。这些异常表达的 TSA(aeTSA)主要源自非外显子序列,特别是内含子(29%)和基因间序列(22%)。它们的表达受基因拷贝数和 DNA 甲基化的转录水平调控。虽然突变 TSA 是个体肿瘤所特有的,但 aeTSA 在很大比例的 HGSC 中是共有的。考虑到 aeTSA 的表达频率和 HLA 等位基因频率,我们计算出,在白种人中,每个肿瘤的 aeTSA 中位数为 5 个。我们得出的结论是,鉴于它们的数量以及它们被许多肿瘤共享的事实,aeTSA 可能是 HGSC 免疫治疗最有吸引力的靶标。

相似文献

[1]
Proteogenomics Uncovers a Vast Repertoire of Shared Tumor-Specific Antigens in Ovarian Cancer.

Cancer Immunol Res. 2020-2-11

[2]
Molecular Alterations of TP53 are a Defining Feature of Ovarian High-Grade Serous Carcinoma: A Rereview of Cases Lacking TP53 Mutations in The Cancer Genome Atlas Ovarian Study.

Int J Gynecol Pathol. 2016-1

[3]
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[4]
[Significance and expression of PAX8, PAX2, p53 and RAS in ovary and fallopian tubes to origin of ovarian high grade serous carcinoma].

Zhonghua Fu Chan Ke Za Zhi. 2017-10-25

[5]
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J Proteome Res. 2019-7-10

[6]
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Curr Oncol. 2024-5-30

[7]
Noncoding regions are the main source of targetable tumor-specific antigens.

Sci Transl Med. 2018-12-5

[8]
Genomic classification of serous ovarian cancer with adjacent borderline differentiates RAS pathway and TP53-mutant tumors and identifies NRAS as an oncogenic driver.

Clin Cancer Res. 2014-10-14

[9]
Integrated Proteomic and Glycoproteomic Characterization of Human High-Grade Serous Ovarian Carcinoma.

Cell Rep. 2020-10-20

[10]
A Genomically Characterized Collection of High-Grade Serous Ovarian Cancer Xenografts for Preclinical Testing.

Am J Pathol. 2018-2-16

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NPJ Vaccines. 2025-8-16

[2]
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bioRxiv. 2025-7-7

[3]
Tumor antigens preferentially derive from unmutated genomic sequences in melanoma and non-small cell lung cancer.

Nat Cancer. 2025-5-22

[4]
Immunogenic cryptic peptides dominate the antigenic landscape of ovarian cancer.

Sci Adv. 2025-2-21

[5]
VACCIMEL, an allogeneic melanoma vaccine, efficiently triggers T cell immune responses against neoantigens and alloantigens, as well as against tumor-associated antigens.

Front Immunol. 2025-1-7

[6]
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Sci Data. 2024-8-1

[7]
Microproteins encoded by noncanonical ORFs are a major source of tumor-specific antigens in a liver cancer patient meta-cohort.

Sci Adv. 2024-7-12

[8]
Immunogenicity of Non-Mutated Ovarian Cancer-Specific Antigens.

Curr Oncol. 2024-5-30

[9]
Noncanonical microprotein regulation of immunity.

Mol Ther. 2024-9-4

[10]
Autophagy degrades immunogenic endogenous retroelements induced by 5-azacytidine in acute myeloid leukemia.

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