蛋白质基因组学
生物
开放式参考框架
转录组
计算生物学
转座因子
核糖核酸
打开阅读框
基因
RNA序列
遗传学
基因组
肽序列
基因表达
作者
Pierre-Emmanuel Bonté,Yago A. Arribas,Antonela Merlotti,Montserrat Carrascal,Jiasi Vicky Zhang,Elina Zueva,Zev A. Binder,Cécile Alanio,Christel Goudot,Sebastián Amigorena
出处
期刊:Cell Reports
[Elsevier]
日期:2022-06-01
卷期号:39 (10): 110916-110916
被引量:25
标识
DOI:10.1016/j.celrep.2022.110916
摘要
We analyze transposable elements (TEs) in glioblastoma (GBM) patients using a proteogenomic pipeline that combines single-cell transcriptomics, bulk RNA sequencing (RNA-seq) samples from tumors and healthy-tissue cohorts, and immunopeptidomic samples. We thus identify 370 human leukocyte antigen (HLA)-I-bound peptides encoded by TEs differentially expressed in GBM. Some of the peptides are encoded by repeat sequences from intact open reading frames (ORFs) present in up to several hundred TEs from recent long interspersed nuclear element (LINE)-1, long terminal repeat (LTR), and SVA subfamilies. Other HLA-I-bound peptides are encoded by single copies of TEs from old subfamilies that are expressed recurrently in GBM tumors and not expressed, or very infrequently and at low levels, in healthy tissues (including brain). These peptide-coding, GBM-specific, highly recurrent TEs represent potential tumor-specific targets for cancer immunotherapies.
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