This approach results in the accurate identification of hundreds of shared and tumor-specific non-canonical HLA peptides, including an immunogenic peptide derived from an open reading frame downstream of the me
A mutation can only result in a neoantigen if the associated mutant peptide is presented on HLA molecules to the T cell receptor. Therefore, disruption of HLA molecules has important implications for immune evasion. Disruption to antigen-presenting machinery occurs across many cancer types4,5,6,7...
Surprisingly the binding affinity and stability of the 15-mer epitopes in complex with HLA-A*02:01 were comparable with the values observed for canonical length (8 to 11 aa) HLA-A*02:01-restricted peptides. We solved the structures of two 15-mer epitopes in complex with HLA-A*02:01, ...
Micropeptides can act as tumour suppressors [20,22], such as the HOXB-AS3 peptide encoded by the lncRNA HOX-AS3, which was shown to inhibit the growth of colorectal cancer cells by regulating tumour energy metabolism [23]. In addition, the FBXW7-185aa peptide encoded by circular FBXW...
Long-read sequencing of full-length cDNAs enables the detection of structures of aberrant splicing isoforms in cancer cells. These isoforms are occasionally translated, presented by HLA molecules, and recognized as neoantigens. This study used a long-rea
[45,46]. 7SL expression is obviously upregulated in EBV-infected cells and repressed p53 translation in cancer cells. Moreover, the promoter sequences of 7SL resemble EBER genes [47,48,49]. These results indicated that lncRNAs play a leading role in regulating of the tumour microenvironment....
The affinity of abnormal peptides for HLA class I molecules in individual tumours was predicted using NetMHCpan 4.0, and the peptides in the top two percentiles for affinity were defined as neoantigens. We defined the genes listed in the Cancer Gene Census (https://cancer.sanger.ac.uk/...
cancer cells (EPIC) algorithm as a method can estimate the proportions of immune and cancer cells. In addition to gene expression data were utilized, support vector regression (SVR) was used to calculate the proportions of each cell type. The microenvironment cell populations counter (MCPcounter)...
In this Review, we highlight such non-canonical targets in preclinical MS research with a focus on five highly promising areas: oligodendrocytes; the blood–brain barrier; metabolites and cellular metabolism; the coagulation system; and tolerance induction. Recent findings in these areas may guide ...
cancer cells. A stand-alone therapeutic vaccine composed of lncRNA-derived peptide antigens was found to be immunogenic and drove a CD8 T lymphocyte response that resulted in a significant delay in tumour growth. Our results identify the lncRNA non-coding genome as an unexpected source of ...