| Title |
<b>Immune response-associated gene analysis of 1,000 cancer patients using whole-exome sequencing and gene expression profiling—Project </b><b>HOPE— </b>
|
|---|---|
| Published in |
Biomedical Research (0970-938X), January 2016
|
| DOI | 10.2220/biomedres.37.233 |
| Pubmed ID | |
| Authors |
Yasuto AKIYAMA, Ryota KONDOU, Akira IIZUKA, Keiichi OHSHIMA, Kenichi URAKAMI, Takeshi NAGASHIMA, Yuji SHIMODA, Tomoe TANABE, Sumiko OHNAMI, Shumpei OHNAMI, Masatoshi KUSUHARA, Tohru MOCHIZUKI, Ken YAMAGUCHI |
| Abstract |
Project HOPE (High-tech Omics-based Patient Evaluation) has been progressing since its implementation in 2014 using whole-exome sequencing (WES) and gene expression profiling (GEP). With the aim of evaluating immune status in cancer patients, a gene panel consisting of 164 immune response-associated genes (56 antigen-presenting cell and T-cell-associated genes, 34 cytokine- and metabolism-associated genes, 47 TNF and TNF receptor superfamily genes, and 27 regulatory T-cell-associated genes) was established, and its expression and mutation status were investigated using 1,000 cancer patient-derived tumors. Regarding WES, sequencing and variant calling were performed using the Ion Proton system. The average number of single-nucleotide variants (SNVs) detected per sample was 183 ± 507, and the number of hypermutators with more than 500 total SNVs was 51 cases. Regarding GEP, seven immune response-associated genes (VTCN1, IL2RA, ULBP2, TREM1, MSR1, TNFSF9 and TNFRSF12A) were more than 2-fold overexpressed compared with normal tissues in more than 2 organs. Specifically, the positive rate of PD-L1 expression in all patients was 25.8%, and PD-L1 expression was significantly upregulated in hypermutators. The simultaneous analyses of WES and GEP based on immune response-associated genes are very intriguing tools to screen cancer patients suitable for immune checkpoint antibody therapy. |
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Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Unknown | 1 | 100% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Members of the public | 1 | 100% |
Mendeley readers
The data shown below were compiled from readership statistics for 26 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Germany | 1 | 4% |
| Unknown | 25 | 96% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 5 | 19% |
| Researcher | 4 | 15% |
| Student > Bachelor | 3 | 12% |
| Student > Postgraduate | 2 | 8% |
| Student > Master | 2 | 8% |
| Other | 4 | 15% |
| Unknown | 6 | 23% |
| Readers by discipline | Count | As % |
|---|---|---|
| Medicine and Dentistry | 5 | 19% |
| Biochemistry, Genetics and Molecular Biology | 5 | 19% |
| Agricultural and Biological Sciences | 3 | 12% |
| Immunology and Microbiology | 3 | 12% |
| Pharmacology, Toxicology and Pharmaceutical Science | 1 | 4% |
| Other | 4 | 15% |
| Unknown | 5 | 19% |
Attention Score in Context
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#22,760,732
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Outputs from Biomedical Research (0970-938X)
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Outputs of similar age from Biomedical Research (0970-938X)
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