The transcriptome difference between colorectal tumor and normal tissues revealed by single-cell sequencing
| Autor: | Le-Lin Pan, Tao Huang, Jin-Hai Wang, Guo-Liang Zhang |
|---|---|
| Rok vydání: | 2019 |
| Předmět: |
0301 basic medicine
Colorectal cancer Antigen processing Endoplasmic reticulum incremental feature selection Cancer colorectal cancer single-cell sequencing Biology medicine.disease Transcriptome 03 medical and health sciences 030104 developmental biology 0302 clinical medicine Oncology Single cell sequencing Downregulation and upregulation 030220 oncology & carcinogenesis Cancer cell medicine Cancer research minimal redundancy maximal relevance support vector machine transcriptome Research Paper |
| Zdroj: | Journal of Cancer |
| ISSN: | 1837-9664 |
| DOI: | 10.7150/jca.32267 |
| Popis: | The previous cancer studies were difficult to reproduce since the tumor tissues were analyzed directly. But the tumor tissues were actually a mixture of different cancer cells. The transcriptome of single-cell was much robust than the transcriptome of a mixed tissue. The single-cell transcriptome had much smaller variance. In this study, we analyzed the single-cell transcriptome of 272 colorectal cancer (CRC) epithelial cells and 160 normal epithelial cells and identified 342 discriminative transcripts using advanced machine learning methods. The most discriminative transcripts were LGALS4, PHGR1, C15orf48, HEPACAM2, PERP, FABP1, FCGBP, MT1G, TSPAN1 and CKB. We further clustered the 342 transcripts into two categories. The upregulated transcripts in CRC epithelial cells were significantly enriched in Ribosome, Protein processing in endoplasmic reticulum, Antigen processing and presentation and p53 signaling pathway. The downregulated transcripts in CRC epithelial cells were significantly enriched in Mineral absorption, Aldosterone-regulated sodium reabsorption and Oxidative phosphorylation pathways. The biological analysis of the discriminative transcripts revealed the possible mechanism of colorectal cancer. |
| Databáze: | OpenAIRE |
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