A comprehensive characterization of the cell-free transcriptome reveals tissue- and subtype-specific biomarkers for cancer detection
| Autor: | Yiqi Zhou, Ruth E. Mauntz, Monica Pimentel, Matthew H. Larson, Wenying Pan, Vasiliki Demas, Arash Jamshidi, Per Knudsgaard, Alex Aravanis, Hyunsung John Kim, Sarah M. Stuart |
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| Jazyk: | angličtina |
| Rok vydání: | 2021 |
| Předmět: |
0301 basic medicine
Analyte Lung Neoplasms Science General Physics and Astronomy Breast Neoplasms General Biochemistry Genetics and Molecular Biology Article Transcriptome Cohort Studies Cancer screening 03 medical and health sciences 0302 clinical medicine medicine Biomarkers Tumor Humans RNA Messenger Lung cancer Gene Cancer Multidisciplinary business.industry Gene Expression Profiling RNA Molecular Sequence Annotation General Chemistry medicine.disease Gene expression profiling 030104 developmental biology Organ Specificity 030220 oncology & carcinogenesis Cancer research Biomarker (medicine) Female business Databases Nucleic Acid Cell-Free Nucleic Acids |
| Zdroj: | Nature Communications Nature Communications, Vol 12, Iss 1, Pp 1-11 (2021) |
| ISSN: | 2041-1723 0288-9978 |
| Popis: | Cell-free RNA (cfRNA) is a promising analyte for cancer detection. However, a comprehensive assessment of cfRNA in individuals with and without cancer has not been conducted. We perform the first transcriptome-wide characterization of cfRNA in cancer (stage III breast [n = 46], lung [n = 30]) and non-cancer (n = 89) participants from the Circulating Cell-free Genome Atlas (NCT02889978). Of 57,820 annotated genes, 39,564 (68%) are not detected in cfRNA from non-cancer individuals. Within these low-noise regions, we identify tissue- and cancer-specific genes, defined as “dark channel biomarker” (DCB) genes, that are recurrently detected in individuals with cancer. DCB levels in plasma correlate with tumor shedding rate and RNA expression in matched tissue, suggesting that DCBs with high expression in tumor tissue could enhance cancer detection in patients with low levels of circulating tumor DNA. Overall, cfRNA provides a unique opportunity to detect cancer, predict the tumor tissue of origin, and determine the cancer subtype. Cell-free RNA (cfRNA) is a promising analyte for cancer diagnosis. Here, the authors determine the baseline cell-free transcriptome in the absence of cancer and identify tissue- and subtype-specific cfRNA biomarkers in breast and lung cancer patients. |
| Databáze: | OpenAIRE |
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