1. Bioinformatics Analysis for Circulating Cell-Free DNA in Cancer.
- Author
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Huang, Chiang-Ching, Du, Meijun, and Wang, Liang
- Subjects
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CHROMOSOME analysis , *NUCLEIC acid analysis , *TUMOR diagnosis , *EXTRACELLULAR space , *GENETIC polymorphisms , *MOLECULAR diagnosis , *GENETIC mutation , *NUCLEIC acids , *SURVIVAL , *TUMOR markers , *BIOINFORMATICS , *DISEASE progression , *DNA methylation , *SEQUENCE analysis , *EARLY detection of cancer , *EPIGENOMICS , *BLOOD , *EVALUATION , *URINE ,TUMOR genetics ,TUMOR prognosis ,BODY fluid examination - Abstract
Molecular analysis of cell-free DNA (cfDNA) that circulates in plasma and other body fluids represents a "liquid biopsy" approach for non-invasive cancer screening or monitoring. The rapid development of sequencing technologies has made cfDNA a promising source to study cancer development and progression. Specific genetic and epigenetic alterations have been found in plasma, serum, and urine cfDNA and could potentially be used as diagnostic or prognostic biomarkers in various cancer types. In this review, we will discuss the molecular characteristics of cancer cfDNA and major bioinformatics approaches involved in the analysis of cfDNA sequencing data for detecting genetic mutation, copy number alteration, methylation change, and nucleosome positioning variation. We highlight specific challenges in sensitivity to detect genetic aberrations and robustness of statistical analysis. Finally, we provide perspectives regarding the standard and continuing development of bioinformatics analysis to move this promising screening tool into clinical practice. [ABSTRACT FROM AUTHOR]
- Published
- 2019
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