Detection of circulating tumor DNA in the blood of cancer patients: An important tool in cancer chemoprevention

Methods in Molecular Biology

Volumn 1379, Issue , 2016, Pages 45-68

  Ulz, Peter ^a   Auer, Martina ^a   Heitzer, Ellen ^a  

^a NONE

Author keywords

Cell free DNA; Circulating tumor DNA; Copy number aberrations; Low coverage whole genome sequencing; Plasma DNA; Plasma Seq

Indexed keywords

DNA;

BIOINFORMATICS; CANCER PATIENT; CANCER PREVENTION; COPY NUMBER VARIATION; COST EFFECTIVENESS ANALYSIS; DNA DETERMINATION; DNA EXTRACTION; DNA LIBRARY; GENE AMPLIFICATION; GENE SEQUENCE; HUMAN; METASTASIS; MOLECULAR EVOLUTION; NON INVASIVE PROCEDURE; PLASMA; POLYSOME; TUMOR BIOPSY; WHOLE GENOME SEQUENCING; BLOOD; CHEMOPROPHYLAXIS; DNA REPAIR; DNA SEQUENCE; GENETICS; GENOMICS; MALE; NEOPLASMS; PATHOLOGY; PROCEDURES; REPRODUCIBILITY;

CHEMOPREVENTION; DNA COPY NUMBER VARIATIONS; DNA REPAIR; DNA, NEOPLASM; GENOMICS; HUMANS; MALE; NEOPLASM METASTASIS; NEOPLASMS; REPRODUCIBILITY OF RESULTS; SEQUENCE ANALYSIS, DNA;

EID: 84948808039     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-4939-3191-0_5     Document Type: Chapter

References (20)

1. 1. Jung M, Klotzek S, Lewandowski M et al (2003) Changes in concentration of DNA in serum and plasma during storage of blood samples. Clin Chem 49:1028-1029
2. 2. Lui YY, Chik KW, Chiu RW et al (2002) Predominant hematopoietic origin of cell-free DNA in plasma and serum after sex-mismatched bone marrow transplantation. Clin Chem 48:421-27
3. Bettegowda C, Sausen M, Leary RJ et al (2014) Detection of circulating tumor DNA in early-and late-stage human malignancies. Sci Transl Med 6:22-424
4. Chan KC, Jiang P, Chan CW et al (2013) Noninvasive detection of cancer-associated genome-wide hypomethylation and copy number aberrations by plasma DNA bisulfite sequencing. Proc Natl Acad Sci U S A 110:18761-18768
5. Chan KC, Jiang P, Zheng YW et al (2013) Cancer genome scanning in plasma: detection of tumor-associated copy number aberrations, single-nucleotide variants, and tumoral hetero­geneity by massively parallel sequencing. Clin Chem 59:211-224
6. Diehl F, Schmidt K, Choti MA et al (2008) Circulating mutant DNA to assess tumor dynamics. Nat Med 14:985-990
7. 7. Forshew T (2012) Noninvasive identification and monitoring of cancer mutations by tar­geted deep sequencing of plasma DNA. Sci Transl Med 4:136-68
8. Heidary M, Auer M, Ulz P et al (2014) The dynamic range of circulating tumor DNA in met-astatic breast cancer. Breast Cancer Res 16:421
9. Heitzer E, Auer M, Hoffmann EM et al (2013) Establishment of tumor-specific copy number alterations from plasma DNA of patients with cancer. Int J Cancer 133:346-356
10. . Heitzer E, Auer M, Ulz P et al (2013) Circulating tumor cells and DNA as liquid biopsies. Genome Med 5:73
11. Heitzer E, Ulz P, Belic J et al (2013) Tumor-associated copy number changes in the circulation of patients with prostate cancer identified through whole-genome sequencing. Genome Med 5:30
12. Heitzer E, Ulz P, Geigl JB (2014) Circulating tumor DNA as a liquid biopsy for cancer. Clin Chem 61:112
13. . Mohan S, Heitzer E, Ulz P et al (2014) Changes in colorectal carcinoma genomes under anti-egfr therapy identified by whole-genome plasma DNA sequencing. PLoS Genet 10:e1004271
14. . Murtaza M (2013) Non-invasive analysis of acquired resistance to cancer therapy by sequencing of plasma DNA. Nature 497:108-112
15. Baslan T, Kendall J, Rodgers L et al (2012) Genome-wide copy number analysis of single cells. Nat Protoc 7:1024-1041
16. . Li H, Durbin R (2009) Fast and accurate short read alignment with burrows-wheeler trans­form. Bioinformatics 25:1754-1760
17. . Li H, Handsaker B, Wysoker A et al (2009) The sequence alignment/map format and sam-tools. Bioinformatics 25:2078-2079
18. R:. R: A language and environment for statistical computing. http://www.R-project.org
19. Lai W, Choudhary V, Park PJ (2008) Cghweb: a tool for comparing DNA copy number seg­mentations from multiple algorithms. Bioinformatics 24:1014-1015
20. . Navin N, Kendall J, Troge J et al (2011) Tumour evolution inferred by single-cell sequencing. Nature 472:90-94