Quantification of low concentrations of DNA using single molecule detection and velocity measurement in a microchannel

Journal of Fluorescence

Volumn 17, Issue 6, 2007, Pages 767-774

  Chao, Shu Yi ^a   Ho, Yi Ping ^a   Bailey, Vasudev J ^b,c   Wang, Tza Huei ^a,b  

^a Johns Hopkins University   (United States)

^b Johns Hopkins University   (United States)

^c JOHNS HOPKINS UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

DNA quantification; Flow profiling; Microchannel; Single molecule detection

Indexed keywords

DNA QUANTIFICATION; FEMTOLITERS; FLOW PROFILING; SINGLE MOLECULE DETECTION;

CONFOCAL MICROSCOPY; FLOW VELOCITY; FLUORESCENCE SPECTROSCOPY; MICROCHANNELS; STATISTICAL METHODS; VELOCITY MEASUREMENT;

DNA;

1,1' ((4,4,7,7 TETRAMETHYL) 4,7 DIAZAUNDECAMETHYLENE)BIS 4 (3 METHYL 2,3 DIHYDRO(BENZO 1,3 OXAZOLE) 2 METHYLIDENE)QUINOLINIUM; 1,1'-((4,4,7,7-TETRAMETHYL)-4,7-DIAZAUNDECAMETHYLENE)BIS-4-(3-METHYL-2,3-DIHYDRO(BENZO-1,3-OXAZOLE)-2-METHYLIDENE)QUINOLINIUM; BENZOXAZOLE DERIVATIVE; DNA; FLUORESCENT DYE; QUINOLINE DERIVATIVE; UNCLASSIFIED DRUG;

ARTICLE; INSTRUMENTATION; METHODOLOGY; MICROFLUIDIC ANALYSIS; PLASMID; SPECTROFLUOROMETRY;

BENZOXAZOLES; DNA; FLUORESCENT DYES; MICROFLUIDIC ANALYTICAL TECHNIQUES; PLASMIDS; QUINOLINIUM COMPOUNDS; SPECTROMETRY, FLUORESCENCE;

EID: 35948992941     PISSN: 10530509     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10895-007-0194-0     Document Type: Article

References (27)

1. Belkum AV (2003) Molecular diagnostics in medical microbiology: yesterday, today and tomorrow. Curr Opin Pharmacol 3:497-501
2. Gingeras TR, Higuchi R, Kricka LJ, Lo YMD, Wittwer CT (2005) Fifty years of molecular (DNA/RNA) diagnostics. Clin Chem 51:661-667
3. Halford WP, Falco VC, Gebhardt BM, Carr DJJ (1999) The inherent quantitative capacity of the reverse transcription polymerase chain reaction. Anal Biochem 266:181-191
4. Pollack JR, Perou CM, Alizadeh AA, Eisen MB, Pergamenschikov A, Williams CF, Jeffrey SS, Botstein D, Brown PO (1999) Genome-wide analysis of DNA copy-number changes using cDNA microarrays. Nat Genet 23:41-46
5. Kwok PY (2001) Methods for genotyping single nucleotide polymorphisms. Ann Rev Genomics Hum Genet 2:235-258
6. Beaudet L, Bedard J, Breton B, Mercuri RJ, Budarf ML (2001) Homogeneous assays for single-nucleotide polymorphism typing using AlphaScreen. Genome Res 11(4):600-608
7. Myakishev MV, Khripin Y, Hu S, Hamer DH (2001) High-throughput SNP genotyping by allele-specific PCR with universal energy-transfer-labeled primers. Genome Res 11(1):163-169
8. Herman JG, Baylin SB (2003) Mechanisms of disease: gene silencing in cancer in association with promoter hypermethylation. N Engl J Med 349(21):2042-2054
9. Peccoud J, Jacob C (1996) Theoretical uncertainty of measurements using quantitative polymerase chain reaction. Biophys J 71:101-108
10. Barnard FVR, Pecheniuk N, Slattery M, Walsh T (1998) PCR bias toward the wild-type k-ras and p53 sequences: implications for PCR detection of mutations and cancer diagnosis. Biotechniques 4:684-691
11. Knemeyer JP, Marmé N, Sauer M, (2000) Probes for detection of specific DNA sequences at the single-molecule level. Anal Chem 72:3717-3724
12. Zhang CY, Yeh HC, Kuroki MT, Wang TH (2005) Single-quantum-dot-based DNA nanosensor. Nat Mater 4:826-831
13. Yeh HC, Ho YP, Shih IM, Wang TH (2006) Homogenous point mutation detection by quantum dot-mediated two-color fluorescence coincidence analysis. Nucleic Acids Res 34:e35
14. Li HT, Ying LM, Green JJ, Balasubramanian S, Klenerman D (2003) Ultrasensitive coincidence fluorescence detection of single DNA molecules. Anal Chem 751:664-1670
15. Wang TH, Peng YH, Zhang CY, Wong PK, Ho CM (2005) Single-molecule tracing on a fluidic microchip for quantitative detection of low-abundance nucleic acids. J Am Chem Soc 127:5354-5359
16. Castro A, Williams JGK (1997) Single-molecule detection of specific nucleic acid sequences in unamplified genomic DNA. Anal Chem 69:3915-3920
17. Zhang CY, Chao SY, Wang TH (2005) Comparative quantification of nucleic acids using single-molecule detection and molecular beacons. Analyst 130(4):483-488
18. Neely LA, Patel S, Garver J, Gallo M, Hackett M, McLaughlin S, Nadel M, Harris J, Gullans S, Rooke J (2006) A single-molecule method for the quantitation of microRNA gene expression. Nat Methods 3:41-46
19. Devasenathipathy S, Santiago JG, Wereley ST, Meinhart CD, Takehara K (2003) Particle imaging techniques for microfabricated fluidic systems. Exp Fluids 34:504-514
20. Santiago JG, Wereley ST, Meinhart CD, Beebe DJ, Adrian RJ (1998) A particle image velocimetry system for microfluidics. Exp Fluids 25:316-319
21. Wang W, Liu Y, Sonek GJ, Berns MW, Keller RA (1995) Optical trapping and fluorescence detection in laminar flow streams. Appl Phys Lett 67:1057-1059
22. Gosch M, Blom H, Holm J, Heino T, Rigler R (2000) Hydrodynamic flow profiling in microchannel structures by single molecule fluorescence correlation spectroscopy. Anal Chem 72:3260-3265
23. Kunst BH, Schots A, Visser A (2002) Detection of flowing fluorescent particles in a microcapillary using fluorescence correlation spectroscopy. Anal Chem 74:5350-5357
24. Hsu TR (2001) MEMS and microsystems: design and manufacture. McGraw-Hill
25. Watson N (1988) A new revision of the sequence of plasmid pBR322. Gene 70:399-403
26. Haugland RP (2002) Handbook of fluorescent probes and research products. Molecular Probes, Eugene
27. Fox RW, Mc Donald AT, Pritchard PJ (2003) Introduction to fluid mechanics 6 ed. Wiley, New York