Real-time primer design for DNA chips

Proceedings - International Parallel and Distributed Processing Symposium, IPDPS 2003

Volumn , Issue , 2003, Pages

  Simmler, H ^a   Singpiel, H ^a   Manner R ^b  

^a Acconovis GmbH   (Germany)

^b UNIVERSITY OF MANNHEIM   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

BIOINFORMATICS; DISTRIBUTED PARAMETER NETWORKS; DNA; HARDWARE; POLYMERASE CHAIN REACTION;

COMPLEX ALGORITHMS; DNA CHIP; GENE SEQUENCES; HARDWARE ACCELERATORS; PRIMER DESIGN; REAL TIME; SOFTWARE APPROACH;

PARALLEL ARCHITECTURES;

EID: 84947292460     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/IPDPS.2003.1213288     Document Type: Conference Paper

References (14)

1. Brown, T. A. (1998): Genetics: A Molecular Approach. Chapman & Hall, London.
2. Blanchard, A. P. (1998): Synthetic DNA Arrays. Genetic Engineering Vol. 20, 111-123.
3. Singlair, B. (1999): Everything's Great When It Sit's on a Chip. The Scientist13[11]:18.
4. Matthews, H. R., Freeland, R. and Miesfeld, R. L. (1997): Biochemistry-A short course. New York.
5. Wallace, R. W. (1997): DNA on a chip serving up the genome for diagnostics and research. Molecular Medicine Today, Vol. 3, Issue 9, 348-389.
6. Kaderali, L. (2001): Selecting Target Specific Probes for DNA Arrays. Universität Köln.
7. Rychlik, W. and Rhoads, R. E. (1989): A computer program for choosing optimal oligonucleotides for filter hybridization, sequencing an in vitro amplification of DNA. Nucleic Acids Res., 19, 8543-8551.
8. Borer, P. N. et. al. (1974): Stability of ribonucleid acid double-stranded helicies. J. Mol. Biol., (86), 843-853.
9. Breslauer, K. J. et. al. (1986): Predicting DNA duplex stability from the base sequence. Proc. Natl. Acad. Sci. USA, 83, 3746-3750.
10. Freier, S. M. et. al. (1994): Improving free-energy parameters for predictions of RNA duplex stability. Proc. Natl. Acad. Sci. USA. 83, 9373-9377.
11. Kämpke, T. et. al. (2001): Efficient primer design algorithms. Bioinformatics Vol. 17, 214-225.
12. Optimagic Inc. (2002): Programmable Logic Jump Station, http://www. optimagic. com.
13. Rychlik, W. (1995): Selection of primers for polymerase chain reaction. Mol. Biotechnol., 3, 129-143.
14. Edwards, M. C. and Gibbs, R. A. (1994): Multiplex PCR: Advantages, development and applications. PCR Meth. Appl., 3, 565-575.