ProbeMaker: an extensible framework for design of sets of oligonucleotide probes

作者: Johan Stenberg , Mats Nilsson , Ulf Landegren

DOI: 10.1186/1471-2105-6-229

关键词:

摘要: Background Procedures for genetic analyses based on oligonucleotide probes are powerful tools that can allow highly parallel investigations of material. Such procedures require the design large sets using application-specific constraints.

参考文章(21)
Arnold Oliphant, David L. Barker, John R. Stuelpnagel, Mark S. Chee, BeadArray technology: enabling an accurate, cost-effective approach to high-throughput genotyping. BioTechniques. ,vol. 32, pp. 56- ,(2002) , 10.2144/JUN0207
Steve Rozen, Helen Skaletsky, Primer3 on the WWW for general users and for biologist programmers. Methods of Molecular Biology. ,vol. 132, pp. 365- 386 ,(2000) , 10.1385/1-59259-192-2:365
M. Gullberg, S. M. Gustafsdottir, E. Schallmeiner, J. Jarvius, M. Bjarnegard, C. Betsholtz, U. Landegren, S. Fredriksson, Cytokine detection by antibody-based proximity ligation Proceedings of the National Academy of Sciences of the United States of America. ,vol. 101, pp. 8420- 8424 ,(2004) , 10.1073/PNAS.0400552101
Jian-Bing Fan, Xiaoqiong Chen, Marc K Halushka, Anthony Berno, Xiaohua Huang, Thomas Ryder, Robert J Lipshutz, David J Lockhart, Aravinda Chakravarti, Parallel Genotyping of Human SNPs Using Generic High-density Oligonucleotide Tag Arrays Genome Research. ,vol. 10, pp. 853- 860 ,(2000) , 10.1101/GR.10.6.853
SH Chen, CY Lin, CS Cho, CZ Lo, CA Hsiung, Primer Design Assistant (PDA): a web-based primer design tool Nucleic Acids Research. ,vol. 31, pp. 3751- 3754 ,(2003) , 10.1093/NAR/GKG560
Richard Owczarzy, Peter M. Vallone, Frank J. Gallo, Teodoro M. Paner, Michael J. Lane, Albert S. Benight, Predicting sequence‐dependent melting stability of short duplex DNA oligomers Biopolymers. ,vol. 44, pp. 217- 239 ,(1997) , 10.1002/(SICI)1097-0282(1997)44:3<217::AID-BIP3>3.0.CO;2-Y
Fredrik Dahl, Mats Gullberg, Johan Stenberg, Ulf Landegren, Mats Nilsson, Multiplex amplification enabled by selective circularization of large sets of genomic DNA fragments Nucleic Acids Research. ,vol. 33, ,(2005) , 10.1093/NAR/GNI070
Joanne M. Yeakley, Jian-Bing Fan, Dennis Doucet, Lin Luo, Eliza Wickham, Zhen Ye, Mark S. Chee, Xiang-Dong Fu, Profiling alternative splicing on fiber-optic arrays Nature Biotechnology. ,vol. 20, pp. 353- 358 ,(2002) , 10.1038/NBT0402-353
Daniel D. Shoemaker, Deval A. Lashkari, Don Morris, Mike Mittmann, Ronald W. Davis, Quantitative phenotypic analysis of yeast deletion mutants using a highly parallel molecular bar-coding strategy. Nature Genetics. ,vol. 14, pp. 450- 456 ,(1996) , 10.1038/NG1296-450
Simon Fredriksson, Mats Gullberg, Jonas Jarvius, Charlotta Olsson, Kristian Pietras, Sigrún Margrét Gústafsdóttir, Arne Östman, Ulf Landegren, Protein detection using proximity-dependent DNA ligation assays Nature Biotechnology. ,vol. 20, pp. 473- 477 ,(2002) , 10.1038/NBT0502-473