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1. Development
Background
Two-dimensional
DNA chips are one of the most commonly used
substrates to analyze large numbers of genes. This
method uses high-density spots,
resulting in the need for precise control of spot
volume and long reaction times. There are also
issues associated with the immobilization of
samples on glass chips, probe peeling and
challenges in repeatability and
performance. Bio-Strand and PSS are
focused on the development of analytical methods
and technologies that will solve the technical
issues associated with the two-dimensional DNA
chip.
2. Advantages of the
Bio-Strand
System
(1)
One-step high-density sample application by simple
3D integration
High
density is achieved by using a three-dimensional
structure consisting of a thread-like scaffold
that contains immobilized DNA probes or PCR
product. The scaffold is wrapped around a core,
and the core is inserted into a specialized pipet
tip where hybridization, washing and detection
take place. Sample application takes place in a
single step.
(2)
Reduction of
cross-contamination
Each
sample is contained in a syringe-shaped tip to
form a barrier to cross-contamination. The barrier
is maintained during the mixing and reaction
steps.
(3)
Reduction of processing time and the achievement
of quantitative
measurement
The rate
of hybridization between sample and probe is
increased by the use of relatively high densities
of DNA. Quantitative measurement is also
feasible.
(4)
Process automation
The
process from hybridization to detection can be
automated within a tip. By using the Bio-Strand
System with Magtration®
Technology,
automation of the entire process from extraction
to detection can be
realized.
(5)
Application to proteome
analysis
Immobilization
of protein binding molecules to the Bio-Strand
array allows application to proteomic analysis as
well as genomic analysis.
3. Demonstration of the Bio-Strand System for SNP Analysis
Single nucleotide polymorphisms(SNP) can be distinguished by hybridization of sequence specific probes to target oligonucleotides attached to the Bio-Strand tip array. We are also able to detect single nucleotide differences in single strand PCR products produced from human genomic DNA templates. Detection of a single base change associated with the ATase SNP is demonstrated using 8 patient samples. Details of the results can be found in Applications.
4. Development of the NIAGALA Bio-Station FDx
NIAGALA Bio-Station FDx
Fully Integrated and Automated System for Gene Analysis from
sample extraction/purification, PCR clean-up, amplification and
hybridization to detection/analysis with process monitoring. |
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Fully Integrated and Automated System for Gene Analysis from sample extraction/purification
PCR clean-up, amplification and
hybridization to detection/analysis
with process monitoring
5. Handy Bio-Strand Kit
Low cost manual 3D Microarray
6. Publication
Three-Dimensional Microarray Platform Applied to Single Nucleotide Polymorphism
Analysis
Stimpson DI, Knepper SM, Shida M, Tajima H: Biotechnology and Bioengineering:
87 (6), 99-103, 2004
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