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PLENARY SESSION I
Friday, September 6
1:00-5:15
 

11:30-1:00 Conference Registration

Plenary Session I
Chairperson: Dr. Mauro Ferrari, The Ohio State University

 

1:00 Chairperson's Opening Remarks:
Dr. Mauro Ferrari, The Ohio State University

1:15 Converging Technologies (Nano/Bio/Info/Cogno) for Improving Human Performance:
Dr. Mihail C. Roco, National Science Foundation and U.S. National Science, Engineering and Technology Council'ssubcommittee on Nanoscale Science, Engineering and Technology (NSET)

1:45 Development of the DNA MicroArray Synthesizer:
Dr. Franco Cerrina, NimbleGen Systems and University of Wisconsin-Madison
We have developed an instrument for the rapid fabrication of custom high- and low-density DNA microarrays, and other oligonucleotide based chips. The tabletop system uses virtual masks, and consists of a UV projector and associated chemistry-handling fluidics. There are no moving parts, and the chip is never unloaded from its initial position until the completion of the fabrication. Using an XGA-type projection system we can form 1024 by 768 independent sequences on the chip, each approximately 15x15 µm2. The layout is completely under operator control, and several modes are available with different size pixels. The complete cycle time is below two hours, from data download to finished chip. After hybridization with the target material, the chip is read using conventional fluorescence scanners. The instrument is completely self contained, and occupies a footprint of approximately 2 by 3 feet. Several instruments have been developed and are in operation at NimbleGen.

The MAS allows the development of quick-turnaround custom arrays, with density chosen by the user. We will describe the operation of the instrument, the so called MAS 2.X generation, and illustrate some of the capabilities in term of high-density and other chips recently developed at NimbleGen Systems.

2:15 Fantastic Voyage: Nanobiotechnology's Promise to 21st-Century Medicine:
Dr. Carlo D. Montemagno, University of California, Los Angeles
Recent advances in single molecule manipulation in conjunction with developments in nanotechnology have established the opportunity for creating a new class of devices. These devices use the energy of life to move and manipulate individual molecules to add functionality to cellular systems while seamlessly integrating with life processes. This new technology may define the path that leads to the creation of sub-cellular engineered prosthetic systems. Presented will be the strategies and results of efforts directed at integrating motor proteins and other active biomolecules to create systems of nanomachines that result in hybrid living/non-living devices that can perform useful work. In addition, a systems modality for controlling multitudes of nanoscopic machines to enable the execution of complex macroscopic tasks will be discussed.

2:45 POSTER SESSION I
Refreshment Break with Exhibit and Poster Viewing

3:45 Self-Assembled Beadarrays™: A Universal Platform for Genotyping, RNA Profiling, and Protein Profiling:
Dr. David L. Barker, Illumina, Inc.
Illumina is developing a BeadArray™ technology that supports SNP genotyping, mRNA expression analysis and protein expression analysis on the same platform. We use fiber optic bundles with a density of approximately 40,000 fibers/mm2. At the end of each fiber, a derivatized silica bead forms an array element for reading out a genotyping or expression assay data point. Each bead contains oligonucleotide probes that hybridize with high specificity to complementary sequences in a complex nucleic acid mixture. We derivatize the beads in bulk, pool them to form a quality-controlled source of microarray elements, and allow them to assemble spontaneously into pits etched into the end of each optical fiber in the bundle. We load our fiber bundles, containing about 50,000 fibers, with up to 1500 different bead types. The presence of many beads of each type greatly improves the accuracy of each assay. As the final step in our manufacturing process, we decode the identity of each bead by a series of rapid hybridizations with fluorescent oligos. The decoding process is designed so that decoding accuracy and the number of beads of each type is recorded for each array. Decoding also serves as a quality control procedure for the performance of each element in the array. To facilitate high-throughput analysis of many samples, the fiber bundles are arranged in an array matrix (an Array of Arrays™), so that many samples can be assayed in parallel in a microplate. Using a 96-bundle array matrix, up to 2000 assays can be performed on each of 96 samples simultaneously for a total of 192,000 assays. Using a 384-bundle array matrix, up to 768,000 assays can be performed simultaneously.

Our BeadArray™ platform is adaptable to many different assays. In our genotyping services lab, we have automated the development and production of highly multiplexed SNP genotyping assays. Each SNP call is made automatically and assigned a quality score based on objective measures of allele clustering across multiple samples. The quality score correlates directly with genotyping accuracy, so that a required level of accuracy can be assured. With a small number of robots and thermal cyclers, and a team of 5 people, we have the capacity to perform over 1 million genotypes per day. The system is modular so that scale-up is limited only by demand. The system has the capacity, versatility, and cost structure to meet the needs of large-scale genomic analysis.

We also adapted the BeadArray platform for two different mRNA profiling assays. One is designed for monitoring large numbers of genes simultaneously. The other is designed for high-sensitivity monitoring of a smaller number of genes and their splice variants. We have shown the value of this assay for drug screening and for characterizing splice variants of many genes simultaneously. We have also demonstrated protein profiling for a limited number of targets, using beads derivatized with antibodies and with other protein-capture molecules.

4:15 Microfluidic Phenomenon and Polymer-Based Microfluidic Devices:
Dr. David J. Beebe, University of Wisconsin
Microfluidics is still an emerging technology. Fabrication methods, component designs and system applications have not yet matured, nor been widely accepted or standardized due to issues including cost, lack of integration and advancement of competing technologies. In order to compete in many markets, microfluidics needs further improvements in cost, performance and the development of appropriate applications. We have developed simple methods that enable functionality in microfluidic systems. Using basic physical phenomena that is dominate at the microscale (e.g. diffusion, surface tension) one can create new functionality, elegant system designs and low cost manufacturing methods. The use of liquid phase photopolymerization allows for the realization of channel networks in a few minutes. Extensions into three dimensions are possible by leveraging surface tension effects. Surface tension effects can also be exploited to achieve sample concentration and pumping schemes as well as the creation of "virtual" and liquid walls providing new functionality in microfluidic systems. Gel matrices can be used to achieve filtering and display functions. Autonomous function is possible by utilizing materials that undergo direct chemical to mechanical conversions enabling elegant system design (e.g. active valves, closed loop feedback control without electronics). Heating and cooling via chemical reactions further eliminates the need for electronics and batteries in order to achieve complex functionality. Further, simple microfluidic systems can enhance in vitro environments and enable improved study of living systems.

4:45 BioNEMS: Biofunctionalized Nanoelectromechanical Systems:
Dr. Michael L. Roukes, California Institute of Technology

5:15 Fundamental Nanoscience Engenders Medical Products:
Dr. Mauro Ferrari

5:45-7:00 Networking Reception

Co-Sponsor:
 

 



NEW POSTER COMPETITION
Gain visibility for your research by participating in the poster session.
Posters will be judged by a Scientific Advisory Board; over 60 posters are expected to be submitted. Cash prizes will be awarded.
Please fill out the registration form, giving the poster title and the poster's primary author. All submissions will be reviewed for possible inclusion for poster presentation.
Click here for poster instructions
PUBLICATION OF ARCHIVAL PAPERS IN BIOMEDICAL MICRODEVICES
Full-length papers based on podium or poster presentation at the conference will be reviewed for fast-track publication in Biomedical Microdevices. Submitted typed manuscripts are due at the conference.
RELATED CHI LIFE SCIENCE REPORTS 
DNA Microarray Informatics: Key Technological Trends and Commercial Opportunities
Conference Special! Attendees to this conference will receive a 20% discount on the purchase of this report!

Radical improvements in the tools for DNA microarray research are revolutionizing this field. This report, which was coauthored by renowned bioinformatics consultant Nathan Goodman, Ph.D., contains nearly 200 pages of insight into the methods and tools for microarray analysis, and categorizes more than 50 commercial and academic programs. In-depth interviews and comments are included from more than 20 leading experts at companies including Gene Logic, Genetics Institute, Partek, Pharmacia, Phase-1 Molecular Toxicology, and Silicon Genetics. The report also includes an extensive review of major analytical tools by category, a comprehensive list of recent microarray-analysis-related deals, and a glossary.

Print copy price: $1,250.00, conference attendee price: $1,000.00
Single-site electronic copy: $2,250.00, conference attendee price: $1,800.00
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For more information about this and other CHI Life Science Reports, please visit www.chireports.com or contact Cindy Ohlman at 781-972-5434.


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