[Illinois] ECE 416 Protein Microarrays II, Next Gen Sequencing I

By Brian Cunningham1, NanoBio Node1

1. University of Illinois at Urbana-Champaign

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           In this lecture, we start off by finishing the lecture of protein microarrays. We conclude with the practical issues and problems including the capture molecule not behaving uniformly and the antibody/antigen binding conditions are impossible to optimize for all pair simultaneously. The next lecture is then started called Next Generation DNA Sequencing. It starts off with a revision of DNA and the parts that make it up. The cost is then looked at and how now DNA can be sequenced for a lot less than what it was a few years ago. The first generation sequencer which is still the more dominant today is the sanger sequencing. Sequencing is determining the order of nucleotide bases and can be useful for genetic differences and relationships to health/disease. It can also be used as a disease diagnostics tool. The process and theory for how this first gen sequencing is used is then explained in detail. After that we take a look at the Next Generation DNA Sequencing by a company called Illumina and their product. The method and process for how their DNA Sequencing tool works is then discussed for the remainder of the lecture in detail.


My research group is focused on the application of sub-wavelength optical phenomena and fabrication methods to the development of novel devices and instrumentation for the life sciences. The group is highly interdisciplinary, with expertise in the areas of microfabrication, nanotechnology, computer simulation, instrumentation, molecular biology, and cell biology. In particular, we are working on biosensors based upon photonic crystal concepts that can either be built from low-cost flexible plastic materials, or integrated with semiconductor-based active devices, such as light sources and photodetectors, for high performance integrated detection systems.

Using a combination of micrometer-scale and nanometer-scale fabrication tools, we are devising novel methods and materials for producing electro-optic devices with nanometer-scale features that can be scaled for low-cost manufacturing. Many of our techniques are geared for compatibility with flexible plastic materials, leading to applications such as low cost disposable sensors, wearable sensors, flexible electronics, and flexible displays. Because our structures manipulate light at a scale that is smaller than an optical wavelength, we rely on computer simulation tools such as Rigorous Coupled Wave Analysis (RCWA) and Finite Difference Time Doman (FDTD) to model, design, and understand optical phenomena within photonic crystals and related devices.

In addition to fabricating devices, our group is also focused on the design, prototyping, and testing of biosensor instrumentation for high sensitivity, portability, and resolution. Advanced instruments enable high resolution imaging of biochemical and cellular interactions with the ability to monitor images of biochemical interactions as a function of time. Using the sensors and instrumentation, we are exploring new applications for optical biosensor technology including protein microarrays, biosensor/mass spectrometry systems, and microfluidics-based assays using nanoliter quantities of reagents. The methods and systems developed in the laboratory are applied in the fields of life science research, drug discovery, diagnostic testing, and environmental monitoring. -From Professor Cunningham's Faculty Profile

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Researchers should cite this work as follows:

  • Brian Cunningham; NanoBio Node (2013), "[Illinois] ECE 416 Protein Microarrays II, Next Gen Sequencing I," https://nanohub.org/resources/17703.

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University of Illinois, Urbana-Champaign, IL