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Biomolecular interactions with the Biacore T100 The latest addition to the Laboratory for Genomics and Bioinformatics is the Biacore T100. The Biacore T100 uses surface plasmon resonance (SPR) technology, to detect Biomolecular interactions in real time and label-free. SPR technology detects the change in reflected light angle from the side of the chip opposite of the flow channel according to the mass bound to the surface of the chip. The advantages of the Biacore T100 are its sensitivity, temperature controls, improved microfluidics and software, and automation.
DNA sequencing The Laboratory for Genomics and Bioinformatics provides a full service DNA sequencing facility for large and small projects. The facility currently houses:
Read more or access our sequencing order forms.
Agilent 2100 Bioanalyzer: RNA, DNA and Protein Sample Analysis We now offer the capability of assessing the quality of total RNA, mRNA, and small RNA, using only 1ul of sample. The Agilent 2100 Bioanalyzer is a microfluids-based platform replacing standard gel electrophoresis for RNA sample QC, DNA fragment analysis, and SDS-page electrophoresis for proteins. The small volume allows you to conserve valuable sample and with a 30 minute run-time per chip you will be able to determine the quality and quantity of up to 12 total RNA samples and 11 small RNA samples. The analysis will include graphic visualization of ribosomal peaks (23S and 16S) or (28S and 18S), ribosomal ratio, RNA concentration, a calculated RIN (RNA Integrity Number) value, and a gel-like image RNA sample. Although the Bioanalyzer analysis will quantitate RNA samples, in our experience RNA readings are more accurate using the NanoDrop ND-1000 UV-Vis Spectrophotometer which we provide for each sample submitted. NanoDrop is also available as a separate service for both RNA, DNA, and protein quantitation. The following is a partial list of applications for Agilent's Lab-on-a-Chip® technology for RNA, DNA, and protein analysis. For a more complete list of applications to meet your research needs: Agilent Bioanalyzer Compendeum. At this time the Bioanalyzer 2100 in the core facility is not equipped with a flow cell needed for cell fluorescence analysis.
Proteomics The Laboratory for Genomics and Bioinformatics now houses a Beckman PF2D proteomics lab for two dimensional protein maps. The PF2D by Beckman is a fairly recent addition to our lab. It is a two-dimensional fractionation system that gives high resolution analysis of complex protein mixtures. The proteins are separated first by pI (1st dimension chromatofocusing) then further fractionated by hydrophobicity (2nd dimension reverse-phase chromatography). The 2nd dimension liquid fractions can be used immediately (ie: for mass spectrometry) or stored at -80°C for later analysis.
Oligonucleotide Synthesis Oligonucleotide sequencing service has been discontinued. Please contact Dr. Allison Gillaspy if you have any questions.
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Fee Structure Pricing information for all of our services is available in three different formats below:
Bioinformatics Support We also offer bioinformatics support through our Informatics Core, directed by Jeremy Zaitshik. Our website also hosts local web tools, tutorials, reviews, links and software. Please note that we do not provide Tier 1 IT support.
Real Time PCR We are now offering our new Applied Biosystems 7500 Fast Real-Time PCR machine for real-time PCR applications. The ABI 7500 Fast Real-Time PCR system has a new high-speed thermal-cycling block and new master mix formulations that allow the user to perform real-time PCR runs in less than 40 minutes. Variable excitation and five-color detection allow the use of several dyes, including FAM/SYBR Green I, VIC/JOE, NED/TAMRA/Cy3, ROX/Texas Red, and Cy5, for greater assay versatility. With this one machine, we can perform a variety of applications, including absolute and relative quantification, identify gene expression changes, detect and quantitate pathogens, and SNP genotyping. The presence or absence of transgenes and other target sequences also can be determined.
Microarrays / Macroarrays The facility currently houses a Genomics Solutions GeneTac BioChip System consisting of a Flexys Robotic Workstation for sample arraying and a GeneTac Hybridization Station, as well as a Perkin Elmer Scan Array Express HT® [ macroarray printing order form ]
HLA Typing We currently offer HLA typing using methods developed by Dr. William Hildebrand of the Department of Microbiology and Immunology. High resolution sequence-based typing is performed using a solid phase technology. Genomic DNA is extracted from whole blood or cells and class I or class II specific PCR is then performed. For class I molecules all of exon 2 and exon 3 are sequenced in both directions. For class II molecules all of exon 2 is sequenced. This precisely establishes the HLA type of an individual. In addition to being an established research protocol, Dr. Hildebrand's laboratory is CLIA/ASHI accredited, and can provide transplant patients in Oklahoma with the highest quality HLA type for transplantation.
NanoDrop® Nucleic Acid and Protein Quantitation RNA, DNA, and protein samples can be measured with high accuracy and reproducibility using 1ul of sample. The NanoDrop® ND-1000 is a full spectrum (220-750 nm) spectrophotometer that uses a patented sample retention technology that holds the sample in place between the two measurement pedestals by surface tension creating a controlled light path gap.
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