Below is a list of our active or completed sequencing projects. Click any link for detailed information.
Here you will find an archive of all the projects that were previously featured on our home page.
Interactive Web-based Program for Smoking
Cessation
Tobacco use is widely recognized as the most preventable causes of cancer in the United States. Furthermore, tobacco use is
responsible for 30% of all cancer-related deaths in the United States. Dr. Stephen Gillaspy (Assistant Professor of
Pediatrics) is developing and testing an interactive web-based computer program to facilitate motivation and readiness to
cease tobacco use and engage in smoking cessation services.
[ read more ]
InterGenetics Incorporated Provides New Service with Support from the DNA Sequencing Core Facility
InterGenetics Incorporated (IGI) is offering a new service to provide high throughput single nucleotide polymorphism (SNP) genotyping to academic investigators
and other biotechnology companies. IGI is a biotechnology and bioinformatics based company residing in the commercial Research Park located adjacent to the
University of Oklahoma Health Sciences Center campus in Oklahoma City. IGI has significant expertise in developing and implementing multiplexed SNP assays
through its development of a test for genetic predisposition to breast cancer. This breast cancer project involved extensive genotyping of a collection of over
7500 women of which over 2500 had been diagnosed with breast cancer. Over a million individual SNP genotype determinations have been made by IGI over the course
of this and other related projects. This experience has resulted in the development of efficiencies and expertise in SNP genotyping that InterGenetics is making
available to other investigators.
[ read more ]
HLA Sequence Based Typing
The class I and class II major histocompatibility complex (MHC) molecules participate in most, if not all, adaptive immune
responses. A Nobel Prize was awarded for the discovery that MHC molecules mediate the rejection of transplanted tissues.
Additional Nobel Prizes were awarded for the discovery that class I MHC molecules mediate immune responses to
intracellular pathogens and that class II molecules mediate immune responses to extracellular pathogens. MHC molecules
play a key role in most immune responses...
[ read more ]
Evolution of Hepatitis C Virus during mother-to-child transmission
Previous work in the laboratory of Dr. Christopher Walker at The Columbus Children's Research Institute (CCRI,
Columbus, OH) demonstrated that the evolution of mutations in the Hepatitis C virus (HCV) accumulate within regions of
the virus that are recognized by cytotoxic T lymphocytes (CTL). These immunogenic virus peptides are termed "epitopes"
and are presented by infected cells within major histocompatibility complexes (MHC molecules) on the cell surface.
These MHC molecules help the immune system recognize "self" from "non-self" by displaying peptides from normal tissue
("self" which CTL ignore), as well as foreign epitopes ("non-self" i.e. virus particles, which trigger CTL to kill the
infected cell)...
[ read more ]
Polysaccharide capsule biosynthesis in Cryptococcus neoformans
Dr. Tamara Doering's laboratory at the Washington University Medical School studies the pathogenic yeast Cryptococcus
neoformans, which causes opportunistic infections in immunocompromised individuals. Her lab investigates unique
biochemical aspects of cryptococcal biology that are potential targets for antifungal chemotherapy...
[ read more ]
Genome Sequence of nontypeable Haemophilus influenzae
Recently, Drs. Lauren Bakaletz and Robert Munson at the Columbus Children's Research Institute and The Ohio State University,
published the genome sequence of a strain of nontypeable Haemophilus influenzae. These studies were done in collaboration with the OUHSC Laboratory
for Genomics and Bioinformatics. In 1995, TIGR completed the genome sequence of a rough derivative of H. influenzae serotype d, strain KW20. Although
extremely useful in understanding the basic biology of H. influenzae, these data have not provided significant insight into disease caused by
nontypeable H. influenzae, as serotype d strains are not pathogens. In contrast, strains of nontypeable H. influenzae are the primary pathogens
of chronic and recurrent otitis media in children...
[ read more ]
Genomic Diversity in Campylobacter jejuni
Campylobacteriosis is the most common enteric disease worldwide. Raw chicken,
unpasteurized milk and non-chlorinated water constitute the main sources of
Campylobacter infections. Since the publication of the genome sequence of
Campylobacter jejuni NCTC 11168 in February 2000, additional evidence
suggests that C. jejuni exhibits high genome diversity. This diversity
might, in part explain the large spectrum of disease outcomes, ranging from...
[ read more ]
High-throughput anthrax toxin mutagenesis
Two investigators at OUHSC (Drs. Rod Tweten and Jimmy Ballard) have recently published
studies using high-throughput DNA sequencing and oligonucleotide synthesis (provided by
the OUHSC Laboratory for Genomics and Bioinformatics), to identify potential therapeutic
agents for suppressing the lethal effects of anthrax toxin.
[ read more ]
Breast cancer risk assessment
InterGenetics, Inc. is a genetics-based bioinformatics company located in the Research Park
adjacent to OUHSC. InterGenetics is developing a breast cancer risk assessment tool to
identify women at high risk of developing breast cancer but not carrying mutations in the
BRCA1 or BRCA2 genes. This risk assessment tool, commercially available in 2005, is based
on a statistical model of risk derived from the analysis of data from a case-control
associative study of nearly 9,000 individuals.
[
read more
]
Genome sequence of Actinobacillus actinomycetemcomitans
The genome sequence and annotation of the human pathogen Actinobacillus actinomycetemcomitans
(Aa) were recently completed by the Laboratory for Genomics and Bioinformatics at OUHSC.
Aa is an important dental pathogen capable of causing several forms of periodontitis, a
severe infection of the soft tissues and bony structures supporting the teeth.
[
read more
]
Mitochondrial genomics of the Ray-finned fishes
Dr. Richard Broughton's laboratory at the Oklahoma Biological Survey
and the OU Department of Zoology is examining diversification among
genes, genomes, and organisms. His research uses molecular characters
to understand evolution at several levels including molecular evolution
at the genetic or genomic level, divergence of populations and species,
and phylogenetic patterns among species and higher taxa.
[
read more
]
Using short oligonucleotide viral-specific arrays
Microarrays of virus-specific oligonucleotides may provide a method of screening samples
simultaneously for the presence or absence of a large variety of viruses. The identification
of the virus associated with SARS as a coronavirus occurred in part through the use of a
microarray of long oligonucleotides (70-mers) designed to detect human respiratory viruses.
Arrays of short oligonucleotides (20-mers), in theory, have the potential of much greater
specificity.
[
read more
]
The genome sequence of Neisseria gonorrhoeae strain FA1090
The Principle Investigator on this project is Dr. David Dyer, Professor, Department
of Microbiology and Immunology at the OUHSC and Director of the Laboratory for
Genomics and Bioinformatics. Neisseria gonorrhoeae is an obligate human
pathogen that infects the urogenital tract to cause gonorrhea. Although disease
in males is typically an uncomplicated urogenital infection, in females the
infection can progress to more serious complications including salpingitis and
pelvic inflammatory disease.
The genome sequence of Staphylococcus aureus and its temperate bacteriophages
The Principal Investigator on this project is Dr. John Iandolo, Chair, Department of Microbiology
and Immunology at OUHSC. Sequencing and assembly of the 2.8 megabase genome of Staphylococcus
aureus 8325 is complete and the genome has been circularized. Strain 8325 is generally regarded
as the prototypical strain for all genetic manipulation.
[
read more
]
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