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Theses/Dissertations

2008

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Full-Text Articles in Life Sciences

Rna Secondary Structure Detection Programs With An Emphasis On Covariance Models, Justin Slotman Dec 2008

Rna Secondary Structure Detection Programs With An Emphasis On Covariance Models, Justin Slotman

Theses

RNA secondary structure prediction requires a different approach from traditional alignment methods. Functional RNAs often have their secondary structure better conserved than their primary structure. Covariance models, probabilistic models that utilize stochastic-context-free grammars, are one approach. CMs allow for homology to be detected where purely sequence-based methods would fail. A background on CMs is given, as well as a background of the major classes of non-coding RNAs (ncRNAs). Comparisons are made between some CM-using tools (the Infernal suite and CMfinder) and some other RNA secondary structure tools (CARNAC, miRNAminer, Pfold, Mfold) as well as between Infernal and the primary alignment ...


Towards The Total Synthesis Of Thioviridamide: Thiyl Radical Approach To The Beta-Thioenamide Linkage Formation, Jung-Hoon Kang Dec 2008

Towards The Total Synthesis Of Thioviridamide: Thiyl Radical Approach To The Beta-Thioenamide Linkage Formation, Jung-Hoon Kang

Theses and Dissertations

We developed an approach to the β-thioenamide linkage contained in the S-(2-aminovinyl)cysteine (avCys) residue of thioviridamide.1,2 Kinetic and thermodynamic control of radical additions of thiols to ynamides were studied for the formation of β-thioenamide linkage. Thiyl radicals are electrophilic and ynamides are electron-rich alkynes. This complementary polarity of the radical and acceptor increases the likelihood of a successful radical addition reaction. Because little is known about these types of compounds (β-thioenamides), we were unsure what kinds of yields and stereoselectivities (cis vs. trans) to expect. The adduct stability is another issue to consider. Fortunately, under typical ...


Ethanol Sensitivity And Tolerance Of Rat Neuronal Bk Channels: A Dissertation, Patricia M. Wynne Dec 2008

Ethanol Sensitivity And Tolerance Of Rat Neuronal Bk Channels: A Dissertation, Patricia M. Wynne

GSBS Dissertations and Theses

BK channels are well studied targets of acute ethanol action. They play a prominent role in neuronal excitability and have been shown to play a significant role in behavioral ethanol tolerance in invertebrates. The focus of my work centers on the effects of alcohol on the BK channel and comprises studies that examine how subcellular location affects acute ethanol sensitivity and how duration of acute alcohol exposure impacts the development of rapid tolerance. My results also provide potential mechanisms which underlie acute sensitivity and rapid tolerance.

I first explore BK channel sensitivity to ethanol in the three compartments (dendrite, cell ...


Comparison Of Two Training Programs On Acceleration Out Of The Break In American Football, Micah Adam Alba Dec 2008

Comparison Of Two Training Programs On Acceleration Out Of The Break In American Football, Micah Adam Alba

Theses and Dissertations

Athletes of American football need the ability to stop, start, and reach top speed in an efficient manner. Football players on the defensive side of the ball require the skill of stopping a backward run and accelerating to a forward run. This action is termed the break. Football players receive year-round training in an effort to improve performance. Yet, many times, these athletes may not focus specifically on the muscular systems that are unique to the position they play. The law of specificity states that the more specific the training is for the action required, the more beneficial the outcome ...


Urinary Excretion Of (1-3)-Beta-D-Glucans., Debra K. Head Dec 2008

Urinary Excretion Of (1-3)-Beta-D-Glucans., Debra K. Head

Electronic Theses and Dissertations

(1→3)-β-D-Glucans are carbohydrate polymers that are present in the cell wall of various fungi and bacteria; they are pathogen associated molecular patterns that circulate during infection and modulate immunity. Our laboratory has previously established the pharmacokinetics of intravenously and orally administered glucans; the present studies investigated the renal excretion of (1→3)-β-D-glucans following intravenous and oral administration. Three fluorescently-labeled glucans were administered to adult male rats in the presence or absence of toxic challenge. Urine specimens were collected and analyzed by fluorescence spectroscopy, size-exclusion chromatography and GPC/MALLS. 71 ± 3% of fluorescence remained in the >5K MWCO ...


Elucidating The Role Of The Α7 Nicotinic Receptor In The Etiology Of Schizophrenia., Michelle Johnson Chandley Dec 2008

Elucidating The Role Of The Α7 Nicotinic Receptor In The Etiology Of Schizophrenia., Michelle Johnson Chandley

Electronic Theses and Dissertations

The α7 subunit of the nicotinic receptor, a ligand gated ion channel with an affinity for nicotine, has long been implicated in the pathophysiology of schizophrenia due to the extremely high rate of smoking within the patient population. However, the exact role of the receptor has never fully been determined. In the following studies, various functions the receptor may assume in disease state are evaluated. There is a strong relationship between the immune system and schizophrenia, with the α7 subunit possibly serving as the link between the two. One of the following studies looks at the possibility of the receptor ...


Iron Acquisition In Rhodococcus Erythropolis Strain Igts8: Characterization Of A Mutant Strain That Over Produces Siderophore., Melanie Anne Pratt Dec 2008

Iron Acquisition In Rhodococcus Erythropolis Strain Igts8: Characterization Of A Mutant Strain That Over Produces Siderophore., Melanie Anne Pratt

Electronic Theses and Dissertations

Iron is an essential nutrient for most bacteria because enzymes like nitrate reductase and cytochromes use it as a cofactor. However, in most aerobic, neutral pH environments, iron is essentially insoluble and not easily available for bacteria to use. Many bacteria respond to this problem by releasing small organic compounds called siderophores that bind and effectively solubilize iron so that it can be transported into the cell for growth. The focus of this study was to learn more about the iron acquisition and especially the transport of iron by the soil bacterium Rhodococcus erythropolis. To fulfill this aim, mutant strains ...


Herpes Simplex Virus Glycoprotein D/Host Cell Surface Interaction Stimulates Chlamydia Trachomatis Persistence Via A Novel Pathway., Jennifer Vanover Dec 2008

Herpes Simplex Virus Glycoprotein D/Host Cell Surface Interaction Stimulates Chlamydia Trachomatis Persistence Via A Novel Pathway., Jennifer Vanover

Electronic Theses and Dissertations

When presented with certain unfavorable environmental conditions, C. trachomatis reticulate bodies (RBs) enter into a viable, yet noncultivable state called persistence. Two hallmarks of persistent chlamydiae are swollen, aberrantly shaped RBs, as viewed by transmission electron microscopy and a decrease in infectious progeny. Several models of chlamydial persistence have been described, including interferon-γ (IFN-γ), IFN-α, IFN-β, and tumor necrosis factor-α-exposure and nutrient deprivation. Previously, we established an in vitro co-infection model of two of the most common sexually transmitted pathogens in the United States, C. trachomatis and Herpes Simplex Virus-2 (HSV). Data from this tissue culture model indicate that: i ...


Ecology Of The Evening Bat (Nycticeius Humeralis) At The Northern Edge Of The Range, Olivia Maya Munzer Dec 2008

Ecology Of The Evening Bat (Nycticeius Humeralis) At The Northern Edge Of The Range, Olivia Maya Munzer

Master's Theses and Doctoral Dissertations

Only a single colony of evening bats (Nycticeius humeralis) is known to occur in Michigan, and it is the northernmost colony on the North American continent. In mid-May, only female evening bats migrate to Michigan to raise their pups, and in late August, evening bats migrate to southern portions of their range, where they are ubiquitous. I studied the roosting and dietary ecology of the evening bat in southeastern Michigan. Evening bats roosted in cavities, crevices, and under exfoliating bark of older trees located in a bottomland forest, interlaced with waterways and surrounded by agricultural fields. These habitats play an ...


Vps45p As A Model System For Elucidation Of Sec1/Munc18 Protein Function: A Dissertation, Melonnie Lynn Marie Furgason Dec 2008

Vps45p As A Model System For Elucidation Of Sec1/Munc18 Protein Function: A Dissertation, Melonnie Lynn Marie Furgason

GSBS Dissertations and Theses

Vesicular trafficking, the movement of vesicles between organelles and the plasma membrane for secretion, consists of multiple highly regulated processes. Many protein families function as specificity and regulatory determinants to ensure correct vesicle targeting and timing of trafficking events. The SNARE proteins dock and fuse vesicles to their target membranes. Sec1/Munc18 (SM) proteins regulate membrane fusion through interactions with the SNAREs—SM proteins have been shown to act as both inhibitors and stimulators of SNARE assembly and membrane fusion. However, the details of these SM protein functions are not understood.

Constructing a model of SM protein function has been ...


Effects Of Light Exposure On The Release Of Oxygen From Hemoglobin In A Red Blood Cell Suspension, Tanikka Toler Dec 2008

Effects Of Light Exposure On The Release Of Oxygen From Hemoglobin In A Red Blood Cell Suspension, Tanikka Toler

Theses and Dissertations

The main function of the cardiovascular system is to deliver a sufficient quantity of oxygenated blood to the tissues, cells, and organs of the body in order to provide the cells with essential nutrients for metabolism and for the removal of waste products. All cells require and utilize oxygen. Oxygen is transported to various cells and tissues via red blood cells flowing through the microcirculation of an organism. Measurement of oxygen transport in the microcirculation has shown that about ten times more oxygen appears to leave the blood of arterioles than can be accounted for by diffusion. One possibility to ...


Effects Of Metal Protoporphyrins On Burn Wound Conversion, Katie Braun Dec 2008

Effects Of Metal Protoporphyrins On Burn Wound Conversion, Katie Braun

Theses and Dissertations

A murine model was utilized to test the influence of heavy metal protoporphyrins on burn conversion, heme oxygenase – 1 (HO-1) expression, and inflammation. Heavy metal protoporphyrins, such as cobalt protoporphyrin (Co PP) and tin protoporphyrin (Sn PP), were used to influence the heme oxygenase activity. The effects of these heavy metal protoporphyrins on burn wound conversion were examined using a burn comb model in rats. In addition to assessing the extent of conversion, HO-1 expression and parameters of inflammation were also examined in the area of injury (interspace region) subject to conversion. These studies demonstrate proof in principal that pharmacologic ...


Does Shape Predict Performance? An Analysis Of Morphology And Swimming Performance In Great Basin Fishes, John R. Aedo Dec 2008

Does Shape Predict Performance? An Analysis Of Morphology And Swimming Performance In Great Basin Fishes, John R. Aedo

Theses and Dissertations

Swimming performance strongly influences fitness in aquatic organisms and is closely tied to external body morphology. Although this connection has been closely examined at the individual and species level, few studies have focused on this relationship as it pertains to functional group assemblages. Using functional groups based on similarities in habitat use and morphology, I tested the hypothesis that swimming performance can be reliably predicted by functional group composition. I measured swimming performance as burst speed using a simulated predator attack and as prolonged speed using a step-endurance test in a laboratory flume. I measured morphology using geometric morphometric techniques ...


A Population Genetic Study Of Middle Eastern Populations Using Dys 458 Microvariants And Cohen Modal Haplotypes, Enass Nabeel Tinah Dec 2008

A Population Genetic Study Of Middle Eastern Populations Using Dys 458 Microvariants And Cohen Modal Haplotypes, Enass Nabeel Tinah

Theses and Dissertations

A comprehensive population study in the Middle East was conducted using different genetic markers in order to establish a wider genetic profile of the Middle Eastern populations. The main goal of this study was to analyze DNA from samples collected from different locations, and produce genetic motifs and patterns that could be used to identify and distinguish the target populations. This information will allow us to analyze the ancestry of these populations, their interactions through time and space, and the effects these interactions have on the populations' structure. We have collected around 1300 individual samples from different populations in the ...


Molecular Mechanisms Involved In Oligodendrocyte Development, Rochelle Coelho Dec 2008

Molecular Mechanisms Involved In Oligodendrocyte Development, Rochelle Coelho

Theses and Dissertations

Multiple sclerosis (MS) is a chronic disease of the central nervous system (CNS) characterized by demyelination and loss of oligodendrocytes (OLGs), the CNS myelin-producing cells. Thus, understanding the mechanisms that control OLG development can provide valuable knowledge regarding remyelination therapies for MS. This disease is thought to result from an autoimmune attack towards myelin. FTY720, an immunomodulator under evaluation for MS treatment is a sphingosine-1-phosphate (S1P) analog. We found before that S1P plays a crucial role in the NT-3-mediated survival of OLGs, an observation that led us to investigate whether FTY720 could have any effect on these cells. Our studies ...


A Correlational Study: The Relationship Between Physical Activity Levels, Physical Self-Worth, And Global Self-Worth In High School Physical Education Students, Ashley Danelle Eyre Dec 2008

A Correlational Study: The Relationship Between Physical Activity Levels, Physical Self-Worth, And Global Self-Worth In High School Physical Education Students, Ashley Danelle Eyre

Theses and Dissertations

The purpose of this study was to determine the relationship between physical activity levels, physical self-worth, and its sub-domains; (a) skill, (b) body attractiveness, (c) fitness and conditioning, and (d) strength, and overall global self-worth in high school students. One-Hundred and sixty-seven students (male = 66;female = 101) from the western United States, ages 13-18, participated in this study. Each participant completed a minimum of four days of physical activity (PA) data collection and completed the self-worth questionnaire. Pedometers were used to collect PA levels, calculating mean step counts, and the Children and Youth Physical Self-Perception Profile (CY-PSPP) was used to ...


Regulation Of Mdm2 Mediated Nfκb2 Pathway In Human Lung Cancer, Lathika Mohanraj Dec 2008

Regulation Of Mdm2 Mediated Nfκb2 Pathway In Human Lung Cancer, Lathika Mohanraj

Theses and Dissertations

Overexpression of oncoprotein MDM2 and mutations of tumor suppressor p53 are frequently observed in human cancers. The NFκB pathway is one of the deregulated pathways in oncogenesis. The overall goal of the project was to study the regulation of NFκB pathway by MDM2 in lung cancer. Our first effort was to determine the frequency of MDM2 overexpression in human lung tumor samples and to identify co-occurring abnormal gene expression by studying the levels of MDM2 and members of NFκB pathway with respect to p53 status. Higher than normal levels of MDM2 were found in approximately 30% of the cancer samples ...


The Effects Of Excess Corticosterone On Lkb1 And Ampk Signaling In Skeletal Muscle Of Rats, Gary N. Nakken Dec 2008

The Effects Of Excess Corticosterone On Lkb1 And Ampk Signaling In Skeletal Muscle Of Rats, Gary N. Nakken

Theses and Dissertations

Cushing's syndrome and glucocorticoid therapy lead to central obesity, insulin resistance, and symptoms of altered energy regulation similar to those observed in the metabolic syndrome. We hypothesized that excess glucocorticoids alter energy sensing/signaling in skeletal muscle through mediation of the LKB1/AMPK signaling pathway. To test this hypothesis, three 100 mg pellets of corticosterone were implanted subcutaneously in each of nine rats for two weeks. Responses were compared with sham operated controls fed ad libitum or food restricted to produce the body weights similar to the treatment group rats. After the treatment period, animals were anesthetized and the ...


Co-Administration Of Sildenafil Potentiates Doxorubicin-Induced Apoptosis In Prostate Cancer: The Role Of Nf-Kappab, Sarah Hassanieh Dec 2008

Co-Administration Of Sildenafil Potentiates Doxorubicin-Induced Apoptosis In Prostate Cancer: The Role Of Nf-Kappab, Sarah Hassanieh

Theses and Dissertations

Our recent studies have shown that that erectile dysfunction (ED) drugs including Sildenafil (Viagra), Vardenafil (Levitra) and Tadalafil (Cialis) enhance killing of several types of cancer cells by anticancer drug, Doxorubicin (DOX). We observed increased cell death by apoptosis in response to the combined treatment with ED drugs and DOX. However, the mechanism of such enhancement of cell death by combined treatment of ED drugs and DOX is not fully understood. Nuclear factor-κB (NF-κB) is an oxidant-sensitive transcription factor that plays a critical role in the immediate-early activation of a multitude of genes that have been documented to play critical ...


Using Pedometers As A Valid Method Of Determining Physical Activity Intensity Level, Alan M. Groves Dec 2008

Using Pedometers As A Valid Method Of Determining Physical Activity Intensity Level, Alan M. Groves

Theses and Dissertations

As researchers explore the benefits of using pedometers to assess physical activity they are discovering that intensity of physical activity may be estimated from steps per minute (SPM). The purpose of this study was to determine the SPM and kilocalories (kcals) expended associated with moderate physical activity in middle school students (12 - 14 years old). Methods: Ninety-three (49 boys, 44 girls) middle school youth between the ages of 12 and 14, walked on a treadmill at four different speeds (4.0, 4.8, 5.64, and 6.4 km/h) for three minutes at each speed. Each participant wore a ...


Mechanisms For Methylmercury Cell-To-Bath Transport By The Basolateral Membrane Of The Rabbit Proximal Tubule, Carol Ann Hoban Dec 2008

Mechanisms For Methylmercury Cell-To-Bath Transport By The Basolateral Membrane Of The Rabbit Proximal Tubule, Carol Ann Hoban

Biology Dissertations

The bath-to-cell transport, cytosolic concentration, and tubular content of methylmercury (Me203Hg+) and the sulfhydryl-amino acids and sulfhydryl-amino acid derivatives conjugated to Me203Hg+ were studied in the non-perfused S2 segments of the proximal tubule of the rabbit kidney. Active transport of Me203Hg+ was established by a temperature dependent (greater than 100% reduction in bath-to-cell transport, 99% decrease in cytosolic concentration, 63% decline in the tubular contents at 12°C when compared to 37°C). Conjugates of Me203Hg+ showed mixed results, with L-cysteine and L-taurine demonstrating the most significant increase in uptake. Transport of Me203Hg+-L-cysteine was also temperature dependent with a ...


Crosstalk Between Mdm2 And Akt Signaling Pathway In Oncogenesis., Mahesh Ramamoorthy Dec 2008

Crosstalk Between Mdm2 And Akt Signaling Pathway In Oncogenesis., Mahesh Ramamoorthy

Theses and Dissertations

MDM2, the human homologue of the Mouse Double Minute 2 gene product, has been shown to be over-expressed in many cancers and to induce tumorigenesis. The role of MDM2 in oncogenesis was thought to be p53 dependent. However recent years have shown MDM2 to be a key player in a complex network of interactions that affect cell cycle, apoptosis, and tumorigenesis in a p53 independent manner. Here we report a novel p53 independent role for the multidimensional protein MDM2; its ability to induce phosphorylation of Akt at serine 473 residue. Transient and stable over-expression of MDM2 in cultured cell lines ...


Does Light Control Algal Abundance In Large River Systems?, Amy Macdonald Dec 2008

Does Light Control Algal Abundance In Large River Systems?, Amy Macdonald

Theses and Dissertations

A limited amount of research has been done to investigate the factors influencing algal abundance in large river systems. This study examines light as the primary factor that controls algal abundance in the Upper Mississippi, Missouri and Ohio Rivers. Data were collected for 2004 in conjunction with the Environmental Monitoring Assessment Program- Great River Ecosystems EMAP-GRE project using EPA approved methods. Chlorophyll a concentrations were 34.6 µg•L-1 in the Upper Mississippi, 19.8 µg•L-1 in Missouri River and 9 µg•L-1 in the Ohio River for 2004. Chlorophyll a concentrations were significantly different among the three rivers ...


Gene Expression Profiles As Molecular Indicators Of Dissolved Oxygen Stress In Grass Shrimp Palaemonetes Pugio Holthuis 1949, Tiandao Li Dec 2008

Gene Expression Profiles As Molecular Indicators Of Dissolved Oxygen Stress In Grass Shrimp Palaemonetes Pugio Holthuis 1949, Tiandao Li

Dissertations

Occurrence and severity of hypoxia is increasing in coastal and estuarine environments, and recovery of impacted habitats and living resources is slow. Detection of early biological effects of hypoxia is needed for timely remedial action to be taken. The overall objectives of this research was to develop molecular indicators of dissolved oxygen stress to assess the biological impact of hypoxia in coastal estuaries and validate their use through a combination of laboratory and field studies. To achieve these goals, grass shrimp, Palaemonetes pugio, oxygen-sensitive and hypoxia-tolerant species abundant in estuarine systems, were exposed to hypoxia under controlled laboratory conditions, and ...


Roles, Perceptions, And Control Of Infant Feeding Among Low-Income Fathers In East Tennessee, Kristen Erika Anderson Dec 2008

Roles, Perceptions, And Control Of Infant Feeding Among Low-Income Fathers In East Tennessee, Kristen Erika Anderson

Masters Theses

INTRODUCTION: Introduction of solid foods before the recommended age of 4-6 months is a common practice in the United States, and appears to be especially prevalent among infants who are enrolled in the Special Supplemental Nutrition Program for Women, Infants, and Children (WIC). Currently, little is known about how fathers influence early infant feeding decisions, outside of the decision to breast- or formulafeed. The purpose of this study was to explore how fathers perceive the role they play in feeding and caring for their infants. METHODS: Participants were 21 male-caregivers, who were fathers or partners of the mothers of WIC ...


The Development Of A Dual-Tag Affinity Purification System And Its Application To Elucidate The Interacting Protein Network Surrounding The Human Telomere Binding Proteins Trf1, Trf2, And Pot1, Richard John Giannone Dec 2008

The Development Of A Dual-Tag Affinity Purification System And Its Application To Elucidate The Interacting Protein Network Surrounding The Human Telomere Binding Proteins Trf1, Trf2, And Pot1, Richard John Giannone

Doctoral Dissertations

Protein-protein interactions (PPI) play a vital role in almost every cellular process. Although many methodologies exist to probe PPIs, one of the most successful and widely employed is tandem affinity purification coupled with liquid chromatography and tandem mass spectrometry (LC-MS/MS). Although best demonstrated in yeast, TAP has encountered significant hurdles in its application to mammalian systems, especially the observed low yield of bait protein and its interacting partners after two consecutive purifications.

To address these issues, a novel dual-tag affinity purification (DAP) system was developed that not only enhances bait protein recovery, but also allows for rapid evaluation of ...


Investigating The Oligomerization Of Vitronectin, Yacynth Ruwansara Dec 2008

Investigating The Oligomerization Of Vitronectin, Yacynth Ruwansara

Masters Theses

Vitronectin is a multi-functional glycoprotein that is present in the plasma and extra-cellular matrix of eukaryotes. It is capable of binding a wide variety of structurally different ligands, including plasminogen activators, plasminogen activator-inhibitors, proteases, cell surface receptors and components of the extra-cellular matrix. Vitronectin exists in two conformations – as a monomer in circulation, and as a multimer in the extracellular matrix. The pathway by which vitronectin undergoes the transition from monomer to multimer is not well characterized, but this laboratory has put forward evidence to suggest that the binding of vitronectin with plasminogen activator inhibitor type-1 (PAI-1), facilitates higher order ...


Plant Improvement For Insect Resistance: Testing Of The Candidate Organism Beauveria Bassiana, Transgenic Tobacco Expressing Protease Inhibitors, And Rapid Screen Of Insect Resistance Genes In An Agroinfiltration Transient Expression System, Brian M. Leckie Dec 2008

Plant Improvement For Insect Resistance: Testing Of The Candidate Organism Beauveria Bassiana, Transgenic Tobacco Expressing Protease Inhibitors, And Rapid Screen Of Insect Resistance Genes In An Agroinfiltration Transient Expression System, Brian M. Leckie

Doctoral Dissertations

This study focused on three aspects of plant improvement for insect resistance including: testing of candidate organisms for their production of insecticidal proteins, testing of transgenic plants expressing insect resistance genes, and testing novel systems for the evaluation of insect resistance genes. In the initial part of this study, the candidate fungus Beauveria bassiana was tested for its production of insecticidal proteins through a series of insect bioassays containing fungal protein extracts. These extracts were shown to be orally toxic to Plutella xylostella (diamondback moth) and Spodoptera frugiperda (fall armyworm). Assays involving protease treatments significantly decreased mortality indicating the presence ...


Evolution Of The Set Of Signal Transduction Proteins In 10 Species Of Shewanella, Harold Arthur Shanafield Dec 2008

Evolution Of The Set Of Signal Transduction Proteins In 10 Species Of Shewanella, Harold Arthur Shanafield

Masters Theses

The recent completion of the sequencing of several species of the Shewanella genus provides a unique opportunity for comparative genomics studies. We chose the first 10 fully sequenced Shewanella genomes to investigate the evolution of signal transduction proteins (ST). ST is a universal and highly regulated system, and as a very well-studied system provides an excellent starting point for investigation. Furthermore, Shewanella have been shown to have a large number of two-component systems and diguanylate cyclases relative to their genome size. In this study we investigate the evolution of signal transduction across several Shewanella strains by utilizing a domainlevel approach ...


Evaluation Of Statistical Correlation And Validation Methods For Construction Of Gene Co-Expression Networks, Suman Duvvuru Dec 2008

Evaluation Of Statistical Correlation And Validation Methods For Construction Of Gene Co-Expression Networks, Suman Duvvuru

Doctoral Dissertations

High-throughput technologies such as microarrays have led to the rapid accumulation of large scale genomic data providing opportunities to systematically infer gene function and co-expression networks. Typical steps of co-expression network analysis using microarray data consist of estimation of pair-wise gene co-expression using some similarity measure, construction of co-expression networks, identification of clusters of co-expressed genes and post-cluster analyses such as cluster validation. This dissertation is primarily concerned with development and evaluation of approaches for the first and the last steps – estimation of gene co-expression matrices and validation of network clusters. Since clustering methods are not a focus, only a ...