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2012

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W291-A Preventing Off-Target Herbicide Problems In Cotton Fields, G. Neil Rhodes Jr., Trevor D. Israel, Larry Steckel Dec 2012

W291-A Preventing Off-Target Herbicide Problems In Cotton Fields, G. Neil Rhodes Jr., Trevor D. Israel, Larry Steckel

Field & Commercial Crops

No abstract provided.


Pb1580-2013 Weed Control Manual For Tennessee, Larry Steckel, G. Neil Rhodes Jr., Chris Main, Barry Sims, Robert M. Hayes, Angela Mcclure, Thomas C. Mueller, Blake Brown Dec 2012

Pb1580-2013 Weed Control Manual For Tennessee, Larry Steckel, G. Neil Rhodes Jr., Chris Main, Barry Sims, Robert M. Hayes, Angela Mcclure, Thomas C. Mueller, Blake Brown

Field & Commercial Crops

No abstract provided.


Local Filters Limit Species Diversity, But Species Pools Determine Composition, Tara K. Rajaniemi, Deborah E. Goldberg, Roy Turkington, Andrew R. Dyer Dec 2012

Local Filters Limit Species Diversity, But Species Pools Determine Composition, Tara K. Rajaniemi, Deborah E. Goldberg, Roy Turkington, Andrew R. Dyer

Faculty Publications

In a series of three experiments, we tested for effects of species pools, resource stress, and species interactions on four aspects of community structure: species richness, evenness, species composition, and functional group composition. We also examined whether the impacts of species interactions on the community varied with resource availability or species pool. Communities of sand dune annuals grew from seed bank samples collected from two sites in three different years, so that the species pool differed at two levels: the source site and the year of seed bank collection. Communities experienced one of three irrigation treatments and a range of …


Effects Of Flight On Gene Expression And Aging In The Honey Bee Brain And Flight Muscle, Joseph Margotta, Georgina E. Mancinelli, Azucena A. Benito, Andrew Ammons, Stephen P. Roberts, Michelle M. Elekonich Dec 2012

Effects Of Flight On Gene Expression And Aging In The Honey Bee Brain And Flight Muscle, Joseph Margotta, Georgina E. Mancinelli, Azucena A. Benito, Andrew Ammons, Stephen P. Roberts, Michelle M. Elekonich

Life Sciences Faculty Research

Honey bees move through a series of in-hive tasks (e.g., “nursing”) to outside tasks (e.g., “foraging”) that are coincident with physiological changes and higher levels of metabolic activity. Social context can cause worker bees to speed up or slow down this process, and foragers may revert back to their earlier in-hive tasks accompanied by reversion to earlier physiological states. To investigate the effects of flight, behavioral state and age on gene expression, we used whole-genome microarrays and real-time PCR. Brain tissue and flight muscle exhibited different patterns of expression during behavioral transitions, with expression patterns in the brain reflecting both …


Utilization Of Agricultural Wastes In The Manufacture Of Composite Boards, Macatangay P.M, Mangundayao E.C, Rosales C.A.M Dec 2012

Utilization Of Agricultural Wastes In The Manufacture Of Composite Boards, Macatangay P.M, Mangundayao E.C, Rosales C.A.M

ASEAN Journal on Science and Technology for Development

Development of useful composite materials out of agricultural waste has become a desirable option in recycling. This led to the production of composite boards being used in the construction industry. In this paper, three types of available agricultural wastes in the province of Batangas — peanut shells, corn husks and banana sheath — were independently utilized in the production of composite boards. The raw materials were either air or sun dried, then crushed (for peanut shells) and extracted (for banana sheath and corn husks) before mixing with the binder. Urea formaldehyde (UF) was used as binder for peanut shells and …


Human Calmodulin Methyltransferase: Expression, Activity On Calmodulin, And Hsp90 Dependence, Sophia Magen, Roberta Magnani, Sitvanit Haziza, Eli Hershkovitz, Robert Houtz, Franca Cambi, Ruti Parvari Dec 2012

Human Calmodulin Methyltransferase: Expression, Activity On Calmodulin, And Hsp90 Dependence, Sophia Magen, Roberta Magnani, Sitvanit Haziza, Eli Hershkovitz, Robert Houtz, Franca Cambi, Ruti Parvari

Horticulture Faculty Publications

Deletion of the first exon of calmodulin-lysine N-methyltransferase (CaM KMT, previously C2orf34) has been reported in two multigene deletion syndromes, but additional studies on the gene have not been reported. Here we show that in the cells from 2p21 deletion patients the loss of CaM KMT expression results in accumulation of hypomethylated calmodulin compared to normal controls, suggesting that CaM KMT is essential for calmodulin methylation and there are no compensatory mechanisms for CaM methylation in humans. We have further studied the expression of this gene at the transcript and protein levels. We have identified 2 additional …


A Comparison Of Boltzmann And Gibbs Definitions Of Microcanonical Entropy For Small Systems, Randall B. Shirts Dec 2012

A Comparison Of Boltzmann And Gibbs Definitions Of Microcanonical Entropy For Small Systems, Randall B. Shirts

Faculty Publications

Two different definitions of entropy, S= klnW, in the microcanonical ensemble have been competing for over 100 years. The Boltzmann/Planck definition is that W is the number of states accessible to the system at its energy E (also called the surface entropy). The Gibbs/Hertz definition is that W is the number of states of the system up to the energy E (also called the volume entropy). These two definitions agree for large systems but differ by terms of order N-1 for small systems, where N is the number of particles in the system. For three analytical …


Performance Of Jatropha Oil-Based Biodiesel Fuel In A Single-Cylinder Four-Stroke Diesel Engine, Win H.H Dec 2012

Performance Of Jatropha Oil-Based Biodiesel Fuel In A Single-Cylinder Four-Stroke Diesel Engine, Win H.H

ASEAN Journal on Science and Technology for Development

Studies on alternative fuels have been active in Myanmar because the rapid mechanization of the agricultural sector demands higher diesel consumption. Jatropha oil-based biodiesel is one of the potential alternatives because of the relative ease of growing and producing this plant. In this study, both the experimental and theoretical analyses of Jatropha oil-based B20 biodiesel wereperformed and compared with conventional diesel. First, B20 was prepared by the base-catalyzed transesterification of the oil and its properties were measured. Second, separate performance tests were conducted on diesel and the biodiesel fuel using a LEYER-16 diesel engine. The speed range of interest was …


Developing A Generalized Combined Model For Gas-Liquid Two-Phase Flow Pressure Drop In Elbow Bends, Aung N.Z, Yuwono T Dec 2012

Developing A Generalized Combined Model For Gas-Liquid Two-Phase Flow Pressure Drop In Elbow Bends, Aung N.Z, Yuwono T

ASEAN Journal on Science and Technology for Development

In this work, a generalized combined model was proposed for prediction of two-phase flow pressure drop in elbow bends. In this proposed model, restriction, frictional and elevational losses were considered separately. The frictional and static losses were approached by using Lockhart_Martinelli correlation. This model was tested to predict the pressure drop across the elbows with inside diameter of 0.036 m and R/D = 0.6, 2.5. The superficial liquid velocity was varied in the range of0.3~1.1 m/s and volumetric gas quality was varied from 0.02~0.3. The results from this model had good predictions with a maximum error of ±13% for long …


Chemical Composition Of Leaf And Seed Oils Of Dryobalanops Aromatica Gaertn. (Dipterocarpaceae), Kamariyah A.S, Ozek T, Demirci B, Baser K.H.C. Dec 2012

Chemical Composition Of Leaf And Seed Oils Of Dryobalanops Aromatica Gaertn. (Dipterocarpaceae), Kamariyah A.S, Ozek T, Demirci B, Baser K.H.C.

ASEAN Journal on Science and Technology for Development

The essential oils of the leaves and seed of Dryobalanops aromatica Gaertn. obtained by hydrodistillation resulted in 0.07% and 1.89% yield, respectively. These oils were then examined by GC-MS. Eighty-three components (plus an unknown) were identified from the leaf oil, representing 92% of the oil. Oxygenated monocyclic monoterpenes (terpinen-4-ol 15%, α-terpineol 16%), bicyclic monoterpene (α-pinene 7%) and oxygenated bicyclic sesquiterpene (globulol 8%) were the major constituents. In the case of the seed oil, 31 components were identified, representing 100% of the oil, while acyclic monoterpene (myrcene 5%), monocyclic monoterpene (limonene 6%), bicyclic monoterpenes (α-pinene 41%, α-thujene and b-pinene 13% each, …


Ethanol Production In Yeasts Isolated From Fermented Kitchen Waste, Wong S, Wong S.K, Bujang J.S Dec 2012

Ethanol Production In Yeasts Isolated From Fermented Kitchen Waste, Wong S, Wong S.K, Bujang J.S

ASEAN Journal on Science and Technology for Development

Microbial ethanol is a potential substitute for the non-renewable fossil fuel which is depleting. Yeasts have been long and extensively studied for ethanol production. The objectives of this study were to isolate yeasts from fermented kitchen waste and to determine their ethanol production performances. A number of fifteen yeasts were isolated from fermented kitchen waste. The yeastswere then grouped based on their ability to ferment different types of sugars. Three yeast isolates were selected for the analysis of ethanol production. Fermentation was carried out for 72 h in yeast extract peptone dextrose broth containing 18% glucose. Fourier transform infrared attenuated …


Evaluation Of Mixture Viscosity Models In The Prediction Of Two-Phase Flow Pressure Drops, Aung N.Z, Yuwono T Dec 2012

Evaluation Of Mixture Viscosity Models In The Prediction Of Two-Phase Flow Pressure Drops, Aung N.Z, Yuwono T

ASEAN Journal on Science and Technology for Development

Nine existing mixture viscosity models were tested for predicting a two-phase pressure drop for oil-water flow and refrigerant (R.134a) flow. The predicted data calculated by using these mixture viscosity models were compared with experimental data. Predicted data from using one group of mixture viscosity models had a good agreement with the experimental data for oil-water two-phase flow. Another group of viscosity models was preferable for gas-liquid flow, but these models gave underestimated values with an error of about 50%. A new and more reliable mixture viscosity model was proposed for use in the prediction of pressure drop in gas-liquid two-phase …


Respiration And Carbon Dioxide Accumulation In Soil Microcosms, Jasity Murphy Dec 2012

Respiration And Carbon Dioxide Accumulation In Soil Microcosms, Jasity Murphy

Pursuit - The Journal of Undergraduate Research at The University of Tennessee

The thawing of permafrost leads to liberation of soil organic matter and microbial component resulting in significant effect on the carbon cycle. Changes in permafrost soils upon the global climate warming would significantly impact microbial soil activity. Currently, not a great deal is known about what happens to the microbial community after the permafrost thaws. The activity of microbial community was determined in microcosms experiment using respirometry. To assess the CO2 fluctuations during permafrost thawing a titration experiment was performed. Based on calculations using the respirometric equation it was found that CO2 production increases with temperature, core depth, …


16s Ribosomal Dna Sequencing Confirms The Synonymy Of Vibrio Harveyi And V. Carchariae, Eric J. Gauger, Marta Gomez-Chiarri Dec 2012

16s Ribosomal Dna Sequencing Confirms The Synonymy Of Vibrio Harveyi And V. Carchariae, Eric J. Gauger, Marta Gomez-Chiarri

Marta Gomez-Chiarri

Seventeen bacterial strains previously identified as Vibrio harveyi (Baumann et al. 1981) or V. carchariae (Grimes et al. 1984) and the type strains of V. harveyi, V. carchariae and V. campbellii were analyzed by 16S ribosomal DNA (rDNA) sequencing. Four clusters were identified in a phylogenetic analysis performed by comparing a 746 base pair fragment of the 16S rDNA and previously published sequences of other closely related Vibrio species. The type strains of V. harveyi and V. carchariae and about half of the strains identified as V. harveyi or V. carchariae formed a single, wellsupported cluster designed as ‘bona fide’ …


Survival Of Eastern Oysters Crassostrea Virginica From Three Lines Following Experimental Challenge With Bacterial Pathogens, Javier Gomez-Leon, Luisa Villamil, Scott A. Salger, Rachel Sallum, Antonio Remacha-Trivino, Dale F. Leavitt, Marta Gomez-Chiarri Dec 2012

Survival Of Eastern Oysters Crassostrea Virginica From Three Lines Following Experimental Challenge With Bacterial Pathogens, Javier Gomez-Leon, Luisa Villamil, Scott A. Salger, Rachel Sallum, Antonio Remacha-Trivino, Dale F. Leavitt, Marta Gomez-Chiarri

Marta Gomez-Chiarri

Shellfish production is often affected by bacterial pathogens that cause high losses in hatcheries and nurseries. We evaluated the relative survival of larvae and juveniles of 3 Crassostrea virginica oyster lines: (1) GHP, a Rhode Island line; (2) NEHY, a line resistant to dermo and multinucleated sphere X diseases; and (3) FLOWERS, a line resistant to Roseovarius oyster disease, experimental challenge with Vibrio spp. isolates RE22 and RE101, causative agents of bacillary necrosis in Pacific oyster larvae, and the type strain of Roseovarius crassostreae, causative agent of Roseovarius oyster disease. All of the isolates were able to induce significant mortalities …


Infectious Necrotizing Enteritis And Mortality Caused By Vibrio Carachariae In Summer Flounder Paralichthys Dentatus During Intensive Culture, Bruno Soffientino, Todd Gwaltney, David R. Nelson, Jennifer L. Specker, Michael Mauel, Marta Gomez-Chiarri Dec 2012

Infectious Necrotizing Enteritis And Mortality Caused By Vibrio Carachariae In Summer Flounder Paralichthys Dentatus During Intensive Culture, Bruno Soffientino, Todd Gwaltney, David R. Nelson, Jennifer L. Specker, Michael Mauel, Marta Gomez-Chiarri

Marta Gomez-Chiarri

An epizootic causing mortality among cultured summer flounder Paralichthys dentatus occurred in summer of 1998 at a land-based facility on Narragansett Bay, Rhode Island, USA. The disease, flounder infectious necrotizing enteritis (FINE), was characterized by reddening around the anal area, distended abdomens filled with opaque serosanguineous fluid, enteritis and necrosis of the posterior intestine. In extreme cases of the disease, the posterior intestine was detached from the anus and was observed coming out the vent. The intestine of individuals that recovered from the dsease ended in a blind-sac; the abdomens of these fish were distended, due to food and water …


Restoring Oyster Reefs In Great Bay Estuary, Nh 2012 Annual Program Report, Ray Konisky, Raymond E. Grizzle, Krystin M. Ward, Kara Mcketon Dec 2012

Restoring Oyster Reefs In Great Bay Estuary, Nh 2012 Annual Program Report, Ray Konisky, Raymond E. Grizzle, Krystin M. Ward, Kara Mcketon

PREP Reports & Publications

The eastern oyster (Crassostrea virginica) in New Hampshire’s Great Bay Estuary has declined in the past decades, with local populations reduced due primarily to disease, excessive siltation, and past over-harvest. The loss of filtering oysters results in diminished ecological benefits for water quality, nitrogen control, and other services that healthy oyster populations provide. In support of management objectives to restore oyster populations, The Nature Conservancy (TNC) and the University of New Hampshire (UNH) have combined for a fourth consecutive year of scaled-up methods to rebuild reefs and oyster populations. Since 2009, we have “planted” dried shell, primarily surf-clam …


Tuning Of Alternative Splicing - Switch From Proto-Oncogene To Tumor Suppressor, Aleksandra Shchelkunova, Boris Ermolinsky, Meghan Boyle, Ivan Mendez, Michael Lehker, Karen S. Martirosyan, Alexander V. Kazanksy Dec 2012

Tuning Of Alternative Splicing - Switch From Proto-Oncogene To Tumor Suppressor, Aleksandra Shchelkunova, Boris Ermolinsky, Meghan Boyle, Ivan Mendez, Michael Lehker, Karen S. Martirosyan, Alexander V. Kazanksy

Health & Biomedical Sciences Faculty Publications and Presentations

STAT5B, a specific member of the STAT family, is intimately associated with prostate tumor progression. While the full form of STAT5B is thought to promote tumor progression, a naturally occurring truncated isoform acts as a tumor suppressor. We previously demonstrated that truncated STAT5 is generated by insertion of an alternatively spliced exon and results in the introduction of an early termination codon. Present approaches targeting STAT proteins based on inhibition of functional domains of STAT's, such as DNA-binding, cooperative binding (protein-protein interaction), dimerization and phosphorylation will halt the action of the entire gene, both the proto-oncogenic and tumor suppressor functions …


Genome Profiling Of Two Strains Of The Green Alga Chlamydomnas Raudensis, Rajesh Kumar Gupta Dec 2012

Genome Profiling Of Two Strains Of The Green Alga Chlamydomnas Raudensis, Rajesh Kumar Gupta

Electronic Thesis and Dissertation Repository

Chlamydomonas raudensis Ettl consists of two strains, SAG 49.72 and UWO 241. They have identical Internal Transcribed Spacer sequences and are thus considered to belong to the same species, even though they are geographically separate and physiologically and biochemically very distinct. Using the technique of random amplification of polymorphic DNA to measure the extent of genome polymorphism, the aim of this research was to estimate the similarity of the nuclear genomes of the two strains. The analysis shows that the two strains only share approximately 10% of the total number of amplicons. Surprisingly, the data also indicates, indirectly, that the …


The Effect Of Dendritic Cell Mobilization On Cd8+ T Cell Responses To Influenza A Virus, Adil N. Shivji Dec 2012

The Effect Of Dendritic Cell Mobilization On Cd8+ T Cell Responses To Influenza A Virus, Adil N. Shivji

Electronic Thesis and Dissertation Repository

Influenza A viruses (IAV) cause respiratory infections with potentially catastrophic consequences. Neutralizing antibodies towards surface proteins of IAV prevent reinfection. However, mutations in these proteins allow the virus to evade these antibodies. Enhancing cytotoxic T cell-mediated immunity has been proposed as an attractive strategy to combat flu. Recombinant human FMS-like tyrosine kinase 3 ligand (FL) is known to mobilize dendritic cells (DCs) in mice. Given that DCs are the most potent antigen-presenting cells, I hypothesized that their mobilization by FL will improve the CD8+ T cell response to IAV. Quantification of CD8+ T cell responses to IAV epitopes by intracellular …


Characterization Of The Circadian Properties Of Runt-Related Transcription Factor 2 (Runx2) And Its Role In The Suprachiasmatic Nucleus, Meghan E. Reale Dec 2012

Characterization Of The Circadian Properties Of Runt-Related Transcription Factor 2 (Runx2) And Its Role In The Suprachiasmatic Nucleus, Meghan E. Reale

Electronic Thesis and Dissertation Repository

Circadian rhythms orchestrate physiological, behavioral and cognitive processes in order to anticipate and adapt organisms to key environmental cues. These endogenously driven oscillations are generated by a network of interlocked auto-regulatory transcriptional-translational feedback loops driven forward by the Bmal1/Clock heterodimer transcription factor. Given the ubiquitous and dynamic quality of circadian rhythms, the identification of factors involved in the coordination and regulation of the endogenous oscillations is central in broadening our understanding of biological timing systems. In an examination of gene expression in the mammalian central circadian pacemaker, the hypothalamic suprachiasmatic nucleus (SCN), revealed a previously unreported rhythmic expression of runt-related …


U.S. Drought Monitor, December 18, 2012, David Simeral Dec 2012

U.S. Drought Monitor, December 18, 2012, David Simeral

United States Agricultural Commodities in Drought Archive

Drought map of U.S. for December 18, 2012 (12/18/12) plus: U.S. crop areas experiencing drought (map), Approximate percentage of crop located in drought, by state (bar graph), Percent of crop area located in drought, past 52 weeks (line graph) for: Hay, Cattle, Winter wheat.


Using Remote Sensing Data To Improve Rice Production In Kutigi, Niger State, Nigeria, Jibril Musa Phd, M B. Yunusa Dec 2012

Using Remote Sensing Data To Improve Rice Production In Kutigi, Niger State, Nigeria, Jibril Musa Phd, M B. Yunusa

Confluence Journal Environmental Studies (CJES), Kogi State University, Nigeria

This research work looked in the used of Remote Sensing to improve Agricultural production in Kutigi, Niger State. The aim of the study is to use remote sensing to improve rice farming activities in Kutigi, Niger State. It is very important to identify such methods to improve Agricultural production because experts are always interested in new researches and findings to better the standard of living in any environment. In view of this, Remotely-sensed data could be used or employed to elevate most of these agricultural problems in Kutigi through the following objectives: Using Landsat imagery to assess the present landuse …


Large Scale Matrix Degradation By Stromal Cells Independent Of Invadopodia, Hong Cao, Robbin Eppinga, Eugene W. Krueger, Jing Chen, Mark A. Mcniven Dec 2012

Large Scale Matrix Degradation By Stromal Cells Independent Of Invadopodia, Hong Cao, Robbin Eppinga, Eugene W. Krueger, Jing Chen, Mark A. Mcniven

Faculty Work Comprehensive List

Invadopodia are actin-rich structures at the base of many neoplastic cells that sequester matrix metalloproteases that act to degrade the surrounding stroma to facilitate the invasive process. Conventional invadopodia are dependent upon Src kinase and the large GTPase dynamin 2 (Dyn 2). Whether invadopodia are the only mechanism by which cells degrade matrix is unclear. We have observed that cells of mesenchymal origin degrade matrix in an unique way different from tumor cells. The HYPOTHESIS of this study is that fibroblasts, and other cells of mesenchymal origin, degrade matrix by a mechanism distinct from that of epithelial-based tumor cells. The …


Vegf And Angiopoietin-1 Exert Opposing Effects On Cell Junctions By Regulating The Rho Gef Syx, Siu P. Ngok, Rory Geyer, Miaoliang Liu, Antonis Kourtidis, Sudesh Agrawal, Chuanshen Wu, Himabindu Reddy Seerapu, Laura J. Lewis-Tuffin, Karen L. Moodie, Deborah Huveldt, Ruth Marx, Jay M. Baraban, Peter Storz, Arie Horowitz, Panos Z. Anastasiadis Dec 2012

Vegf And Angiopoietin-1 Exert Opposing Effects On Cell Junctions By Regulating The Rho Gef Syx, Siu P. Ngok, Rory Geyer, Miaoliang Liu, Antonis Kourtidis, Sudesh Agrawal, Chuanshen Wu, Himabindu Reddy Seerapu, Laura J. Lewis-Tuffin, Karen L. Moodie, Deborah Huveldt, Ruth Marx, Jay M. Baraban, Peter Storz, Arie Horowitz, Panos Z. Anastasiadis

Dartmouth Scholarship

Vascular endothelial growth factor (VEGF) and Ang1 (Angiopoietin-1) have opposing effects on vascular permeability, but the molecular basis of these effects is not fully known. We report in this paper that VEGF and Ang1 regulate endothelial cell (EC) junctions by determining the localization of the RhoA-specific guanine nucleotide exchange factor Syx. Syx was recruited to junctions by members of the Crumbs polarity complex and promoted junction integrity by activating Diaphanous. VEGF caused translocation of Syx from cell junctions, promoting junction disassembly, whereas Ang1 maintained Syx at the junctions, inducing junction stabilization. The VEGF-induced translocation of Syx from EC junctions was …


Gene, Pathway And Network Frameworks To Identify Epistatic Interactions Of Single Nucleotide Polymorphisms Derived From Gwas Data, Yu Liu, Sean Maxwell, Tao Feng, Xiaofeng Zhu, Robert C. Elston, Mehmet Koyutürk, Mark R. Chance Dec 2012

Gene, Pathway And Network Frameworks To Identify Epistatic Interactions Of Single Nucleotide Polymorphisms Derived From Gwas Data, Yu Liu, Sean Maxwell, Tao Feng, Xiaofeng Zhu, Robert C. Elston, Mehmet Koyutürk, Mark R. Chance

Faculty Scholarship

Background: Interactions among genomic loci (also known as epistasis) have been suggested as one of the potential sources of missing heritability in single locus analysis of genome-wide association studies (GWAS). The computational burden of searching for interactions is compounded by the extremely low threshold for identifying significant p-values due to multiple hypothesis testing corrections. Utilizing prior biological knowledge to restrict the set of candidate SNP pairs to be tested can alleviate this problem, but systematic studies that investigate the relative merits of integrating different biological frameworks and GWAS data have not been conducted.Results: We developed four biologically based frameworks to …


Comprehensive Assessment Of Cnv Calling Algorithms: A Family Based Study Involving Monozygotic Twins Discordant For Schizophrenia, Sujit Maiti Dec 2012

Comprehensive Assessment Of Cnv Calling Algorithms: A Family Based Study Involving Monozygotic Twins Discordant For Schizophrenia, Sujit Maiti

Electronic Thesis and Dissertation Repository

Genetic variability is essential to human individuality. Genetic variation includes differences in sequence at the single nucleotide level to structural variations of large segments of DNA called copy number variations (CNVs). CNVs within a genome can be identified using microarray technology; however, the analysis of microarray results resulting in the “calling” of CNVs is not always precise. The research included in this manuscript describes the identification and analysis of CNVs using three commercially-available packages, Affymetrix® Genotyping ConsoleTM, Partek® Genome SuiteTM and PennCNV, that are most commonly used in the analysis of SNP and CNV data. …


Detection Of Genomic Inversion From Single End Read, Pankaj Ghimire Dec 2012

Detection Of Genomic Inversion From Single End Read, Pankaj Ghimire

Master's Theses

Structural Variations (SVs) are genomic rearrangements that include both copy-number variants,such as insertion,deletions, duplications and balanced variants like inversion and translocations. These SVs are getting more attentions for research and investigation because of their role on human phenotype, genetic diseases and genomic rearrangements. Evolution of Next-generation Sequencing has provided golden opportunities to investigate these variants and make their wider and clear spectrum in human genome. This investigation includes identification of type of SVs and their breakpoints at base pair level. For their effective identification and breakpoint resolution, many techniques are devised mainly based on paired end read. With relatively low …


Effects Of Neonatal Hypoxic Ischemic Brain Injury On Spatial Working Memory, Amanda L. Smith Dec 2012

Effects Of Neonatal Hypoxic Ischemic Brain Injury On Spatial Working Memory, Amanda L. Smith

Master's Theses

Children born prematurely or at very low birth weight (VLBW) have an increased risk for hypoxic ischemic brain injury (HI). HI refers to a lack of adequate blood and oxygen flow in the brain. HI can also occur in the term infant due to birth complications such as prolonged labor, placental dysfunction, or cord prolapse. In both populations (though exact patterns of neuropathology vary) brain damage is likely to occur in the form of decreased hippocampal and cortical volume, and enlargement of the ventricles (Kesler et al., 2004, Nagy et al., 2009). Resulting neuropathology can in turn lead to cognitive …


How Cultured Dairy Products Can Have A Long Shelf Life And A Clean Label, Phillip S. Tong Dec 2012

How Cultured Dairy Products Can Have A Long Shelf Life And A Clean Label, Phillip S. Tong

Dairy Science

No abstract provided.