Insights Into Genome Functional Organisation Through The Analysis Of Interaction Networks, 2010 Wilfrid Laurier University
Insights Into Genome Functional Organisation Through The Analysis Of Interaction Networks, Andre Masella
Theses and Dissertations (Comprehensive)
Using computational techniques to identify orthology and operon structure, it is possible to find functional interactions between genes, which, together, define the genetic interactome. These large networks contain information about the relationships between phenotypes in organisms as genes responsible for related abilities are often co-regulated and reasserting of these genes can be detected in the operon structure. However, these networks are too large to analyse by hand In order to practically analyse the networks, a computational tool, gisql, was developed and, using this tool, the connectivity patterns in the genetic interactome can be analysed to understand high-level organisation of the ...
Neuroaids In Africa, 2010 University of North Carolina
Neuroaids In Africa, Kevin Robertson, Jeff Liner, James Hakim, Jean-Louis Sankalé, Igor Grant, Scott Letendre, David Clifford, Amadou Gallo Diop, Assan Jaye, Georgette Kanmogne, Alfred Njamnshi, T. Dianne Langford, Tufa Gemechu Weyessa, Charles Wood, Mwanza Banda, Mina Hosseinipour, Ned Sacktor, Noeline Nakasuja, Paul Bangirana, Robert Paul, John Joska, Joseph Wong, Michael Boivin, Penny Holding, Betsy Kammerer, Annelies Van Rie, Prudence Ive, Avindra Nath, Kathy Lawler, Clement Adebamowo, Walter Royal Iii, Jeymohan Joseph
In July 2009, the Center for Mental Health Research on AIDS at the National Institute of Mental Health organized and supported the meeting “NeuroAIDS in Africa.” This meeting was held in Cape Town, South Africa, and was affiliated with the 5th IAS Conference on HIV Pathogenesis, Treatment and Prevention. Presentations began with an overview of the epidemiology of HIV in sub-Saharan Africa, the molecular epidemiology of HIV, HIV-associated neurocognitive disorders (HANDs), and HAND treatment. These introductory talks were followed by presentations on HAND research and clinical care in Botswana, Cameroon, Ethiopia, The Gambia, Kenya, Malawi, Nigeria, Senegal, South Africa, Uganda ...
Chronology And Evolution Of The Hiv-1 Subtype C Epidemic In Ethiopia, 2010 University of Nebraska-Lincoln
Chronology And Evolution Of The Hiv-1 Subtype C Epidemic In Ethiopia, Damien C. Tully, Charles Wood
Objective—To reconstruct the onset date and evolutionary history of the HIV-1 subtype C epidemic in Ethiopia - one of the earliest recorded subtype C epidemics in the world.
Design—HIV-1 C env sequences with a known sampling year isolated from HIV-1 positive patients from Ethiopia between 1984 and 2003.
Methods—Evolutionary parameters including origin and demographic growth patterns were estimated using a Bayesian coalescent-based approach under either strict or relaxed molecular clock models.
Results—Bayesian evolutionary analysis indicated a most recent common ancestor date of 1965 with three distinct epidemic growth phases. Regression analysis of root-to-tip distances revealed a highly ...
Cell Adhesion Property Affected By Cyclooxygenase And Lipoxygenase: Opto-Electric Approach (With Chang Kyoung Choi, Mugdha Sukhthankar, Chul-Ho Kim, Seong-Ho Lee, Anthony English, Kenneth D. Kihm., 2009 The University of Tennessee
Cell Adhesion Property Affected By Cyclooxygenase And Lipoxygenase: Opto-Electric Approach (With Chang Kyoung Choi, Mugdha Sukhthankar, Chul-Ho Kim, Seong-Ho Lee, Anthony English, Kenneth D. Kihm., Seung Baek
Seung J Baek
Expression of cyclooxygenases (COX) and lipoxygenases (LOX) has been linked to many pathophysiological phenotypes, including cell adhesion. However, many current approaches to measure cellular changes are performed only in a fixed-time point. Since cells dynamically move in conjunction with the cell matrix, there is a pressing need for dynamic or time-dependent methods for the investigation of cell properties. In the presented study, we used stable human colorectal cancer cell lines ectopically expressing COX-1, COX-2, and 15LOX-1, to investigate whether expression of COX-1, COX-2, or 15LOX-1 would affect cell adhesion using our opto-electric methodology. In a fixed-time point experiment, only COX-1- ...
The Chitobiose Transporter, Chbc, Is Required For Chitin Utilization In Borrelia Burgdorferi, 2009 University of Rhode Island
The Chitobiose Transporter, Chbc, Is Required For Chitin Utilization In Borrelia Burgdorferi, David Nelson
David R. Nelson
Background: The bacterium Borrelia burgdorferi, the causative agent of Lyme disease, is a limited-genome organism that must obtain many of its biochemical building blocks, including N-acetylglucosamine (GlcNAc), from its tick or vertebrate host. GlcNAc can be imported into the cell as a monomer or dimer (chitobiose), and the annotation for several B. burgdorferi genes suggests that this organism may be able to degrade and utilize chitin, a polymer of GlcNAc. We investigated the ability of B. burgdorferi to utilize chitin in the absence of free GlcNAc, and we attempted to identify genes involved in the process. We also examined the ...
Nsaid-Activated Gene-1 As A Molecular Target For Capsaicin-Induced Apoptosis Through A Novel Molecular Mechanism Involving Gsk3beta, C/Ebpbeta And Atf3, Seung Baek, Seong-Ho Lee, Chutwadee Krisanapun
Seung J Baek
Capsaicin, a natural product of the Capsicum species of red peppers, is known to induce apoptosis and suppress growth. Non-steroidal anti-inflammatory drug-activated gene-1 (NAG-1) is a cytokine associated with pro-apoptotic and antitumorigenic property in colorectal and lung cancer. Our data demonstrate that capsaicin leads to induction of apoptosis and up-regulates NAG-1 gene expression at the transcriptional level. Overexpression of CCAAT/enhancer binding protein beta (C/EBPbeta) caused a significant increase of basal and capsaicin-induced NAG-1 promoter activity. We subsequently identified C/EBPbeta binding sites in the NAG-1 promoter responsible for capsaicin-induced NAG-1 transactivation. Electrophoretic mobility shift assay and chromatin immunoprecipitation ...
Inhibition Of Feline Herpesvirus 1 Replication In Vitro By Small Interfering Rnas, 2009 University of Tennessee - Knoxville
Inhibition Of Feline Herpesvirus 1 Replication In Vitro By Small Interfering Rnas, Rebecca Wilkes, Stephen Kania
Stephen A Kania
OBJECTIVE: To evaluate the ability of 5 small interfering RNAs (siRNAs) targeting mRNA of the feline herpesvirus-1 (FHV-1) DNA polymerase gene to reduce in vitro viral replication and gene expression of FHV-1, to evaluate combinations of these siRNAs with siRNAs that target the glycoprotein D gene of FHV-1, and to determine the combination or combinations of siRNAs that yield the greatest inhibition of in vitro viral replication. SAMPLE POPULATION: Cultured Crandell-Rees feline kidney (CRFK) cells. PROCEDURES: CRFK cells were transfected with siRNAs designed to target mRNA of the FHV-1 DNA polymerase gene. Effective treatment was determined by quantification of the ...
A Potential Proliferative Gene, Nudt6, Is Down-Regulated By Green Tea Catechins At The Posttranscriptional Level, 2009 The University of Tennessee
A Potential Proliferative Gene, Nudt6, Is Down-Regulated By Green Tea Catechins At The Posttranscriptional Level, Seung Baek, Mugdha Sukthankar, Ck Choi, A English, Js Kim
Seung J Baek
The main aims of this study were to elucidate the effect of green tea catechins on Nudix-type motif 6 (NUDT6) suppression and to characterize NUDT6's biological activity. Our microarray data showed that the green tea component epicatechin-3-gallate suppressed NUDT6 expression, and this was confirmed by RT-PCR. Subsequently, the use of different catechins showed that the effect of epigallocatechin-3-gallate (EGCG) was stronger than that of other catechins. At the posttranscriptional level, EGCG decreased the RNA stability of NUDT6, indicating it as a potential mechanism of NUDT6 suppression. Further cloning of the 3' untranslated region of human NUDT6 mRNA resulted in ...
In Vitro Anti-Proliferative Activity Of Alcoholic Stem Extract Of Coscinium Fenestratum In Human Colorectal Cancer Cells, 2009 The University of Tennessee
In Vitro Anti-Proliferative Activity Of Alcoholic Stem Extract Of Coscinium Fenestratum In Human Colorectal Cancer Cells, P Rojsanga, M Sukthankar, C Krisanapun, W Gritsanapan, D Lawson, Seung Baek
Seung J Baek
Coscinium fenestratum (Gaertn.) Colebr. is traditionally used for the treatment of cancer, arthritis and diabetes mellitus. The purpose of this study was to determine the molecular mechanisms by which this plant shows beneficial effects. An 80% ethanolic extract of C. fenestratum (80ET) was separated by its polarity into dichloromethane (DCM) and aqueous fractions (WF), and the anti-proliferative effects of 80ET, DCM and WF were investigated. Berberine, one of the major components of C. fenestratum, was used as a control. The 80ET, DCM, WF and berberine showed anti-proliferative activity as assessed by cell growth assay. Subsequently, the pro-apoptotic proteins NAG-1 and ...
Dispersal Of Stable Flies (Diptera: Muscidae) From Larval Developmental Sites., 2009 University of Minnesota - Twin Cities
Dispersal Of Stable Flies (Diptera: Muscidae) From Larval Developmental Sites., David B. Taylor, Roger D. Moon, John B. Campbell, Dennis R. Berkebile, Philip J. Scholl, Alberto B. Broce, Jerome A. Hogsette
David B. Taylor
Seven mark-recapture studies were conducted over 3 yr to assess dispersal of newly emerging adult stable flies, Stomoxys calcitrans L., from larval development sites in a mixed agricultural environment in northeastern Nebraska. Infested hay debris piles were marked by dusting their surfaces with fluorescent pigments, adults were captured with surrounding grids of Alsynite sticky traps, and specimens were dissected to determine feeding histories and reproductive age. Distances and directions of 3,889 marked specimens indicated males and females dispersed equally and in all directions. Midguts of males and females were equally likely to contain blood-meal remnants. Percentage with blood remnants ...
3hsds1和17hsds7基因5'上游区转录活性研究.Pdf, 2009 China Agricultural University
3hsds1和17hsds7基因5'上游区转录活性研究.Pdf, Xinxing Dong, Yi Xin, Ying Bai, Yunzhou Yang, Jibin Zhang, Meiying Fang, Gang Chen
Semiparametric Analysis Of Recurrent Events: Artificial Censoring, Truncation, Pairwise Estimation And Inference, 2009 Penn State University
Semiparametric Analysis Of Recurrent Events: Artificial Censoring, Truncation, Pairwise Estimation And Inference, Debashis Ghosh
The analysis of recurrent failure time data from longitudinal studies can be complicated by the presence of dependent censoring. There has been a substantive literature that has developed based on an artificial censoring device. We explore in this article the connection between this class of methods with truncated data structures. In addition, a new procedure is developed for estimation and inference in a joint model for recurrent events and dependent censoring. Estimation proceeds using a mixed U-statistic based estimating function approach. New resampling-based methods for variance estimation and model checking are also described. The methods are illustrated by application to ...
Polyphyly Of The Pikeminnows (Teleostei: Cyprinidae) Inferred Using Mitochondrial Dna Sequences, 2009 Utah Valley University
Polyphyly Of The Pikeminnows (Teleostei: Cyprinidae) Inferred Using Mitochondrial Dna Sequences, T. Heath Ogden
T. Heath Ogden
The phylogenetic relationships of the Colorado pikeminnow Ptychocheilus lucius, northern pikeminnow P. oregonensis, Sacramento pikeminnow P. grandis, Umpqua pikeminnow P. umpquae, and hardhead Mylopharodon conocephalus were examined by using molecular data to investigate monophyly of the genus Ptychocheilus. Phylogenies generated using DNA sequence data from the cytochrome b and 16S ribosomal DNA genes of the mitochondrial genome reveal that Ptychocheilus is a polyphyletic genus and suggest that the taxonomy of the group is in need of further revision. These data yield insights into the evolution of the pikeminnows and help place the significant evolutionary events in context with the geological ...