Human Metaphase Chromosome Analysis Using Image Processing, 2014 The University of Western Ontario
Human Metaphase Chromosome Analysis Using Image Processing, Akila M.S Subasinghe Arachchige
Electronic Thesis and Dissertation Repository
Development of an effective human metaphase chromosome analysis algorithm can optimize expert time usage by increasing the efficiency of many clinical diagnosis processes. Although many methods exist in the literature, they are only applicable for limited morphological variations and are specific to the staining method used during cell preparation. They are also highly influenced by irregular chromosome boundaries as well as the presence of artifacts such as premature sister chromatid separation.
Therefore an algorithm is proposed in this research which can operate with any morphological variation of the chromosome across images from multiple staining methods. The proposed algorithm is capable …
Key Residues Of Human Cytoplasmic Protein Tyrosine Phosphatase-A And -B For Substrate Binding And Specificity, 2014 Purdue University
Key Residues Of Human Cytoplasmic Protein Tyrosine Phosphatase-A And -B For Substrate Binding And Specificity, Byunghyun Park
Open Access Theses
Reversible tyrosine phosphorylation plays an important role in signaling pathways that are essential for regulating cellular growth, differentiation and metabolism. Moreover, several human diseases such as diabetes, obesity and cancers are associated with the deregulation of protein tyrosine phosphatases (PTPs). Several studies provide evidence that PTPs not only contribute to cellular differentiation, but over-expression of these molecules also leads to transformation of non-transfomed cells as well. Based on these results, designing specific PTP inhibitors may ultimately function as potential therapeutic agents to treat various diseases including cancer, diabetes, and autoimmune diseases. EphA2 is a receptor tyrosine kinase which is hypo-phosphorylated …
A Classification And Characterization Of Two-Locus, Pure, Strict, Epistatic Models For Simulation And Detection, 2014 Dartmouth College
A Classification And Characterization Of Two-Locus, Pure, Strict, Epistatic Models For Simulation And Detection, Ryan J. Urbanowicz, Ambrose L. S. Granizo-Mackenzie, Jeff Kiralis, Jason H Moore
Dartmouth Scholarship
BackgroundThe statistical genetics phenomenon of epistasis is widely acknowledged to confound disease etiology. In order to evaluate strategies for detecting these complex multi-locus disease associations, simulation studies are required. The development of the GAMETES software for the generation of complex genetic models, has provided the means to randomly generate an architecturally diverse population of epistatic models that are both pure and strict, i.e. all n loci, but no fewer, are predictive of phenotype. Previous theoretical work characterizing complex genetic models has yet to examine pure, strict, epistasis which should be the most challenging to detect. This study addresses three goals: …
Human Diversity In Jordan: Polymorphic Alu Insertions In General Jordanian And Bedouin Groups, 2014 Department of Animal Biology-Anthropology, University of Barcelona, Barcelona, Spain
Human Diversity In Jordan: Polymorphic Alu Insertions In General Jordanian And Bedouin Groups, Daniela Zanetti, May Sadiq, Robert Carreras-Torres, Omar Khabour, Almuthanna Alkaraki, Esther Esteban, Marc Via, Pedro Moral
Human Biology Open Access Pre-Prints
Jordan, located in the Levant region, is a crucial area to investigate human migration between Africa and Eurasia. Even thought, the genetic history of Jordanians is far to be clarified including the origin of the Bedouins today resident in Jordan. Here, we provide new genetic data on autosomal independent markers in two Jordanian population samples (Bedouins and general population) in order to approach the genetic diversity inside this country and to give new information about the genetic position of these populations in the frame of the Mediterranean and Middle East area. The analyzed markers are 18 Alu polymorphic insertions characterized …
Human Paternal Lineages, Languages And Environment In The Caucasus, 2014 1Center of Biodiversity Studies, Institute of Ecology, Ilia State University, Tbilisi, Georgia
Human Paternal Lineages, Languages And Environment In The Caucasus, David Tarkhnishvili, Alexander Gavashelishvili, Marine Murtskhvaladze, Mariam Gabelaia, Gigi Tevzadze
Human Biology Open Access Pre-Prints
Publications that describe the human Y-DNA haplogroup composition in different ethnic or linguistic groups and geographic regions provide no explicit explanation of the distribution of human paternal lineages in relation to specific ecological conditions. Our research attempts to address this topic for the Caucasus – a geographic region that encompasses a relatively small area but harbors high linguistic, ethnic, and Y-DNA haplogroup diversity. 224 men that identified themselves as ethnic Georgian were genotyped for Y-chromosome 23 STR markers and assigned to their geographic places of origin. The genotyped data were supplemented with the published data on the haplogroup composition and …
Phylogeography Of E1b1b1b-M81 Haplogroup And Analysis Of Its Subclades In Morocco, 2014 Laboratoire de Génétique Moléculaire Humaine, Département de Recherche Scientifique, Institut Pasteur du Maroc
Phylogeography Of E1b1b1b-M81 Haplogroup And Analysis Of Its Subclades In Morocco, Ahmed Reguig, Nourdin Harich, Abdelhamid Barakat, Hassan Rouba
Human Biology Open Access Pre-Prints
In this work, we have analyzed a total of 295 unrelated Berber-speaking men from the northern, center and southern of Morocco, in order to characterize frequency of E1b1b1b-M81 haplogroup and to refine the phylogeny of its subclades: E1b1b1b1-M107, E1b1b1b2-M183 and E1b1b1b2a-M165. For this purpose, we have typed four biallelic polymorphisms: M81, M107, M183 and M165. As results, a large majority of the Berber-speaking male lineages belong to the Y chromosomal E1b1b1b-M81 haplogroup. The frequency ranged from 79.1 to 98.5% in all localities sampled. Then, the E1b1b1b2-M183 was the most dominant subclade in our samples, which ranged from 65.1% to 83.1%. …
Mitochondrial Dna Variability Among Six South-American Amerindian Villages From The Pano Linguistic Group, 2014 Faculdade de Filosofia, Ciências e Letras de Ribeirão Preto, Universidade de São Paulo, Brazil
Mitochondrial Dna Variability Among Six South-American Amerindian Villages From The Pano Linguistic Group, Celso T. Mendes-Junior, Aguinaldo L. Simoes
Human Biology Open Access Pre-Prints
Although scattered throughout a large geographic area, the members of the Pano linguistic group present strong ethnic, linguistic and cultural homogeneity, a feature that causes them to be considered as components of a same “Pano” tribe. Nevertheless, the genetic homogeneity between Pano villages has not been examined before. To study the genetic structure of the Pano linguistic group, four major Native American mitochondrial DNA (mtDNA) founder haplogroups were analyzed in 77 Amerindians from six villages of four Pano tribes (Katukina, Kaxináwa, Marúbo, and Yaminawa) located in the Brazilian Amazon. The central position of these tribes in the continent makes them …
Questioning The “Melting Pot”: Analysis Of Alu Inserts In Three Population Samples From Uruguay, 2014 Departamento de Antropología Biológica. Facultad de Humanidades y Ciencias de la Educación. Universidad de la República, Uruguay
Questioning The “Melting Pot”: Analysis Of Alu Inserts In Three Population Samples From Uruguay, Pedro C. Hidalgo, Patricia Mut, Elizabeth Ackermann, Gonzalo Figueiro, Monica Sans
Human Biology Open Access Pre-Prints
The way that immigrants integrate to recipient societies has been discussed for decades, mainly from the perspective of the social sciences. Uruguay, as other American countries, received different waves of European immigrants, although the details of the process of assimilation, when occurred, are unclear. In this paper, we use genetic markers to understand the process experienced by the Basques, one of the major migration waves that populated Uruguay, and its relation to other immigrants as well as to Native American and African descendants. For this purpose, we analyze the allele frequencies of ten ALU loci (A25, ACE, APOA1, B65, F13B, …
Genetic Explanations: Sense And Nonsense, 2014 Washington University in St Louis
Genetic Explanations: Sense And Nonsense, Garland E. Allen
Biology Faculty Publications & Presentations
Book review of Sheldon Krimsky; Jeremy Gruber (Editors). Genetic Explanations: Sense and Nonsense. xi + 368 pp., index. Cambridge, Mass.: Harvard University Press, 2013. $45 (cloth).
Computational Analysis Of Gene Expression And Connectivity Patterns In The Convoluted Structures Of Mouse Cerebellum, 2014 Old Dominion University
Computational Analysis Of Gene Expression And Connectivity Patterns In The Convoluted Structures Of Mouse Cerebellum, Tao Zeng
Computer Science Theses & Dissertations
One significant difference between evolved mammalian brains and other species is that mammalian brains exhibit increasingly convoluted structures in the cerebral cortex. Groove and ridge shaped structures named gyri and sulci expand surface area of cerebral cortex, making more functions possible. Prior studies using neuroimaging techniques such as dMRI and DTI have revealed that neural fibers are heavily connected to gyri comparing to those connected to sulci, such macro-scale experiments indicates that gyri are involved in large scale information processing while sulci process information locally. However, molecular and cellar level evidences, namely, gene expression pattern and its resulting neuronal connectivity …
Transgenesis In Animal Agriculture And Zoonotic Disease Resistance, 2014 The Humane Society of the United States
Transgenesis In Animal Agriculture And Zoonotic Disease Resistance, Michael Greger
Michael Greger, M.D.
In 2009, the US Food and Drug Administration (FDA) released guidelines for the commercialization of genetically engineered (GE) farm animals. Numerous applications for approval of transgenic species are currently pending. Anthropocentric concerns raised to date have tended to neglect the impact of the physiological trade-off between production efficiency and immune function. Given animal agriculture's track record of prioritizing productivity - even at the expense of animal health - the incorporation of biotechnological tools to further stress production towards biological limits may continue to undermine immunocompetence. Regulatory schemata to avert adverse public health outcomes are discussed. Given the rising incidence of …
Genome Sequence And Phenotypic Characterization Of Caulobacter Segnis, 2014 University of South Carolina-Columbia
Genome Sequence And Phenotypic Characterization Of Caulobacter Segnis, Sagar Patel
Senior Theses
Caulobacter segnis is a unique species of Caulobacter in that it is slow growing, found in soil samples, and has other phenotypic differences from the freshwater Caulobacter that it is most closely related to. Initially deemed Mycoplana segnis, it was reclassified after a 16s rRNA analysis and found to be most closely related to the Caulobacter NA1000 branch. Because the annotated sequence available in GenBank contained a large number of pseudogenes (126), we compared the original sequencing data to the GenBank sequence and determined that many of the pseudogenes were due to sequence errors in the Genbank sequence. Consequently, …
Differential Expression Of Cyclin G2, Cyclin Dependent Kinase Inhibitor 2c And Peripheral Myelin Protein 22 Genes During Adipogenesis..Pdf, 2014 The Ohio State University
Differential Expression Of Cyclin G2, Cyclin Dependent Kinase Inhibitor 2c And Peripheral Myelin Protein 22 Genes During Adipogenesis..Pdf, Jibin Zhang, Yeunsu Suh, Young Min Choi, Jinsoo Ahn, Michael E. Davis, Kichoon Lee
Jibin Zhang
Functional Study Of The Suppressor Of Hairy-Wing Insulator Protein In Drosophila Melanogaster, 2014 University of Tennessee - Knoxville
Functional Study Of The Suppressor Of Hairy-Wing Insulator Protein In Drosophila Melanogaster, Shih-Jui Hsu
Doctoral Dissertations
Eukaryotic chromatin insulators play an essential role in regulating gene expression and modifying nuclear architecture by organizing the higher-order chromatin structure in response to cellular and developmental cues. The details on how insulators function in this capacity are not completely understood.
Five different types of insulators have been identified in Drosophila. Each functional insulator consists of an insulator DNA response element bound by an insulator protein, which recognizes specific DNA sequences. Each type of insulator functions individually as well as collaboratively. Except for the Su(Hw) insulator protein, the other insulator proteins are necessary for viability considering loss of Su(Hw) …
Modeling The Adaptive Immune Response To Mutation-Generated Antigens, 2014 University of Connecticut - Storrs
Modeling The Adaptive Immune Response To Mutation-Generated Antigens, Rory J. Geyer
University Scholar Projects
Somatic mutations may drive tumorigenesis or lead to new, immunogenic epitopes (neoantigens). The immune system is thought to represses neoplastic growths through the recognition of neoantigens presented only by tumor cells. To study mutations as well as the immune response to mutation-generated antigens, we have created a conditional knockin mouse line with a gene encoding, 5’ to 3’, yellow fluorescent protein (YFP), ovalbumin (which is processed to the immunologically recognizable peptide, SIINFEKL), and cyan fluorescent protein (CFP), or, YFP-ovalbumin-CFP. A frame shift mutation has been created at the 5’ end of the ovalbumin gene, hence YFP should always be expressed, …
Clpxp Modulates Cell Growth And Morphology In Cell Shape Mutants Of E.Coli, 2014 University of Rhode Island
Clpxp Modulates Cell Growth And Morphology In Cell Shape Mutants Of E.Coli, Ryann Murphy
Senior Honors Projects
ClpXP modulates cell growth and morphology in cell shape mutants of E. coli
Ryann Murphy1 and Jodi L. Camberg1
1University of Rhode Island, Department of Cell and Molecular Biology, Kingston, RI, 02881
Penicillin Binding Proteins (PBPs) are a family of prokaryotic membrane proteins named for their propensity to bind the antibiotic penicillin and are involved in remodeling and deposition of peptidoglycan. In wild type Escherichia coli cells, the uniform rod shape is conserved across generations. E.coli cells containing multiple deletions of Low Molecular Weight (LMW) PBPs exhibit irregular shapes. LMW PBP5 (dacA) is a potential …
Modeling The Adaptive Immune Response To Mutation-Generated Antigens, 2014 University of Connecticut - Storrs
Modeling The Adaptive Immune Response To Mutation-Generated Antigens, Rory J. Geyer
Honors Scholar Theses
Somatic mutations may drive tumorigenesis or lead to new, immunogenic epitopes (neoantigens). The immune system is thought to represses neoplastic growths through the recognition of neoantigens presented only by tumor cells. To study mutations as well as the immune response to mutation-generated antigens, we have created a conditional knockin mouse line with a gene encoding, 5’ to 3’, yellow fluorescent protein (YFP), ovalbumin (which is processed to the immunologically recognizable peptide, SIINFEKL), and cyan fluorescent protein (CFP), or, YFP-ovalbumin-CFP. A frame shift mutation has been created at the 5’ end of the ovalbumin gene, hence YFP should always be expressed, …
The Association Between The Il-1 Pathway, 2014 The University of Texas Graduate School of Biomedical Sciences at Houston
The Association Between The Il-1 Pathway, Isaac C. Wun
Dissertations & Theses (Open Access)
Cutaneous malignant melanoma (CMM) is a potentially lethal malignancy that warrants attention and further research, as it is known to that there is an increasing rate of incidence in theUnited States, and it is also known that exposure to UV light is its most crucial risk factor, and family history of melanoma is also an important risk factor. Melanoma is an aggressive and lethal cancer in humans. There are an estimated new 132,000 melanoma cases annually worldwide, and the trend has doubled in the past 20 years. However, attempts to treat melanoma have encountered considerable resistance and remained ineffective. The …
Genetic Resistance To Staphylococcus Aureus Mastitis Associated With Bovine Cxcr1, 2014 University of Tennessee, Knoxville
Genetic Resistance To Staphylococcus Aureus Mastitis Associated With Bovine Cxcr1, Olivia Jean Crisp
Chancellor’s Honors Program Projects
No abstract provided.
Teaching Gene Regulation In The High School Classroom, Ap Biology,, 2014 Wofford College
Teaching Gene Regulation In The High School Classroom, Ap Biology,, Stefanie H. Baker, Marie Fox, Leigh Smith
Arthur Vining Davis High Impact Fellows Projects
This project sought to enhance high school students’ understanding of gene regulation as taught in an Advanced Placement Biology course. We accomplished this by designing and implementing a lab module that included a pre-lab assessment, a hands-on classroom experiment, and a post-lab assessment in the form of a lab poster. Students developed lab skills while simultaneously learning about course content. Students’ progress was evaluated through a multiple choice/essay test and their lab posters that they created on the lab experiment.