Search results
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Title
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A virtual pebble game to emsemble average graph rigidity
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Author
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Gonzalez, Luis
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Date Created
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2011
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Description
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Previous works have demonstrated that protein rigidity is related to thermodynamic stability, especially under conditions that favor formation of native structure. Mechanical network rigidity properties of a single conformation are efficiently cal...
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Title
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A virtual pebble game to emsemble average graph rigidity
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Author
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Gonzalez, Luis
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Date Created
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2011
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Subjects--Topical
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Computer science, Bioinformatics
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Description
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Previous works have demonstrated that protein rigidity is related to thermodynamic stability, especially under conditions that favor formation of native structure. Mechanical network rigidity properties of a single conformation are efficiently cal...
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Title
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DE NOVO PREDICTION OF CIS-REGULATORY MODULES IN EUKARYOTIC ORGANISMS
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Author
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Niu, Meng
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Date Created
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2014
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Description
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Gene regulation networks (GRNs) are the bases for virtually all biological processes. To gain a global understanding of GRNs encoded in a genome, we first need to identify in all the cis-regulatory elements (CREs) recognized by transcription facto...
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Title
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DE NOVO PREDICTION OF CIS-REGULATORY MODULES IN EUKARYOTIC ORGANISMS
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Author
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Niu, Meng
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Date Created
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2014
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Subjects--Topical
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Bioinformatics
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Description
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Gene regulation networks (GRNs) are the bases for virtually all biological processes. To gain a global understanding of GRNs encoded in a genome, we first need to identify in all the cis-regulatory elements (CREs) recognized by transcription facto...
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Title
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DO DYNAMIC ALLOSTERIC EFFECTS OCCUR IN IGG4 ANTIBODIES?
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Author
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Baker, Lonnie
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Date Created
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2020
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Description
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Antibodies are large, multi-chain proteins which play a critical roll in the func-tioning of vertebrate immune systems. Immune effector cells which are responsiblefor the destruction of foreign antigens do not randomly target molecules but rely on...
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Title
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DO DYNAMIC ALLOSTERIC EFFECTS OCCUR IN IGG4 ANTIBODIES?
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Author
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Baker, Lonnie
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Date Created
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2020
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Subjects--Topical
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Bioinformatics, Biophysics
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Description
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Antibodies are large, multi-chain proteins which play a critical roll in the func-tioning of vertebrate immune systems. Immune effector cells which are responsiblefor the destruction of foreign antigens do not randomly target molecules but rely on...
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Title
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Development of Structural Informatics Method For Binding Peptides
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Author
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Patterson, John
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Date Created
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2023
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Subjects--Topical
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Bioinformatics
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Description
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In the continuous pursuit of advanced therapeutics, the field of bioinformatics hasinnovated tools that allow unprecedented control over the proteome, profoundly shaping our understanding and manipulation of biological domains. Computational appro...
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Title
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ELUCIDATING FUNCTIONAL MECHANISMS IN PROTEINS USING THE DISTANCE CONSTRAINT MODEL
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Author
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Singer, Christopher
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Date Created
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2019
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Subjects--Topical
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Bioinformatics, Biophysics, Physics
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Description
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Protein thermodynamics has been shown to be insightful and illuminating to the functional mechanisms behind biological function. By characterizing proteins and protein families according to their enthalpy and entropy we can make inferences to the ...
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Title
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Evolution and dynamics of transcriptional regulation in bacteria
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Author
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Li, Shan
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Date Created
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2013
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Description
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Although transcription is one of the most important biological functions of cells, our understanding of its regulation is still limited. In this dissertation, we have studied the transcriptional regulation in prokaryotes in three aspects. First, w...
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Title
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Evolution and dynamics of transcriptional regulation in bacteria
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Author
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Li, Shan
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Date Created
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2013
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Subjects--Topical
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Computer science, Statistics, Bioinformatics
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Description
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Although transcription is one of the most important biological functions of cells, our understanding of its regulation is still limited. In this dissertation, we have studied the transcriptional regulation in prokaryotes in three aspects. First, w...
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Title
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Functional Analysis of Structural Variation in the 2D and 3D Human Genome
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Author
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Nodzak, Conor
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Date Created
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2019
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Description
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The human genome consists of over 3 billion nucleotides that have an average distance of 3.4 Angstroms between each base, which equates to over two meters of DNA contained within the 125 $\mu m^3$ volume diploid cell nuclei. The dense compaction o...
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Title
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Functional Analysis of Structural Variation in the 2D and 3D Human Genome
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Author
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Nodzak, Conor
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Date Created
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2019
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Subjects--Topical
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Bioinformatics, Genetics
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Description
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The human genome consists of over 3 billion nucleotides that have an average distance of 3.4 Angstroms between each base, which equates to over two meters of DNA contained within the 125 $\mu m^3$ volume diploid cell nuclei. The dense compaction o...
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Title
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Functional Dynamics in Beta-Lactamase: Insights into Substrate Recognition and Inhibition
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Author
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Avery, Christopher
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Date Created
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2023
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Subjects--Topical
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Bioinformatics, Biophysics, Physics
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Description
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Beta-lactamase proteins are among the most prominent causes of antibiotic resistance. These enzymes confer resistance to beta lactam antibiotics, which are commonly used to treat bacterial infections. In recent years, novel beta-lactamase have eme...
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Title
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INVESTIGATING THE GENETIC BASIS OF GENE EXPRESSION USING EQTL TECHNIQUES
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Author
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Quitadamo, Andrew
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Date Created
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2018
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Description
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With advances in genome sequencing technology, datasets with large sample sizes can be generated relatively quickly and cheaply, especially compared to the past decade or so. We can utilize this data to analyze the associations between genetic var...
