Browsing Biological Engineering - Ph.D. / Sc.D. by Title
Now showing items 53-72 of 347
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Decoding structure-function relationships of glycans
(Massachusetts Institute of Technology, 2017)Glycans are an important class of biological molecules that regulate a variety of physiological processes such as signal transduction, tissue development and microbial pathogenesis. However, due to the structural complexity ... -
Deoxyribose oxidation chemistry and endogenous DNA adducts
(Massachusetts Institute of Technology, 2006)Endogenous and exogenous oxidants react with cellular macromolecules to generate a variety of electrophiles that react with DNA produce cytotoxic and mutagenic adducts. One source of such electrophiles is deoxyribose in ... -
Design and debugging of ultrastable engineered genetic systems
(Massachusetts Institute of Technology, 2019)Engineered genetic systems in bacteria have tremendous potential for biotech applications ranging from living therapeutics to the controlled production of chemicals. Engineering such genetic systems is challenging as these ... -
Design and performance of hemostatic biomaterials for managing hemorrhaging
(Massachusetts Institute of Technology, 2018)The high mortality rates associated with uncontrolled bleeding motivate hemostatic material development for traumatic injuries. Uncontrolled, or hemorrhagic, internal bleeding requires hemostatic materials that can be ... -
Design and screening of degenerate-codon-based protein ensembles with M13 bacteriophage
(Massachusetts Institute of Technology, 2019)A billion years of evolution has crafted a diverse set of proteins capable of complex and varied functionalities. Within recent decades, scientists have applied both rational design and directed evolution to accelerate ... -
Design and validation of a decentralized biomass torrefaction system
(Massachusetts Institute of Technology, 2017)To date, there has been limited usage of biomass and agricultural residues in rural areas as a form of renewable energy, mainly due to the expensive costs involved in collecting and transporting raw biomass. A decentralized ... -
Design principles of mammalian signaling networks : emergent properties at modular and global scales
(Massachusetts Institute of Technology, 2008)This thesis utilizes modeling approaches rooted in statistical physics and physical chemistry to investigate several aspects of cellular signal transduction at both the modular and global levels. Design principles of ... -
Designing nanocarriers to penetrate cartilage and improve delivery of biologic drugs for osteoarthritis
(Massachusetts Institute of Technology, 2019)Osteoarthritis is a debilitating joint disease that affects over 30 million people and has no disease-modifying therapies. The current standard of care for the disease is merely palliative until joint replacement is ... -
Determinants of antibody specificity
(Massachusetts Institute of Technology, 2017)High throughput screening methods such as yeast surface display (YSD) are frequently able to isolate high affinity antibodies against clinical targets; however, the success of these candidates depends on selecting for both ... -
Determinants of GATA1-mediated gene regulation during erythroid maturation
(Massachusetts Institute of Technology, 2017)Hematopoiesis has long been used as a model system to study development and lineage decision-making. Within this branch of development, erythropoiesis is the process through which mature red blood cells arise from progenitor ... -
Determination of class II peptide-MHC repertoires and recognition via large yeast-displayed libraries
(Massachusetts Institute of Technology, 2020)T cells occupy essential roles throughout the immune system to prevent and limit disease. As such, breakdowns in their function and recognition underlie poor clinical outcomes across diverse maladies including pathogen ... -
Determination of the historical changes in primary and secondary risk factors for cancer using U.S. public health records
(Massachusetts Institute of Technology, 2001)Overall cancer mortality rates have risen from about 4% of all deaths in the early 20th century to about 25% of all deaths by the end of the century in the United States. To assess any potential hypotheses for this increase ... -
Development and characterization of an in vitro culture system as a physiological model for chronic Hepatitis B infection
(Massachusetts Institute of Technology, 2007)Human Hepatitis B virus (HBV) is the prototype member of the family Hepadnaviridae that consists of enveloped, partially double stranded DNA viruses that specifically target hepatocytes for viral replication. Although a ... -
Development of a collagen gel sandwich hepatocyte bioreactor for detecting hepatotoxicity of drugs and chemicals
(Massachusetts Institute of Technology, 2004)Understanding the hepatotoxicity of drugs and chemicals is essential for progress in academic research, medical science and in the development of new pharmaceuticals. Studying hepatotoxicity in vitro is a challenging task ... -
Development of an analytical method to quantify the oxidative deoxyribose damage product 3'-phosphoglycolaldehyde induced by radiation, iron and peroxynitrite
(Massachusetts Institute of Technology, 2004)Deoxyribose oxidation in DNA forms strongly electrophilic terminal blocking groups and abasic sites capable of stopping polymerases, forming DNA-protein crosslinks and nucleobase adducts. These threats to the genetic ... -
Development of an inducible transcriptional control system in plasmodium falciparum with applications to targeted genome editing
(Massachusetts Institute of Technology, 2014)Malaria accounts for over 500,000 deaths each year. While malaria is caused by multiple distinct parasites of the genus Plasmodium, P. falciparum is responsible for the majority of morbidity and mortality due to the disease. ... -
Development of constrained fuzzy logic for modeling biological regulatory networks and predicting contextual therapeutic effects
(Massachusetts Institute of Technology, 2012)Upon exposure to environmental cues, protein modifications form a complex signaling network that dictates cellular response. In this thesis, we develop methods for using continuous logic-based models to aide our understanding ... -
Development of mass spectrometry based technologies for quantitative cell signaling phosphoproteomics : the epidermal growth factor receptor family as a model system
(Massachusetts Institute of Technology, 2007)Ligand binding to cell surface receptors initiates a cascade of signaling events regulated by dynamic phosphorylation on a multitude of pathway proteins. Quantitative features, including intensity, timing, and duration of ... -
Development of novel analytical tools for complex carbohydrates
(Massachusetts Institute of Technology, 2004)Complex carbohydrates such as the heparin/heparan sulfate glycosaminoglycans (HSGAGs) and the asparagine linked glycans (N-glycans) have emerged as crucial components of many human biological systems. Both classes of ... -
Development of novel chemical biology tools to probe malaria parasite physiology and aid in antimalarial drug discovery
(Massachusetts Institute of Technology, 2015)Malaria remains a major burden to global public health. Antimalarial drugs are a mainstay in efforts to control and eventually eradicate this disease. However, increasing drug resistance threatens to reverse recent gains ...
