Browsing Computational and Systems Biology - Ph.D. / Sc.D. by Title
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- Browsing Computational and Systems Biology - Ph.D. / Sc.D. by Title
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Browsing Computational and Systems Biology - Ph.D. / Sc.D. by Title
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(Massachusetts Institute of Technology, 2012)Elevated expression of the c-Myc transcription factor occurs frequently in human cancers and is associated with tumor aggression and poor clinical outcome. However, the predominant mechanism by which c-Myc regulates global ...
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(Massachusetts Institute of Technology, 2013)The rapid development and applications of high throughput measurement techniques bring the biological sciences into a 'big data' era. The vast available data for enzyme and metabolite concentrations, fluxes, and kinetics ...
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(Massachusetts Institute of Technology, 2011)Cellular signaling and regulatory networks underlie fundamental biological processes such as growth, differentiation, and response to the environment. Although there are now various high-throughput methods for studying ...
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(Massachusetts Institute of Technology, 2013)All the cells in the body contain the same genome yet showcase drastically different phenotypes. This is the result of different transcriptional programs, which are partly controlled by epigenetic modifications, including ...
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(Massachusetts Institute of Technology, 2010)The epidermal growth factor receptor (EGFR, also known as ErbB 1) is a prototypical receptor tyrosine kinase (RTK) that activates multi-kinase phosphorylation cascades to regulate diverse cellular processes, including ...
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(Massachusetts Institute of Technology, 2010)microRNAs (miRNAs) are ~22-nt long short RNAs that regulate gene expression in organisms ranging from plants to animals. In mammals, miRNAs post-transcriptionally repress gene expression by primarily binding to the 3' ...
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(Massachusetts Institute of Technology, 2013)DnaA is the bacterial replication initiator, which also functions as a transcription factor to regulate gene expression. In B. subtilis, DnaA has previously been shown to repress its own transcription and has also been ...
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(Massachusetts Institute of Technology, 2010)Understanding the microbial world is key to understanding global biogeochemistry, human health and disease, yet this world is largely inaccessible. Microbial genomes, an increasingly accessible data source, provide an ideal ...
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Identifying a transcriptional signature for cell sensitivity to the cancer chemotherapy agent, BCNU (Massachusetts Institute of Technology, 2011)Many organisms have evolved DNA damage response mechanisms to deal with the constant damage to DNA caused by endogenous and exogenous agents. These mechanisms activate cell cycle checkpoints to allow time for DNA repair ...
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(Massachusetts Institute of Technology, 2012)The reconstruction of regulatory networks is one of the most challenging tasks in systems biology. Although some models for inferring regulatory networks can make useful predictions about the wiring and mechanisms of ...
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(Massachusetts Institute of Technology, 2012)Understanding the effectiveness of a drug therapy on halting disease progression is an essential aspect of cancer biology. Conventional assays that study cell behavior after a drug intervention report the average response ...
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(Massachusetts Institute of Technology, 2012)With the emergence of the 2009 A(H1N1) pandemic influenza virus and the rapid spread of drug resistance in recent years, the need to develop new anti-influenza drugs that can reduce the emergence of new resistant viruses ...
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(Massachusetts Institute of Technology, 2013)Microbes play a central role in diverse processes ranging from global elemental cycles to human digestion. Understanding these complex processes requires a rm under- standing of the interplay between microbes and their ...
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(Massachusetts Institute of Technology, 2011)An ability to control the degree of heterogeneity in cellular phenotypes may be important for cell populations to survive uncertain and ever-changing environments or make cell-fate decisions in response to external stimuli. ...
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(Massachusetts Institute of Technology, 2010)Present day microbial genomes are the handiwork of over 3 billion years of evolution. Comparisons between these genomes enable stepping backwards through past evolutionary events, and can be formalized using binary tree ...
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(Massachusetts Institute of Technology, 2009)Diversity within a population of organisms is typically ascribed to genetic differences. However, even members of a genetically identical group of cells or organisms in identical environments can exhibit variability in ...
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(Massachusetts Institute of Technology, 2013)All cells sense and respond to their environments using signal transduction pathways. These pathways control a sweeping variety of cellular processes across the domains of life, but the pathways are often built from a ...
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(Massachusetts Institute of Technology, 2010)Excessive collagen degradation (collagenolysis) has been implicated in a series of diseases such as tumor metastasis, atherosclerosis and arthritis. There are still several unresolved questions about the mechanism of ...
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(Massachusetts Institute of Technology, 2012)I present three novel computational methods to address the challenge of identifying protein-DNA interactions at high spatial resolution from noisy ChIP-Seq data. I first present the genome positioning system (GPS) algorithm ...
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(Massachusetts Institute of Technology, 2010)The regulation of gene expression underlies the morphological, physiological, and functional differences between human cell types, developmental stages, and healthy and disease states. Gene regulation in eukaryotes is ...
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