Bioinformatics and Computational Biology
Program in Bioinformatics & Integrative Biology
First Thesis Advisor
Jeffrey D. Jensen, PhD
Population Genetics, Genetic Selection, Human Genome, Statistical Data Interpretation
Dissertations, UMMS; Genetics, Population; Selection, Genetic; Genome, Human; Data Interpretation, Statistical
As sequencing technology continues to produce better quality genomes at decreasing costs, there has been a recent surge in the variety of data that we are now able to analyze. This is particularly true with regards to our understanding of the human genome—where the last decade has seen data advances in primate epigenomics, ancient hominid genomics, and a proliferation of human polymorphism data from multiple populations. In order to utilize such data however, it has become critical to develop increasingly sophisticated tools spanning both bioinformatics and statistical inference. In population genetics particularly, new statistical approaches for analyzing population data are constantly being developed—unfortunately, often without proper model testing and evaluation of type-I and type-II error. Because the common Wright-Fisher assumptions underlying such models are generally violated in natural populations, this statistical testing is critical. Thus, my dissertation has two distinct but related themes: 1) evaluating methods of statistical inference in population genetics, and 2) utilizing these methods to analyze the evolutionary history of humans and our closest relatives. The resulting collection of work has not only provided important biological insights (including some of the first strong evidence of selection on human-specific epigenetic modifications (Shulha, Crisci, Reshetov, Tushir et al. 2012, PLoS Bio), and a characterization of human-specific genetic changes distinguishing modern humans from Neanderthals (Crisci et al. 2011, GBE)), but also important insights in to the performance of population genetic methodologies which will motivate the future development of improved approaches for statistical inference (Crisci et al, in review).
Crisci, JL. On Identifying Signatures of Positive Selection in Human Populations: A Dissertation. (2013). University of Massachusetts Medical School. GSBS Dissertations and Theses. Paper 664. DOI: 10.13028/M2Q88F. http://escholarship.umassmed.edu/gsbs_diss/664
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