In many disease settings, it is likely that only a subset of the disease population will exhibit
certain genetic or phenotypic differences from the healthy population. Therefore, when seeking to identify
genes or other explanatory factors that might be related to the disease state, we might expect a mixture
distribution...
RNA sequencing (RNA-Seq) is the current method of choice for characterizing transcriptomes and
quantifying gene expression changes. This next generation sequencing-based method provides unprecedented
depth and resolution. The negative binomial (NB) probability distribution has been shown to be a
useful model for frequencies of mapped RNA-Seq reads and consequently provides...
When assessing differential gene expression from RNA sequencing data, commonly used statistical tests tend to have greater power to detect differential expression of genes encoding longer transcripts. This phenomenon, called "length bias", will influence subsequent analyses such as Gene Ontology enrichment analysis. In the presence of length bias, Gene Ontology...
Vibrio cholerae, an etiological agent of cholera, circulates between aquatic reservoirs and the human gastrointestinal tract. The
type II secretion (T2S) system plays a pivotal role in both stages of the lifestyle by exporting multiple proteins, including cholera
toxin. Here, we studied the kinetics of expression of genes encoding the...
The ocean plays a critical role in supporting human well-being, from providing food, livelihoods and recreational opportunities to regulating the global climate. Sustainable management aimed at maintaining the flow of a broad range of benefits from the ocean requires a comprehensive and quantitative method to measure and monitor the health...
The state of the California Current System (CCS)
since spring 2011 has evolved in response to dissipation
of La Niña through spring and summer, resurgence of
cooler La Niña conditions in fall and winter, and finally
a transition towards ENSO-neutral conditions in spring
2012. The resurgence of La Niña was...
Oyster shell is a crucial component of healthy oyster reefs. Shell planting has been a main component of oyster restoration efforts in many habitats and has been carried out on scales from individual and grassroots efforts to multiagency efforts across entire estuaries. However, the cycling and lifetime of the shell...
Statistical hypothesis testing has been widely criticized by ecologists in recent
years. I review some of the more persistent criticisms of P values and argue that most stem
from misunderstandings or incorrect interpretations, rather than from intrinsic shortcomings
of the P value. I show that P values are intimately linked...
Includes 1922 Summer School Graduates.
In the following pages the information, so far as it has been possible to obtain it, is given in the following order for each alumnus: Name, year in which the degree was conferred, degree, course, present occupation, and present mailing address.