Open Access. Powered by Scholars. Published by Universities.®
Physical Sciences and Mathematics Commons™
Open Access. Powered by Scholars. Published by Universities.®
Articles 1 - 3 of 3
Full-Text Articles in Physical Sciences and Mathematics
Grnsight: A Web Application And Service For Visualizing Models Of Small- To Medium-Scale Gene Regulatory Networks, Kam D. Dahlquist, John David N. Dionisio, Ben G. Fitzpatrick, Nicole A. Anguiano, Anindita Varshneya, Britain J. Southwick, Mihir Samdarshi
Grnsight: A Web Application And Service For Visualizing Models Of Small- To Medium-Scale Gene Regulatory Networks, Kam D. Dahlquist, John David N. Dionisio, Ben G. Fitzpatrick, Nicole A. Anguiano, Anindita Varshneya, Britain J. Southwick, Mihir Samdarshi
Biology Faculty Works
GRNsight is a web application and service for visualizing models of gene regulatory networks (GRNs). A gene regulatory network (GRN) consists of genes, transcription factors, and the regulatory connections between them which govern the level of expression of mRNA and protein from genes. The original motivation came from our efforts to perform parameter estimation and forward simulation of the dynamics of a differential equations model of a small GRN with 21 nodes and 31 edges. We wanted a quick and easy way to visualize the weight parameters from the model which represent the direction and magnitude of the influence of …
Exploration Of Climate Influences On The Abundance Of Galls On Red Willow (Salix /Aevigata) Across Two Riparian Communities In Southern California, Victor D. Carmona-Galindo, Rachael Sears, Tauras P. Vilgalys, Emily Hand, Sara Morledge-Hampton
Exploration Of Climate Influences On The Abundance Of Galls On Red Willow (Salix /Aevigata) Across Two Riparian Communities In Southern California, Victor D. Carmona-Galindo, Rachael Sears, Tauras P. Vilgalys, Emily Hand, Sara Morledge-Hampton
Biology Faculty Works
In Southern California, the red willow (Sa/ix laevigata Bebb) hosts a variety of gall-inducing parasitic insects. However, little is known about the ecology of these parasites, particularly the characterization of their microclimate preferences. This study explores the relationship between microclimate and gall frequencies in S. laevigata in the Ballona Wetlands and Temescal Canyon, and gall count correlated with biotic and abiotic factors such as soil pH, soil moisture and willow density. Significantly more galls per leaf were found at Temescal Canyon than Ballona Wetlands. Although the number of galls per leaf correlated negatively with soil pH, soil moisture content and …
Improving The Computer Science In Bioinformatics Through Open Source Pedagogy, John David N. Dionisio, Kam D. Dahlquist
Improving The Computer Science In Bioinformatics Through Open Source Pedagogy, John David N. Dionisio, Kam D. Dahlquist
Biology Faculty Works
Bioinformatics relies more than ever on information technologies. This pressures scientists to keep up with software development best practices. However, traditional computer science curricula do not necessarily expose students to collaborative and long-lived software development. Using open source principles, practices, and tools forms an effective pedagogy for software development best practices. This paper reports on a bioinformatics teaching framework implemented through courses introducing computer science students to the field. The courses led to an initial product release consisting of software and an Escherichia coli K12 GenMAPP Gene Database, within a total "incubation time" of six months.