Life Sciences Commons^™

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

John David N. Dionisio

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 …

Heat Map Analysis Of Rna-Seq Data Using Rstudio, Ray A. Enke, Ashton Holub

Ray Enke Ph.D.

Intro To Rstudio, Ray A. Enke, Ashton Holub

Ray Enke Ph.D.

A Gene-Based Association Method For Mapping Traits Using Reference Transcriptome Data, Eric R. Gamazon, Heather Wheeler, Kaanan P. Shah, Sahar V. Mozaffari, Keston Aquino-Michaels, Robert J. Carroll, Anne E. Eyler, Joshua C. Denny, Dan L. Nicolae, Nancy J. Cox, Hae Kyung Im

Heather Wheeler

Genome-wide association studies (GWAS) have identified thousands of variants robustly associated with complex traits. However, the biological mechanisms underlying these associations are, in general, not well understood. We propose a gene-based association method called PrediXcan that directly tests the molecular mechanisms through which genetic variation affects phenotype. The approach estimates the component of gene expression determined by an individual’s genetic profile and correlates ‘imputed’ gene expression with the phenotype under investigation to identify genes involved in the etiology of the phenotype. Genetically regulated gene expression is estimated using whole-genome tissue-dependent prediction models trained with reference transcriptome data sets. PrediXcan enjoys …

Comparing The Fieldscout Greenindex+ Chlorophyll Sensing App To The Minolta Spad Meter, Jessica D. Pille, John E. Sawyer, Daniel W. Barker

John E. Sawyer

With the improvement of mobile computing, the company Spectrum Technologies, Inc. has developed a precision Ag App which adapts an iPod, iPad, or iPhone camera to select for specific wavelengths of light from a corn leaf (Zea mays L.) in comparison to accompanying board for light/color comparison. The App computes a Dark Green Color Index (DGCI), indicating leaf greenness, which relates to the amount of chlorophyll and thus, indirectly, leaf nitrogen (N) content. The question posed for this study is: How accurate and convenient is the App compared to a proven technology, the Minolta 502 Soil-Plant Analysis Development (SPAD) meter; …