Ag Data Commons
Browse

Data from: Multiple immune pathways control susceptibility of Arabidopsis thaliana to the parasitic weed Phelipanche aegyptiaca

Download (30.67 kB)
software
posted on 2023-12-18, 18:04 authored by Christopher R. Clarke, Jennifer H. Van Mullekom, James H. Westwood

Four files are included in this dataset.

  1. An R script (using the ggplot2 package) for generating odds ratio graphs that depict both the 95% and 99% confidence interval across all tested mutants in the referenced paper (Figures 2-4). This script can be used to depict odds ratios and multiple confidence intervals for any dataset with a large number of independent treatment groups.

  2. An example csv file for use with the R script.

  3. A SAS script for running the Proc Glimmix procedure for generating odds ratios of attachments for all tested mutant plant lines in the referenced paper. We used a generalized linear mixed model (SAS/STAT(R) 9.2 User's Guide, 2016) to analyze different rates of parasitization at three developmental marker points. The model is based on the binomial distribution with the logit link.

  4. An example JMP file for use with the SAS script. Fixed effects and random blocks can be defined depending on the experimental setup.This script can be used for calculating odds ratios for any dataset in which many different treatment groups are compared to a single control group.


    Resources in this dataset:

    • Resource Title: Zipped file with all referenced scripts and data files.

      File Name: OddsRatiosPhelipancheArabidopsisMutantsClarke.zip

Funding

USDA-NIFA: 2015-67012-22821

National Science Foundation: IOS-1238057

History

Data contact name

Clarke, Christopher

Publisher

Ag Data Commons

Theme

  • Not specified

ISO Topic Category

  • biota

National Agricultural Library Thesaurus terms

computer software; Arabidopsis thaliana; parasitic plants; odds ratio; graphs; confidence interval; mutants; models; binomial distribution; statistical models; data collection

Pending citation

  • No

Public Access Level

  • Public

Preferred dataset citation

Clarke, Christopher R.; Van Mullekom, Jennifer H.; Westwood, James H. (2019). Data from: Multiple immune pathways control susceptibility of Arabidopsis thaliana to the parasitic weed Phelipanche aegyptiaca. Ag Data Commons. https://doi.org/10.15482/USDA.ADC/1503694