Data from: Fine-mapping nicotine resistance loci in Drosophila using a multiparent advanced generation inter-cross population

Marriage TN, King EG, Long AD, Macdonald SJ

Date Published: September 22, 2014

DOI: http://dx.doi.org/10.5061/dryad.r5v40

 

Files in this package

Content in the Dryad Digital Repository is offered "as is." By downloading files, you agree to the Dryad Terms of Service. To the extent possible under law, the authors have waived all copyright and related or neighboring rights to this data. CC0 (opens a new window) Open Data (opens a new window)

Title R script for QTL analysis (B population)
Downloaded 32 times
Description This R script allows a user to read in genotype data for the DSPR (Drosophila Synthetic Population Resource, FlyRILs.org) and nicotine resistance phenotype data, and recapitulate the QTL mapping results presented in Marriage et al. for the "B" population of DSPR RILs.
Download Nicotine_pB_AnalysisCode.R (18.79 Kb)
Details View File Details
Title R script for QTL analysis (A population)
Downloaded 33 times
Description This R script allows a user to read in genotype data for the DSPR (Drosophila Synthetic Population Resource, FlyRILs.org) and nicotine resistance phenotype data, and recapitulate the QTL mapping results presented in Marriage et al. for the "A" population of DSPR RILs.
Download Nicotine_pA_AnalysisCode.R (19.94 Kb)
Details View File Details
Title Nicotine Resistance Phenotypes (A population)
Downloaded 4 times
Description This file contains nicotine resistance measures for a large number of A lines from the Drosophila Synthetic Population Resource (DSPR, www.FlyRILs.org). Line identifiers are presented in the "patRIL" column, and phenotypes are presented in the "NicotineViability" column. Together with genotype data and analytical R code this file allows users to generate the QTL mapping results presented in Marriage et al. for the A population of DSPR RILs.
Download NicotinePheno_A.txt (10.53 Kb)
Details View File Details
Title Nicotine Resistance Phenotypes (B population)
Downloaded 8 times
Description This file contains nicotine resistance measures for a large number of B lines from the Drosophila Synthetic Population Resource (DSPR, www.FlyRILs.org). Line identifiers are presented in the "patRIL" column, and phenotypes are presented in the "NicotineViability" column. Together with genotype data and analytical R code this file allows users to generate the QTL mapping results presented in Marriage et al. for the B population of DSPR RILs.
Download NicotinePheno_B.txt (5.862 Kb)
Details View File Details
Title DSPR Genotypes (A population)
Downloaded 4 times
Description This file contains genotypes for the population A RILs (Recombination Inbred Lines) of the DSPR (Drosophila Synthetic Population Resource). The genotypes were originally published in King et al. (Genome Research 2012, 22:1558-66) and are also available at www.FlyRILs.org (Data Release 2 - HMM Results for pA RILs at regularly spaced 10 kb intervals). The genotypes are derived from a Hidden Markov Model (HMM) at regularly spaced 10KB positions along the Drosophila melanogaster genome. There are no column headers in the file. Columns are: chromosome, genome position, line identifier, 36 columns of founder genotype probabilities, and 8 columns of additive probabilities. The precise names for each of the columns are listed in the analysis R code file for population A. Together with this code, and the nicotine resistance phenotype scores, a user can recapitulate the QTL mapping from Marriage et al.
Download HMMregA_R2.tgz (2.007 Gb)
Details View File Details
Title DSPR Genotypes (B population)
Downloaded 9 times
Description This file contains genotypes for the population B RILs (Recombination Inbred Lines) of the DSPR (Drosophila Synthetic Population Resource). The genotypes were originally published in King et al. (Genome Research 2012, 22:1558-66) and are also available at www.FlyRILs.org (Data Release 2 - HMM Results for pB RILs at regularly spaced 10 kb intervals). The genotypes are derived from a Hidden Markov Model (HMM) at regularly spaced 10KB positions along the Drosophila melanogaster genome. There are no column headers in the file. Columns are: chromosome, genome position, line identifier, 36 columns of founder genotype probabilities, and 8 columns of additive probabilities. The precise names for each of the columns are listed in the analysis R code file for population B. Together with this code, and the nicotine resistance phenotype scores, a user can recapitulate the QTL mapping from Marriage et al.
Download HMMregB_R2.tgz (1.977 Gb)
Details View File Details

When using this data, please cite the original publication:

Marriage TN, King EG, Long AD, Macdonald SJ (2014) Fine-mapping nicotine resistance loci in Drosophila using a multiparent advanced generation inter-cross population. Genetics 198(1): 45-57. http://dx.doi.org/10.1534/genetics.114.162107

Additionally, please cite the Dryad data package:

Marriage TN, King EG, Long AD, Macdonald SJ (2014) Data from: Fine-mapping nicotine resistance loci in Drosophila using a multiparent advanced generation inter-cross population. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.r5v40
Cite | Share
Download the data package citation in the following formats:
   RIS (compatible with EndNote, Reference Manager, ProCite, RefWorks)
   BibTex (compatible with BibDesk, LaTeX)

Search for data

Be part of Dryad

We encourage organizations to: