Data for the Analysis of Rdr6 ('Morden Blush' x G168-2) via Linkage Analysis and BSA-seq

Moore, Emily M
Lopez Arias, Diana C
Zlesak, David C
Clark, Matthew D
Bourke, Peter M
Yong, Donnen
Sproul, Jim
Hokanson, Stan C
2025-10-23
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https://doi.org/10.13020/y9hn-0v73
 https://hdl.handle.net/11299/276692
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2021-07-01
2024-05-01

Date completed

2025-04-07

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Title

Data for the Analysis of Rdr6 ('Morden Blush' x G168-2) via Linkage Analysis and BSA-seq

Published Date

2025-10-23

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Author Contact

Moore, Emily M
kolbe046@umn.edu

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Dataset
Experimental Data
Genomics Data
Statistical Computing Software Code
Other Dataset

Abstract

The data and scripts presented here represents the process for creating a linkage map and mapping rose a black spot resistance quantitative trait locus in a tetraploid garden rose population. Included are the raw data files (.CEL, zipped folder) from genotyping via the rose WagRhSNP 68k Axiom Array. The scripts (.R) included are for filtering, linkage map construction, and locus mapping. Additional data files include the required input and output files from each mapping step, the phenotyping file used for linkage analysis and the gene mining file (both as .csv). Also included are the .sh script and additional materials for marker filtering. Finally, raw data files for BSA-seq are included for the BSA-seq analysis presented in the manuscript. This data is released due to the publishing of a manuscript detailing the work using this data.

Description

See README file for more information. Files included are: Raw data files from the 68k Rose WagRhSNP Axiom Array Log file from Axiom Analysis Suite to repeat parameters from initial filtering Marker filtration R project, necessary scripts, and files for examples Necessary files and scripts for filtering using FitPoly Map construction R project, necessary scripts, and files for examples Locus mapping R project, necessary scripts, and files for examples Gene mining files

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License

CC-BY 4.0 International
 https://creativecommons.org/licenses/by/4.0/

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Data Repository for U of M (DRUM)

Funding information

CFANS Diversity Fellowship
UWRF URSCA USE Grant
USDA-ARS
RosBREED2: Combining Disease Resistance and Horticultural Quality in New Rosaceous Cultivars (2014-51181-22378)

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Moore, Emily M; Lopez Arias, Diana C; Zlesak, David C; Clark, Matthew D; Bourke, Peter M; Yong, Donnen; Sproul, Jim; Hokanson, Stan C. (2025). Data for the Analysis of Rdr6 ('Morden Blush' x G168-2) via Linkage Analysis and BSA-seq. Retrieved from the Data Repository for the University of Minnesota (DRUM), https://doi.org/10.13020/y9hn-0v73.

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Rdr6_Analysis_Readme.txt
Readme documentation file
(164.79 KB)

00_RawData.zip
Raw CEL data files
(532.18 MB)

01_Axiom_Analysis_Suite.zip
Log information from Axiom Analysis Suite
(1.43 KB)

02.1_Marker_Filtration.zip
R scripts and data for marker filtration
(2.77 GB)

02.2_Fitpoly_Scoring.zip
Scripts and data for Fitpoly scoring
(310.51 KB)

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