Data from: The recombination landscape in Arabidopsis thaliana F2 populations

Weigel D, Bomblies K, Fitz J, Laitinen RAE, Warthmann N, Yant L, Salome PA

Date Published: September 14, 2011

DOI: http://dx.doi.org/10.5061/dryad.v655ns36

 

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Title allele frequencies
Downloaded 65 times
Description Genotype frequencies for all 17 F2 populations. AA: plants homozygous for grandparent A; BB: plants homozygous for grandparent B; AB: heterozygous plants. NA: plants with no genotype information. For all SNP positions the associated p-value is given, for the Chi square test for deviation from a mendelian 1:2:1 segregation ratio.
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Title discriminating SNPs
Downloaded 43 times
Description list of SNPs from the initial set of 402 that were used to differentiate between parental accessions. The number of populations discriminated by each SNP is indicated (from 1 to 16, out of 17.
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Title genetic distances
Downloaded 57 times
Description matrix of pair-wise genetic distances between the 17 parental accessions. Also includes genetic distances of all 17 F2 populations calculated from 149 and 402 SNP sets. Parental accession genotypes used for calculation of genetic distances with our set of 402 SNPs is also given.
Download genetic distances.xls (130.0 Kb)
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Title maps K H CF
Downloaded 71 times
Description genetic maps measured with the Haldane (H), Kosambi (K) and Carter-Falconer (CF) map functions in R/qtl. Note that the Kosambi and Carter-Falconer genetic maps for the P8 population failed to compute.
Download maps K H CF.xls (430.5 Kb)
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Title XO counts per plant
Downloaded 61 times
Description Number of crossovers per chromosome pair and per plant. Each spreadsheet corresponds to a given chromosome.
Download XO counts per plant.xls (591.3 Kb)
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Title XO counts per position
Downloaded 68 times
Description Number of crossovers per F2 population and per position. The position of each crossover was approximated to the mid-point of the interval containing the crossover. SNP: indicates the SNP located to the right-side of the interval containing the crossover; mid-point: position (in bp) of the mid-point of the interval.
Download XO counts per position.xls (258.0 Kb)
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Title XO interference
Downloaded 106 times
Description List of positions of first (XO1) and second (XO2) crossovers of the crossover pairs. XO positions and inter-XO distances are given in bp, cM and normalized cM positions.
Download XO interference.xls (518.1 Kb)
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Title all XOs
Downloaded 55 times
Description Positions of all crossover events (single and double) per plant and chromosome. zip file containing data for all 17 F2 populations.
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When using this data, please cite the original publication:

Salome PA, Bomblies K, Fitz J, Laitinen RAE, Warthmann N, Yant L, Weigel D (2011) The recombination landscape in Arabidopsis thaliana F2 populations. Heredity 108: 447-455. http://dx.doi.org/10.1038/hdy.2011.95

Additionally, please cite the Dryad data package:

Weigel D, Bomblies K, Fitz J, Laitinen RAE, Warthmann N, Yant L, Salome PA (2011) Data from: The recombination landscape in Arabidopsis thaliana F2 populations. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.v655ns36
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