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apple_REFPOP_progeny_marker_position_data.txt
Version 1.1
File Citation
Muranty, Hélène; Howard, Nicholas P.; Denancé, Caroline; Le Paslier, Marie-Christine; Berard, Aurélie, 2020, "apple_REFPOP_progeny_marker_position_data.txt", Apple REFPOP progeny mid-density genotypic data, https://doi.org/10.15454/1ERHGX/ELYNER, Portail Data INRAE, V1

This file is part of "Apple REFPOP progeny mid-density genotypic data".

Dataset Citation
Muranty, Hélène; Howard, Nicholas P.; Denancé, Caroline; Le Paslier, Marie-Christine; Berard, Aurélie, 2020, "Apple REFPOP progeny mid-density genotypic data", https://doi.org/10.15454/1ERHGX, Portail Data INRAE, V1
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doi:10.15454/1ERHGX/ELYNER
cf2c8863f52fef5c0e8e8118f88b0b45
2020-10-22
680.2 KB
text/plain
List of the 10295 SNP loci genotyped with the Illumina Infinium 20K array on the apple REFPOP progeny. The column "Index_20K" indicates the SNP index number on the 20K array that is used as column name in the file apple_REFPOP_progeny_marker_data.txt. The column "Original_Locus_Name" indicates the full name of the SNP; the column "Affymetrix_id" indicates the name of the SNP on the Affymetrix Axiom 480K SNP array (Bianco et al 2016); the columns "chr" and "position" indicate the position of the SNP on GDDH13 v1.1 reference genome (Daccord et al 2017). A value of "0" in column "chr" means the SNP is located on an unmapped portion of GDDH13 v1.1 genome. A value of "19" in column "chr" means the position of the SNP could not be deduced from BLAST results. A value "not robust on 480K" in columns "chr" and "position" means the SNP was not considered robust when genotyped on the Affymetrix Axiom 480K SNP array and thus not used for the apple REFPOP. The column "Used ot not" indicates if the SNP was used in the work on the apple REFPOP by Jung et al (2020). The subset of 10295 robust SNPs was filtered from the 20K genotyping results as described in Howard et al (2020).
2020-09-08
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