Correction of database SNP accession numbers misassigned to SNPs of the 8K IRSC apple SNP array

Publication Overview
TitleCorrection of database SNP accession numbers misassigned to SNPs of the 8K IRSC apple SNP array
AuthorsEdge-Garza DA, Villamil-Castro M, Main D, Hardner C.
TypeJournal Article
Journal NameTree Genetics & Genomes
Issue17
Year2021
Page(s)17
CitationEdge-Garza DA, Villamil-Castro M, Main D, Hardner C. Correction of database SNP accession numbers misassigned to SNPs of the 8K IRSC apple SNP array. 2021 Tree Genetics & Genomes 17:17

Abstract

Accurate SNP locus identifiers are essential for the correct matching and aggregation of multiple historical datasets. The National Center for Biotechnology Information (NCBI) issued unique “submitted SNP identification” numbers (ssIDs) for every published SNP submitted to its database. Discrepant ssID information was discovered for 78 SNPs for the 8K IRSC apple SNP array while attempting to collate multiple historical datasets, and a review of the archived SNP database from the NCBI led to their correction and a collation of SNP markers with no duplicate ssIDs. As the incorrect ssIDs were subsequently republished and uploaded to the Genome Database for Rosaceae, the aim of this short communication is to report the correct NCBI ssIDs for these 78 SNPs to correctly aggregate historical SNP data, prevent perpetuation of the misassigned ssIDs in further publications, and provide a citation for correcting the misassigned ssIDs in the Genome Database for Rosaceae (because the NCBI no longer supports storage of non-human SNP data).
Features
This publication contains information about 62 features:
Feature NameUniquenameType
RosBREED_SNP_AC_2593090_Lg16RosBREED_SNP_AC_2593090_Lg16genetic_marker
RosBREED_SNP_AG_49031915_Lg15RosBREED_SNP_AG_49031915_Lg15genetic_marker
RosBREED_SNP_CT_30187_Lg11RosBREED_SNP_CT_30187_Lg11genetic_marker
RosBREED_SNP_GT_14945861_Lg5RosBREED_SNP_GT_14945861_Lg5genetic_marker
RosBREED_SNP_GT_248882_Lg16RosBREED_SNP_GT_248882_Lg16genetic_marker
RosBREED_SNP_AC_23834728_Lg7RosBREED_SNP_AC_23834728_Lg7genetic_marker
RosBREEDSNP_SNP_AC_3334689_Lg16RosBREEDSNP_SNP_AC_3334689_Lg16genetic_marker
RosBREEDSNP_SNP_AC_39662008_Lg13RosBREEDSNP_SNP_AC_39662008_Lg13genetic_marker
RosBREEDSNP_SNP_AG_12002621_Lg16RosBREEDSNP_SNP_AG_12002621_Lg16genetic_marker
RosBREEDSNP_SNP_AG_22298896_Lg5RosBREEDSNP_SNP_AG_22298896_Lg5genetic_marker
RosBREEDSNP_SNP_AG_24287312_Lg11RosBREEDSNP_SNP_AG_24287312_Lg11genetic_marker
RosBREED_SNP_AG_2895270_Lg16RosBREED_SNP_AG_2895270_Lg16genetic_marker
RosBREEDSNP_SNP_AG_32970_Lg16RosBREEDSNP_SNP_AG_32970_Lg16genetic_marker
RosBREEDSNP_SNP_AG_33107321_Lg1RosBREEDSNP_SNP_AG_33107321_Lg1genetic_marker
RosBREEDSNP_SNP_AG_3942532_Lg4RosBREEDSNP_SNP_AG_3942532_Lg4genetic_marker
RosBREEDSNP_SNP_AG_7021751_Lg14RosBREEDSNP_SNP_AG_7021751_Lg14genetic_marker
RosBREEDSNP_SNP_AG_7249592_Lg1RosBREEDSNP_SNP_AG_7249592_Lg1genetic_marker
RosBREEDSNP_SNP_AG_7529469_Lg10RosBREEDSNP_SNP_AG_7529469_Lg10genetic_marker
RosBREED_SNP_AG_989405_Lg9RosBREED_SNP_AG_989405_Lg9genetic_marker
RosBREEDSNP_SNP_CA_36256785_Lg12RosBREEDSNP_SNP_CA_36256785_Lg12genetic_marker
RosBREED_SNP_CT_18163381_Lg12RosBREED_SNP_CT_18163381_Lg12genetic_marker
RosBREEDSNP_SNP_CT_18330692_Lg4RosBREEDSNP_SNP_CT_18330692_Lg4genetic_marker
RosBREEDSNP_SNP_CT_22507735_Lg6RosBREEDSNP_SNP_CT_22507735_Lg6genetic_marker
RosBREEDSNP_SNP_CT_2745724_Lg16RosBREEDSNP_SNP_CT_2745724_Lg16genetic_marker
RosBREEDSNP_SNP_CT_28862853_Lg12RosBREEDSNP_SNP_CT_28862853_Lg12genetic_marker

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