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The physical locations of these QTLs in the diploid genome were determined by sequence mapping using PCR [ 98].
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Entries were first mapped to UniProtKB accessions using the ID mapping service [34] followed by sequence mapping.
High level of co-linearity within the sub-family Maloideae between the genomes of Malus and Pyrus has also shown by comparative mapping using simple sequence repeat (SSR) markers [ 20].
Figure11 shows reference mapping using Silent and Paris video sequences by the proposed scheme and Ding's algorithm.
Genetic analysis was performed by constructing a genetic map using simple sequence repeat (SSR) and gene-based SNP markers.
KRAS/BRAF mutations were mapped using sequencing.
Although a successful study has been described identifying a mutation in a bulk segregant population by sequencing and mapping without using prior SNP information in a single experiment, a fairly high and complete genome coverage was necessary [ 30, 31], making the technique challenging, especially for organisms with large genomes.
Comparative mapping was initially demonstrated by Fujiyama et al. [ 40] for constructing the human-chimpanzee comparative map using chimpanzee BAC end sequences to hit against human genome sequences.
Moreover, such mononucleosomes were genome-wide mapped using chromatin immunoprecipitation followed by next-generation sequencing (ChIP-seq).
All sequence maps were generated using VectorNTI 10 (Invitrogen).
Unless otherwise noted, all accessions and identifications (IDs) are mapped using ID Mapping table (40), followed by pairwise alignment and mapping of sequence positions with methods that have been used previously (24, 41).
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