Using the 454 sequencing technology they unambiguously mapped 97% of the sequence reads and showed that the obtained expression profiles were highly reproducible.
The microarray platform contained 1,262,421 probes that could each be unambiguously mapped to a single location (i.e., uniquely mapped) in the maize genome and that we therefore concluded are non-repetitive [22].
Because sequences surrounding six tracts (Cj1305c, Cj1310c, Cj1318, Cj1335, Cj1421c, and Cj1422c) match multiple sites in the genome, short sequence reads could not be unambiguously mapped to these loci.
Two of the fragments were unambiguously mapped to unique sequences in mouse genome and contained precise fusion of the vector sequences to exons of mouse TSC22D2 and LRBA genes (Figure 2).
Percent unambiguously mapped reads.
Percent unambiguously mapped reads normalized to genome size.
Unambiguously mapped results were first used to generate gene counts.
SNPs were identified from unambiguously mapped reads using Samtools (http://samtools.sourceforge.net/).net/
Only miRNA genes whose precursor sequences could be unambiguously mapped to the genome were used.
DEGseq identified 15% less expressed genes than Cufflinks, because DEGseq utilizes only unambiguously mapped reads.
Only reads that were unambiguously mapped were used for variant calling by our custom caller.
