The removal of duplicate reads is a well-defined procedure in experiments involving DNA sequencing but is less clear-cut when sequencing the transcriptome where varying transcript concentrations naturally lead to reads of identical mRNA segments.
However, as the quality score of reads is determined by the uniqueness of the mapping position, masking may lead to reads that originate from the repeated sequences mapping spuriously to other locations, with potentially high quality scores.
For practical applications, the foremost bottleneck of this array architecture is the sneak current path issue, which leads to read operation error [241].
For the last decade, although many dielectrics have shown resistive switching characteristics, undesirable cross-talk through neighboring cells due to sneak current leads to read disturbance and limits the array size.
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Further normalization to account for total library size led to read counts being transformed to reads per million (RPM) as described in Chavez et al. 2010.
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Such instances would lead to read-splitting in DSV and read-truncation in ISV.
Mutations in either of these proteins can lead to read-through of chain termination mutations (Gagny and Silar 1998; Inge-Vechtomov et al. 2003), but the release factors have other roles in cell organization and cell cycle progression, and characterization of the suppressors from a range of organisms may give important insights into these additional functions (Inge-Vechtomov et al. 2003).
These "multi-mapped" reads can lead to false read counts for many transcripts.
