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===Follow-up=== * It is possible that the presence of the short transposon adapter sequences in the harvested amplicons are leading to off-target products during the off-chip 2nd PCR. * Cleaning up the harvested amplicons before running off-chip 2nd PCR could address this issue. * I selected 8 single-cell libraries and did Ampure XP bead purification, then repeated the off-chip PCR.
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