Sequence characteristics define trade-offs between on-target and genome-wide off-target hybridization of oligoprobes.

ABSTRACT: Off-target oligoprobe's interaction with partially complementary nucleotide sequences represents a problem for many bio-techniques. The goal of the study was to identify oligoprobe sequence characteristics that control the ratio between on-target and off-target hybridization. To understand the complex interplay between specific and genome-wide off-target (cross-hybridization) signals, we analyzed a database derived from genomic comparison hybridization experiments performed with an Affymetrix tiling array. The database included two types of probes with signals derived from (i) a combination of specific signal and cross-hybridization and (ii) genomic cross-hybridization only. All probes from the database were grouped into bins according to their sequence characteristics, where both hybridiz

SUBMITTER: Matveeva OV 

PROVIDER: S-EPMC6013149 | biostudies-literature | 2018

REPOSITORIES: biostudies-literature