Oligonucleotide Search

Oligonucleotide Search evaluates primer hybridization propensity across whole genomes to assess primer specificity and potential off-target hybridization.

Key Features:

• Genome-Wide Analysis: Performs comprehensive analysis across entire genomes to assess primer specificity and potential off-target hybridization.
• Integration with Diverse Data Types: Integrates whole genome sequences, gene expression data from various cell types, and databases of regulatory elements for contextual assessment.
• Cross-Species Sequence Conservation: Identifies conserved genomic sequences across multiple species to inform primer selection and functional interpretation.

Scientific Applications:

• Transcription Factor Identification: Aids identification of transcription factors that regulate genes with similar expression patterns within specific cell types.
• Comparative Genomic Analysis: Enables comparison of gene expression levels between normal and diseased cellular states to investigate disease mechanisms and potential therapeutic targets.

Methodology:

Employs a series of in-house applications to integrate, contextualize, and visualize genomic and expression datasets across multiple hierarchical levels, demonstrated on examples such as the protamine cluster.