FineStr

FineStr maps nucleosome positions at single-base resolution to analyze nucleosome positioning and its role in gene regulation and chromatin structure.

Key Features:

• Single-Base-Resolution Mapping: Provides nucleosome mapping at single-base resolution to pinpoint nucleosome positions precisely.
• Nucleosome DNA Bendability Matrix: Uses a derived complete nucleosome DNA bendability matrix specific to Caenorhabditis elegans.
• Nucleosome Core DNA Sequences Database: Leverages a nucleosome core DNA sequences database as part of its predictive framework.
• 10.4 Base Pair DNA Repeat Structure: Incorporates insights from previous studies on the 10.4 base pair DNA repeat structure into its analysis.
• Input Format Support: Accepts genomic sequences in FASTA format.

Scientific Applications:

• Chromatin Biology: Enables analysis of nucleosome organization and chromatin structure at nucleotide resolution.
• Epigenetics: Supports studies on how nucleosome positioning contributes to epigenetic regulation.
• Gene Regulation: Facilitates investigation of nucleosome effects on promoter accessibility and transcriptional control.
• DNA Accessibility and Transcriptional Activity: Assists research into relationships between nucleosome positioning, DNA accessibility, and transcriptional activity.

Methodology:

Prediction is based on a complete nucleosome DNA bendability matrix derived from Caenorhabditis elegans and leverages a nucleosome core DNA sequences database together with the 10.4 base pair DNA repeat structure.