Nucleosome Dynamics

Nucleosome Dynamics analyzes MNase-seq and other noisy experimental data to define nucleosome architectures and detect dynamic nucleosomal changes for studies of chromatin organization and transcriptional regulation.

Key Features:

• Architecture Definition: Defines equilibrium nucleosome architectures using MNase-seq and other experimental data.
• Dynamic Detection: Detects changes in nucleosomal organization across cellular states, including cell cycle phases and metabolic conditions.
• Comparative Analysis: Compares MNase-seq reads across experiments to identify nucleosome inclusions, evictions, and positional shifts.
• Genomic and Transcriptomic Context: Contextualizes nucleosome data with genome and transcriptome information to provide multidimensional genomic context.

Scientific Applications:

• Transcriptional Regulation Studies: Elucidates nucleosome positioning to inform analyses of transcriptional regulation.
• Cell Cycle Analysis: Enables study of nucleosomal organization changes during different cell cycle phases and metabolic cycles.
• Nutrient Impact Research: Allows investigation of how nutrient variations affect nucleosome positioning and dynamics.

Methodology:

Processes experimental data, such as MNase-seq reads, to locate equilibrium nucleosome architecture and track dynamic changes; employs algorithms optimized for static and dynamic analyses to detect and interpret nucleosomal shifts under various conditions.