FAN-C

FAN-C analyzes Hi-C and chromosome conformation capture data to generate and process chromatin interaction matrices for studying three-dimensional genome architecture.

Key Features:

• Matrix generation: Constructs interaction matrices representing chromosomal contacts from Hi-C data.
• Analysis functions: Provides analysis capabilities tailored to C-like data for processing and interpreting contact matrices.
• Visualization capabilities: Produces visual representations of interaction matrices to support interpretation of chromatin contacts.
• Support for Hi-C storage formats: Maintains compatibility with prevalent Hi-C storage formats to enable use of existing data files.
• Interoperability: Enables integration with other Hi-C analysis tools via format compatibility.

Scientific Applications:

• Chromosome spatial organization: Analysis of the spatial organization of chromosomes within the nucleus using Hi-C data.
• Chromatin interaction studies: Identification and interpretation of chromatin interactions relevant to gene regulation, genome stability, and cellular function.
• 3D genome architecture: Generation of detailed interaction matrices necessary for studying three-dimensional genome architecture.

Methodology:

Starts from mapped paired-end sequencing reads from Hi-C experiments, performs matrix generation to construct interaction matrices, and provides subsequent analysis and visualization of those matrices.