Cloud ATAC

Cloud ATAC analyzes ATAC-seq data from pooled-cell and single-cell populations through a cloud-based interactive framework implementing best practices approaches for chromatin accessibility profiling.

Key Features:

• Scalable Cloud Computing: Uses on-demand computational power and memory with GPU instances for improved single-cell framework run-time on Google Cloud.
• Interactive Computing Platform: Leverages Jupyter Notebook combining live code, narrative text, flashcards, quizzes, and custom visualizations.
• Comprehensive Analysis Stages: Supports pre-analysis, core analysis, and advanced downstream analysis with appropriate parameter selection at each stage.
• Dual Population Analysis: Accommodates both pooled-cell and single-cell ATAC-seq data analysis workflows.

Scientific Applications:

• Chromatin Accessibility Profiling: Generates genome-wide chromatin accessibility profiles to investigate epigenetic gene regulation.
• Epigenetic Gene Regulation Studies: Provides insights into regulatory mechanisms at both pooled-cell and single-cell population levels.

Methodology:

The framework employs a best practices approach for ATAC-seq data analysis using various interdependent programs with Google Cloud resources and GPU acceleration for single-cell analysis.