Home › Cell Biology › Genomic MRI - a Public Resource for Studying Sequence Patterns within Genomic DNA
Cell Biology JoVE (Open Access) Citable · DOI

Genomic MRI - a Public Resource for Studying Sequence Patterns within Genomic DNA

DOI: 10.3791/2663-v
What you'll learn
  • ✓ Upload genomic DNA sequences to Genomic MRI for automated analysis
  • ✓ Detect and interpret short-range and mid-range nucleotide composition patterns
  • ✓ Generate randomized control sequences with specified complexity levels
  • ✓ Identify non-random sequence motifs using web-based visualization tools
Protocol

Biopharma Insights We present a public computational web site for the analysis of genomic sequences. It detects DNA sequence patterns with various non-random nucleotide compositions. This resource also generates randomized sequences with diverse levels of complexity.

Difficulty
beginner
Total time
~10-15 min per sequence analysis

Steps

1
Prepare and upload genomic sequence input

Access the Genomic MRI web interface and upload a DNA sequence file for analysis. The platform accepts standard genomic sequence formats for computational processing.

▶ 02:04
2
Analyze short-range inhomogeneity and generate controls

Run short-range inhomogeneity (SRI) analysis to detect local nucleotide bias patterns. Generate randomized sequences with controlled complexity levels to serve as statistical controls.

▶ 03:50
3
Calculate mid-range inhomogeneity patterns

Perform mid-range inhomogeneity (MRI) analysis to identify nucleotide composition patterns at intermediate sequence scales. Visualize results through platform graphics.

▶ 06:20
4
Identify and interpret MRI pattern results

Review detected MRI patterns in the sequence data and compare against randomized control sequences to distinguish biologically relevant from random compositional features.

▶ 09:38
5
Access and export analysis results

View saved analysis data including pattern summaries and visualizations. Export or download results for further downstream analysis or publication.

▶ 11:00
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