PFSGE Analytical Portal

High-Molecular-Weight DNA Separation via Archimedean Spiral Gel Matrices & Continuous Rotating Electric Fields

Inventor & Researcher: Gurumurthy Swaminathan • Google Scholar Profile • GitHub Repository

Spiral Gel Scan Upload

Upload fluorescence image scan or load benchmark test gel

Drag & drop spiral gel image here

Supports PNG, JPG, TIFF, WebP scans

🧪 Benchmark Test Gel Library 4 Presets Available

Run directly in UI or download to test file uploader

Standard 3-Band

High SNR

10, 5, 1 Mb • Reference standard

📥 PNG

6-Band Megabase

6 Bands

12 to 0.7 Mb • Resolving power

📥 PNG

High-Background Fluor

Filter Test

Matrix flare & noise • SNR ~12 dB

📥 PNG

Off-Center Origin

Crosshair Test

Δx=+42, Δy=-30 • Align crosshair

📥 PNG

Background Threshold: 15

Gaussian Smoothing (σ): 2.0

Radial Electropherogram

One-dimensional integrated fluorescent intensity vs. radial distance $r$

Detected Bands (Peaks)

Radial Variance (σ²)

0.00

Peak Radii (px)

None

Load Simulation Scenario:

Electrophoretic Chamber Simulation

Overdamped Langevin dynamics in rotating electric vector field

DNA Fragments (N)

Time Steps (T)

Time Step dt (s)

Field Magnitude E (V/cm)

Rotation Freq ω (rad/s)

Base Drag ζ₀

Drag Gradient α

Brownian Noise D₀

Virtual Electropherogram

Terminal radial distribution $P(r)$ and band resolution metrics

Resolved Bands

Radial Variance (σ_r²)

0.0000

Mean Migration (r̄)

0.00

💡 Theoretical Insight: A lower radial variance $\sigma_r^2$ signifies superior band compactness and higher resolution across high-molecular-weight DNA bands without reptation entanglement.

Spiral Gel Printing Specifications

Automated Archimedean deposition parameters for continuous porosity casting

Target Porosity Gradient (α)

Inner Radius r_min (mm)

Outer Radius r_max (mm)

Base Agarose Conc C₀ (%)

Maximum Conc C_max (%)

Dispenser Bead Width w (mm)

Linear Velocity v (mm/s)

Total Revolutions

0.0

Spiral Path Length

0 mm

Dispense Duration

0 s

Max Stage Speed

0 RPM

Machine Actuation Curves

Synchronized Stage RPM & Polymer Concentration Gradient $C(r)$

Intellectual Property & Legal Specifications

Official publication details under Section 11A of the Patents Act, 1970

Patent Title:

A Pulsed-Field Spiral Gel Electrophoresis (PFSGE) Method and Apparatus for High-Molecular-Weight DNA Separation

Application No.:

202641085541 (Indian Patent Office)

Filing Date:

July 13, 2026

Publication Date:

October 23, 2026

Inventor:

Gurumurthy Swaminathan (Google Scholar Profile ↗)

Field of Invention:

Biochemical Analysis, Molecular Biology Instrumentation, Genomics

BibTeX Academic Citation

@patent{swaminathan2026pfsge,
  author    = {Swaminathan, Gurumurthy},
  title     = {A Pulsed-Field Spiral Gel Electrophoresis (PFSGE) Method and Apparatus for High-Molecular-Weight DNA Separation},
  number    = {202641085541},
  type      = {Patent Application},
  year      = {2026},
  month     = {October},
  publisher = {Indian Patent Office},
  url       = {https://pfsge.vercel.app}
}

Mathematical Modeling & Theoretical Principles

Physical governance of DNA reptation mitigation in graded matrices

1. Overdamped Langevin Migration Dynamics

ζ(r) (dx/dt) = q E(t) + η(t)

Where q is effective segment charge, E(t) = E₀(cos ωt, sin ωt) is the rotating field vector, and η(t) denotes Brownian noise satisfying ⟨η_i(t)η_j(t')⟩ = 2D₀/ζ(r) δ_ij δ(t-t').

2. Radial Drag (Porosity) Gradient

ζ(r) = ζ₀ (1 + α r²)

Progressive pore shrinkage radially outward prevents reptation elongation and band bunching for fragments > 5 Mb.

3. Archimedean Deposition Mechanics

r(θ) = r_inner + (w / 2π) θ

Toolpath coordinates ensuring uniform bead width w and constant linear casting speed via regulated rotation ω_stage(r) = v_linear / r.

4. Radial Density & Virtual Electropherograms

r_i = √(x_i² + y_i²), σ_r² = (1/N) Σ (r_i - r̄)²

Direct radial projection maps 2D spiral migration bands into quantifiable 1D electropherograms with minimal band broadening.