Power Signal Analysis of Channel Current Signal Using HMM-EM and Time Domain FSA

The Nanopore Detector using á-hemolysin channel transcribes kinetics of a single molecule along the nanometer-scale pore. The transcribed data is represented by electrical measurements. We present accurate and computationally inexpensive tools to analyze single molecule kinetics. The HMM-EM level projection method de-noises data, retaining the transitions with very high precision. This approach doesn't require input number of levels. Another advantage is the minimal tuning required. The levels are then identified using Finite State Automata (FSAs). Spike Detector algorithm analyzes spikes characterizing behavior of molecule in pore. No commercial tools available are capable of analyzing spikes in presence of noise. The formulation of HMM-EM, FSAs and Spike Detector together provides a robust method for analysis of channel current data. Application of these methods is described for Vercoutere channel blockade dataset which contains signals of radiated and non-radiated molecules. The tools developed were used successfully to differentiate between these two molecules.

Name thesis:degree_name

M.S.

Level thesis:degree_level

Thesis

Discipline thesis:degree_discipline

Computer Science

Year

2006

Author dc:creator

• Prabhakaran, Anand

Contributors dc:contributor

• Winters-Hilt, Stephen
• Chen, Yixin

• Nanopore detectors
• Signal analysis
• Radiated
• Non-radiated
• Temperature

Repository record dc:identifier

https://scholarworks.uno.edu/td/321

OAI identifier oai:identifier

oai:scholarworks.uno.edu:td-1354