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Literature DB >> 16884207

Information theoretical approach to single-molecule experimental design and interpretation.

Abstract

We use Shannon's definition of information to develop a theory to predict a photon-counting-based single-molecule experiment's ability to measure the desired property. We treat three phenomena that are commonly measured on single molecules: spectral fluctuations of a solvatochromic dye; assignment of the azimuthal dipole angle; determination of a distance by fluorescence resonant energy transfer using Förster's theory. We consider the effect of background and other "imperfections" on the measurement through the decrease in information.

Entities: Chemical

Mesh：

Substances：
Coumarins
coumarin 153

Year: 2006 PMID： 16884207 PMCID： PMC1995558 DOI： 10.1021/jp062192b

Source DB: PubMed Journal: J Phys Chem A ISSN： 1089-5639 Impact factor: 2.781

34 in total

1. Single-molecule studies of heterogeneous dynamics in polymer melts near the glass transition.

Authors: L A Deschenes; D A Vanden Bout
Journal: Science Date: 2001-04-13 Impact factor: 47.728

2. Single-pair fluorescence resonance energy transfer on freely diffusing molecules: observation of Förster distance dependence and subpopulations.

Authors: A A Deniz; M Dahan; J R Grunwell; T Ha; A E Faulhaber; D S Chemla; S Weiss; P G Schultz
Journal: Proc Natl Acad Sci U S A Date: 1999-03-30 Impact factor: 11.205

3. Watching proteins fold one molecule at a time.

Authors: Elizabeth Rhoades; Eugene Gussakovsky; Gilad Haran
Journal: Proc Natl Acad Sci U S A Date: 2003-02-28 Impact factor: 11.205

Review 4. Single-molecule folding.

Authors: Xiaowei Zhuang; Matthias Rief
Journal: Curr Opin Struct Biol Date: 2003-02 Impact factor: 6.809

Review 5. Structural dynamics and processing of nucleic acids revealed by single-molecule spectroscopy.

Authors: Taekjip Ha
Journal: Biochemistry Date: 2004-04-13 Impact factor: 3.162

6. Direct observation of abortive initiation and promoter escape within single immobilized transcription complexes.

Authors: Emmanuel Margeat; Achillefs N Kapanidis; Philip Tinnefeld; You Wang; Jayanta Mukhopadhyay; Richard H Ebright; Shimon Weiss
Journal: Biophys J Date: 2005-11-18 Impact factor: 4.033

7. Measurement of single macromolecule orientation by total internal reflection fluorescence polarization microscopy.

Authors: Joseph N Forkey; Margot E Quinlan; Yale E Goldman
Journal: Biophys J Date: 2005-05-13 Impact factor: 4.033

8. Single-molecule measurement of protein folding kinetics.

Authors: Everett A Lipman; Benjamin Schuler; Olgica Bakajin; William A Eaton
Journal: Science Date: 2003-08-29 Impact factor: 47.728

Review 9. Optical detection of single molecules.

Authors: S Nie; R N Zare
Journal: Annu Rev Biophys Biomol Struct Date: 1997

10. Analysis of photobleaching in single-molecule multicolor excitation and Förster resonance energy transfer measurements.

Authors: Christian Eggeling; Jerker Widengren; Leif Brand; Jörg Schaffer; Suren Felekyan; Claus A M Seidel
Journal: J Phys Chem A Date: 2006-03-09 Impact factor: 2.781

7 in total

Information theoretical approach to single-molecule experimental design and interpretation.

1. Single-molecule studies of heterogeneous dynamics in polymer melts near the glass transition.

2. Single-pair fluorescence resonance energy transfer on freely diffusing molecules: observation of Förster distance dependence and subpopulations.

3. Watching proteins fold one molecule at a time.

Review 4. Single-molecule folding.

Review 5. Structural dynamics and processing of nucleic acids revealed by single-molecule spectroscopy.

6. Direct observation of abortive initiation and promoter escape within single immobilized transcription complexes.

7. Measurement of single macromolecule orientation by total internal reflection fluorescence polarization microscopy.

8. Single-molecule measurement of protein folding kinetics.

Review 9. Optical detection of single molecules.

10. Analysis of photobleaching in single-molecule multicolor excitation and Förster resonance energy transfer measurements.

1. Correlation spectroscopy of minor fluorescent species: signal purification and distribution analysis.

2. Hidden Markov model analysis of multichromophore photobleaching.

Review 3. Single-molecule biophysics: at the interface of biology, physics and chemistry.

4. COCIS: Markov processes in single molecule fluorescence.

5. A distribution-based method to resolve single-molecule Förster resonance energy transfer observations.

6. Gold Ion Beam Milled Gold Zero-Mode Waveguides.

7. Information-theoretical analysis of time-correlated single-photon counting measurements of single molecules.