A quantitative comparison of single-dye tracking analysis tools using Monte Carlo simulations
Single-particle tracking (SPT) is widely used to study processes from membrane receptor organization to the dynamics of RNAs in living cells. While single-dye labeling strategies have the benefit of being minimally invasive, this comes at the expense of data quality; typically a data set of short tr...
| Main Authors: | , , , , , , , |
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| Format: | Journal article |
| Language: | English |
| Published: |
Public Library of Science
2013
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| _version_ | 1826294376022671360 |
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| author | Weimann, L Ganzinger, K McColl, J Irvine, K Davis, S Gay, N Bryant, C Klenerman, D |
| author_facet | Weimann, L Ganzinger, K McColl, J Irvine, K Davis, S Gay, N Bryant, C Klenerman, D |
| author_sort | Weimann, L |
| collection | OXFORD |
| description | Single-particle tracking (SPT) is widely used to study processes from membrane receptor organization to the dynamics of RNAs in living cells. While single-dye labeling strategies have the benefit of being minimally invasive, this comes at the expense of data quality; typically a data set of short trajectories is obtained and analyzed by means of the mean square displacements (MSD) or the distribution of the particles' displacements in a set time interval (jump distance, JD). To evaluate the applicability of both approaches, a quantitative comparison of both methods under typically encountered experimental conditions is necessary. Here we use Monte Carlo simulations to systematically compare the accuracy of diffusion coefficients (D-values) obtained for three cases: one population of diffusing species, two populations with different D-values, and a population switching between two D-values. For the first case we find that the MSD gives more or equally accurate results than the JD analysis (relative errors of D-values <6%). If two diffusing species are present or a particle undergoes a motion change, the JD analysis successfully distinguishes both species (relative error <5%). Finally we apply the JD analysis to investigate the motion of endogenous LPS receptors in live macrophages before and after treatment with methyl-β-cyclodextrin and latrunculin B. |
| first_indexed | 2024-03-07T03:44:40Z |
| format | Journal article |
| id | oxford-uuid:bf0dd55f-50b2-470c-898c-aac959c44f28 |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-07T03:44:40Z |
| publishDate | 2013 |
| publisher | Public Library of Science |
| record_format | dspace |
| spelling | oxford-uuid:bf0dd55f-50b2-470c-898c-aac959c44f282022-03-27T05:44:36ZA quantitative comparison of single-dye tracking analysis tools using Monte Carlo simulationsJournal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:bf0dd55f-50b2-470c-898c-aac959c44f28EnglishSymplectic Elements at OxfordPublic Library of Science2013Weimann, LGanzinger, KMcColl, JIrvine, KDavis, SGay, NBryant, CKlenerman, DSingle-particle tracking (SPT) is widely used to study processes from membrane receptor organization to the dynamics of RNAs in living cells. While single-dye labeling strategies have the benefit of being minimally invasive, this comes at the expense of data quality; typically a data set of short trajectories is obtained and analyzed by means of the mean square displacements (MSD) or the distribution of the particles' displacements in a set time interval (jump distance, JD). To evaluate the applicability of both approaches, a quantitative comparison of both methods under typically encountered experimental conditions is necessary. Here we use Monte Carlo simulations to systematically compare the accuracy of diffusion coefficients (D-values) obtained for three cases: one population of diffusing species, two populations with different D-values, and a population switching between two D-values. For the first case we find that the MSD gives more or equally accurate results than the JD analysis (relative errors of D-values <6%). If two diffusing species are present or a particle undergoes a motion change, the JD analysis successfully distinguishes both species (relative error <5%). Finally we apply the JD analysis to investigate the motion of endogenous LPS receptors in live macrophages before and after treatment with methyl-β-cyclodextrin and latrunculin B. |
| spellingShingle | Weimann, L Ganzinger, K McColl, J Irvine, K Davis, S Gay, N Bryant, C Klenerman, D A quantitative comparison of single-dye tracking analysis tools using Monte Carlo simulations |
| title | A quantitative comparison of single-dye tracking analysis tools using Monte Carlo simulations |
| title_full | A quantitative comparison of single-dye tracking analysis tools using Monte Carlo simulations |
| title_fullStr | A quantitative comparison of single-dye tracking analysis tools using Monte Carlo simulations |
| title_full_unstemmed | A quantitative comparison of single-dye tracking analysis tools using Monte Carlo simulations |
| title_short | A quantitative comparison of single-dye tracking analysis tools using Monte Carlo simulations |
| title_sort | quantitative comparison of single dye tracking analysis tools using monte carlo simulations |
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