Literature DB >> 22088841

NoRSE: noise reduction and state evaluator for high-frequency single event traces.

Nigel F Reuel1, Peter Bojo, Jingqing Zhang, Ardemis A Boghossian, Jin-Ho Ahn, Jong-Ho Kim, Michael S Strano.   

Abstract

UNLABELLED: NoRSE was developed to analyze high-frequency datasets collected from multistate, dynamic experiments, such as molecular adsorption and desorption onto carbon nanotubes. As technology improves sampling frequency, these stochastic datasets become increasingly large with faster dynamic events. More efficient algorithms are needed to accurately locate the unique states in each time trace. NoRSE adapts and optimizes a previously published noise reduction algorithm and uses a custom peak flagging routine to rapidly identify unique event states. The algorithm is explained using experimental data from our lab and its fitting accuracy and efficiency are then shown with a generalized model of stochastic datasets. The algorithm is compared to another recently published state finding algorithm and is found to be 27 times faster and more accurate over 55% of the generalized experimental space. NoRSE is written as an M-file for Matlab. AVAILABILITY: http://web.mit.edu/stranogroup/NoRSE.txt.

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Year:  2011        PMID: 22088841     DOI: 10.1093/bioinformatics/btr632

Source DB:  PubMed          Journal:  Bioinformatics        ISSN: 1367-4803            Impact factor:   6.937


  7 in total

1.  Complex Formed between Intramembrane Metalloprotease SpoIVFB and Its Substrate, Pro-σK.

Authors:  Yang Zhang; Sabyasachi Halder; Richard A Kerr; Daniel Parrell; Brandon Ruotolo; Lee Kroos
Journal:  J Biol Chem       Date:  2016-03-07       Impact factor: 5.157

2.  Bax monomers form dimer units in the membrane that further self-assemble into multiple oligomeric species.

Authors:  Yamunadevi Subburaj; Katia Cosentino; Markus Axmann; Esteban Pedrueza-Villalmanzo; Eduard Hermann; Stephanie Bleicken; Joachim Spatz; Ana J García-Sáez
Journal:  Nat Commun       Date:  2015-08-14       Impact factor: 14.919

3.  Single-molecule imaging of the BAR-domain protein Pil1p reveals filament-end dynamics.

Authors:  Michael M Lacy; David Baddeley; Julien Berro
Journal:  Mol Biol Cell       Date:  2017-06-28       Impact factor: 4.138

4.  Multivalency of NDC80 in the outer kinetochore is essential to track shortening microtubules and generate forces.

Authors:  Vladimir A Volkov; Pim J Huis In 't Veld; Marileen Dogterom; Andrea Musacchio
Journal:  Elife       Date:  2018-04-09       Impact factor: 8.140

5.  Optical detection of three modes of endocytosis at hippocampal synapses.

Authors:  Natali L Chanaday; Ege T Kavalali
Journal:  Elife       Date:  2018-04-23       Impact factor: 8.140

6.  Analyzing protein dynamics from fluorescence intensity traces using unsupervised deep learning network.

Authors:  Jinghe Yuan; Rong Zhao; Jiachao Xu; Ming Cheng; Zidi Qin; Xiaolong Kou; Xiaohong Fang
Journal:  Commun Biol       Date:  2020-11-12

7.  Single Molecule Bioelectronics and Their Application to Amplification-Free Measurement of DNA Lengths.

Authors:  O Tolga Gül; Kaitlin M Pugliese; Yongki Choi; Patrick C Sims; Deng Pan; Arith J Rajapakse; Gregory A Weiss; Philip G Collins
Journal:  Biosensors (Basel)       Date:  2016-06-24
  7 in total

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