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Showing posts with label BioFET. Show all posts
Showing posts with label BioFET. Show all posts
Thursday, October 11, 2012
Monday, July 23, 2012
BioFET-SIM Instruction Videos
The BioFET-SIM web interface operation is illustrated in 4 short instruction videos:
Basic interface operation
BioFET-SIM signal and pH response calculation
Custom structure upload
Restoring a previous session
Feel free to contact us in case of any questions under
biofetsim at gmail dot com
Basic interface operation
BioFET-SIM signal and pH response calculation
Custom structure upload
Restoring a previous session
Feel free to contact us in case of any questions under
biofetsim at gmail dot com
Friday, May 4, 2012
BioFET-SIM Web Interface: Implementation and Two Applications
Martin submitted a new paper to PLoS ONE:
BioFET-SIM Web Interface: Implementation and Two Applications Martin R. Hediger, Jan H. Jensen, Luca De Vico. arXiv biofetsim.org
The paper was submitted April 27 and deposited on arXiv the same day.
Abstract
We present a web interface for the BioFET-SIM program. The web interface allows to conveniently setup calculations based on the BioFET-SIM multiple charges model. As an illustration, two case studies are presented. In the first case, a generic peptide with opposite charges on both ends is inverted in orien- tation on a semiconducting nanowire surface leading to a corresponding change in sign of the computed sensitivity of the device. In the second case, the binding of an antibody/antigen complex on the nanowire surface is studied in terms of orientation and analyte/nanowire surface distance. We demonstrate how the BioFET-SIM web interface can aid in the understanding of experimental data and postulate alternative ways of antibody/antigen orientation on the nanowire surface.
Martin made a really nice screencast of the interface.
BioFET-SIM Web Interface: Implementation and Two Applications Martin R. Hediger, Jan H. Jensen, Luca De Vico. arXiv biofetsim.org
The paper was submitted April 27 and deposited on arXiv the same day.
Abstract
We present a web interface for the BioFET-SIM program. The web interface allows to conveniently setup calculations based on the BioFET-SIM multiple charges model. As an illustration, two case studies are presented. In the first case, a generic peptide with opposite charges on both ends is inverted in orien- tation on a semiconducting nanowire surface leading to a corresponding change in sign of the computed sensitivity of the device. In the second case, the binding of an antibody/antigen complex on the nanowire surface is studied in terms of orientation and analyte/nanowire surface distance. We demonstrate how the BioFET-SIM web interface can aid in the understanding of experimental data and postulate alternative ways of antibody/antigen orientation on the nanowire surface.
Martin made a really nice screencast of the interface.
Wednesday, August 10, 2011
New Paper: BioFET simulation with a multiple charges model
Predicting and rationalizing the effect of surface charge distribution and orientation on nano-wire based FET bio-sensor
De Vico L., Iversen L., Sørensen M. H., Brandbyge M., Nygård J., Martinez K. L., Jensen J. H.
Nanoscale, DOI: 10.1039/C1NR10316D
Abstract: A single charge screening model of surface charge sensors in liquids (De Vico et al., Nanoscale, 2011, 3, 706-717) is extended to multiple charges to model the effect of the charge distributions of analyte proteins on FET sensor response. With this model we show that counter-intuitive signal changes (e.g. a positive signal change due to a net positive protein binding to a p-type conductor) can occur for certain combinations of charge distributions and Debye lengths. The new method is applied to interpret published experimental data on Streptavidin (Ishikawa et al. ACS Nano 2009, 3, 3969-3976) and Nucleocapsid protein (Ishikawa et al. ACS Nano 2009, 3, 1219-1224)
We analyze how appropriate combinations of buffer conditions and charge distributions and orientation may lead to a counter-intuitive signal in BioFETs.
De Vico L., Iversen L., Sørensen M. H., Brandbyge M., Nygård J., Martinez K. L., Jensen J. H.
Nanoscale, DOI: 10.1039/C1NR10316D
Abstract: A single charge screening model of surface charge sensors in liquids (De Vico et al., Nanoscale, 2011, 3, 706-717) is extended to multiple charges to model the effect of the charge distributions of analyte proteins on FET sensor response. With this model we show that counter-intuitive signal changes (e.g. a positive signal change due to a net positive protein binding to a p-type conductor) can occur for certain combinations of charge distributions and Debye lengths. The new method is applied to interpret published experimental data on Streptavidin (Ishikawa et al. ACS Nano 2009, 3, 3969-3976) and Nucleocapsid protein (Ishikawa et al. ACS Nano 2009, 3, 1219-1224)
We analyze how appropriate combinations of buffer conditions and charge distributions and orientation may lead to a counter-intuitive signal in BioFETs.
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