A New Standard-Based Polynomial Interpolation (SBPIn) method to address gel-to-gel variability for the comparison of multiple denaturing gradient gel electrophoresis profile matrices

Alexis Valentín-Vargas; Jon Chorover; Raina M. Maier

doi:10.1016/j.mimet.2012.12.001

A New Standard-Based Polynomial Interpolation (SBPIn) method to address gel-to-gel variability for the comparison of multiple denaturing gradient gel electrophoresis profile matrices

Alexis Valentín-Vargas
, Jon Chorover
, Raina M. Maier

Research output: Contribution to journal › Article › peer-review

5 Scopus citations

Abstract

The Standard-Based Polynomial Interpolation (SBPIn) method is a new simple three-step protocol proposed to address common gel-to-gel variations for the comparison of sample profiles across multiple DGGE gels. The advantages of this method include no requirement for additional software or modification of the standard DGGE protocol.

Original language	English (US)
Pages (from-to)	173-177
Number of pages	5
Journal	Journal of Microbiological Methods
Volume	92
Issue number	2
DOIs	https://doi.org/10.1016/j.mimet.2012.12.001
State	Published - Feb 5 2013

Keywords

Community fingerprint
DGGE
Gel-to-gel variations
Microbial ecology
Molecular standard

ASJC Scopus subject areas

Microbiology
Molecular Biology
Microbiology (medical)

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10.1016/j.mimet.2012.12.001

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A New Standard-Based Polynomial Interpolation (SBPIn) method to address gel-to-gel variability for the comparison of multiple denaturing gradient gel electrophoresis profile matrices. / Valentín-Vargas, Alexis; Chorover, Jon; Maier, Raina M.
In: Journal of Microbiological Methods, Vol. 92, No. 2, 05.02.2013, p. 173-177.

Research output: Contribution to journal › Article › peer-review

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abstract = "The Standard-Based Polynomial Interpolation (SBPIn) method is a new simple three-step protocol proposed to address common gel-to-gel variations for the comparison of sample profiles across multiple DGGE gels. The advantages of this method include no requirement for additional software or modification of the standard DGGE protocol.",

keywords = "Community fingerprint, DGGE, Gel-to-gel variations, Microbial ecology, Molecular standard",

author = "Alexis Valent{\'i}n-Vargas and Jon Chorover and Maier, \{Raina M.\}",

note = "Funding Information: This research was supported by grants from: NIEHS SRP Grant 2 P42 ES04940 and R01 ES17079 . Additional financial support for AVV was provided by the American Society for Microbiology Robert D. Watkins fellowship program and the Alfred P. Sloan Foundation . We would like to thank Dr. Robert A. Root for providing the greenhouse samples and Lucia Rodriguez-Freire for her help in running and analyzing the DGGE gels. Thanks to Marian Ortiz and Julia W. Neilson for their valuable comments and suggestions to improve this manuscript.",

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N1 - Funding Information: This research was supported by grants from: NIEHS SRP Grant 2 P42 ES04940 and R01 ES17079 . Additional financial support for AVV was provided by the American Society for Microbiology Robert D. Watkins fellowship program and the Alfred P. Sloan Foundation . We would like to thank Dr. Robert A. Root for providing the greenhouse samples and Lucia Rodriguez-Freire for her help in running and analyzing the DGGE gels. Thanks to Marian Ortiz and Julia W. Neilson for their valuable comments and suggestions to improve this manuscript.

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KW - Community fingerprint

KW - DGGE

KW - Gel-to-gel variations

KW - Microbial ecology

KW - Molecular standard

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A New Standard-Based Polynomial Interpolation (SBPIn) method to address gel-to-gel variability for the comparison of multiple denaturing gradient gel electrophoresis profile matrices

Abstract

Keywords

ASJC Scopus subject areas

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