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Open Access Highly Accessed Methodology article

A kinetic-based sigmoidal model for the polymerase chain reaction and its application to high-capacity absolute quantitative real-time PCR

Robert G Rutledge* and Don Stewart

Author Affiliations

Natural Resources Canada, Canadian Forest Service, 1055 du P.E.P.S., Quebec, Quebec G1V 4C7, Canada

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BMC Biotechnology 2008, 8:47  doi:10.1186/1472-6750-8-47

Published: 8 May 2008

Additional files

Additional file 1:

Derivation of the two sigmoidal functions describing PCR amplification. A Microsoft Word summary of the rearrangements and substitutions used for conversion of the classic Boltzmann four parameter sigmoid function into a form in which PCR amplification can be modeled, based upon amplification dynamics as described by ΔE and Emax (equation 3).

Format: DOC Size: 136KB Download file

This file can be viewed with: Microsoft Word Viewer

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Additional file 2:

LRE data processing templates. The Excel templates used for manual data processing required for optical calibration and cDNA quantification.

Format: XLS Size: 557KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 3:

LRE data summary. An Excel summary of the LRE analysis, including all of the calculations used to derive the number of molecules for eleven cDNA targets amplified using five enzyme formulations.

Format: XLS Size: 143KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 4:

Prototype Java program for conducting automated LRE analysis. Java program that automates LRE quantification; requires the latest Java(TM) SE Runtime Environment available for installation at java.com.

Format: JAR Size: 133KB Download file

Open Data

Additional file 5:

Representative amplification profiles for each of the eleven cDNA targets. Representative FC datasets for the eleven cDNA targets for each of the five assay formulations.

Format: XLS Size: 126KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 6:

Comparison of the Java-LRE quantification with LinReg and Miner. Excel datasheet summaries, which include all of the calculations used in the analysis for each of the three automated data processing packages.

Format: XLS Size: 229KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data

Additional file 7:

Optical calibration amplification profiles. Excel datasheet summaries of the lambda gDNA amplification profiles used for optical calibration of the five assay formulations.

Format: XLS Size: 92KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data