Skip to main content
Premium Trial:

Request an Annual Quote

IP Update: Recent Patents Related to PCR, Sample Prep, and Nucleic Acid Amplification: Mar 18, 2010

Premium

US Patent No. 7,678,892. Dye-labeled ribonucleotide triphosphates.

Inventors: Peter Fisher, Paolo Vatta, Shaheer Khan

Assignee: Applied Biosystems (Life Technologies)

The invention provides novel dye-labeled ribonucleotide analogs and methods for synthesizing those analogs. The compounds of the invention are especially useful for DNA sequencing by PCR.


US Patent No. 7,680,603. Systems and methods for determining real-time PCR cycle thresholds using a rotation transformation.

Inventor: Ronald Kurnick

Assignee: Roche Molecular Systems

Describes systems and methods for determining the elbow or cycle threshold (Ct) value in a real-time, or kinetic, PCR amplification curve data set. The PCR data set may be visualized in a two-dimensional plot of fluorescence intensity versus cycle number. A rotation transform is applied to the data set to rotate the data about a defined coordinate such as the origin so that the data point representing the Ct value becomes a minimum or a maximum along the intensity axis. The data point representing the elbow or Ct value of the PCR curve is identified, and this data point is then rotated back and the cycle number of the data point is returned or displayed.


US Patent No. 7,680,604. PCR elbow determination by rotational transform after zero slope alignment.

Inventor: Ronald Kurnick

Assignee: Roche Molecular Systems

Describes systems and methods for determining the elbow or Ct value in a real-time, or kinetic, PCR amplification curve data set. A PCR data set may be visualized in a two-dimensional plot of fluorescence intensity versus cycle number. The data set may be adjusted to have a zero slope. In one aspect, a data set is fit to a double sigmoid curve function, the parameters of which are determined using a Levenberg-Marquardt regression process. The determined parameters are used to subtract off the linear growth portion from the data set to provide a modified data set. For multiple data sets, all the data curves can be aligned in this manner to have a common baseline slope, e.g., a slope of zero. A rotation transform is applied to a modified data set to rotate the data about a defined coordinate such as the origin so that the data point representing the Ct value becomes a minimum or a maximum along the intensity axis. The data point representing the elbow or Ct value of the curve is identified, and this data point is then rotated back and the cycle number of the data point is returned or displayed.


US Patent No. 7,680,868. PCR elbow determination by use of a double sigmoid function curve fit with the Levenburg-Marquardt algorithm and normalization.

Inventors: Ronald Kurnick, Laurent Francioli, and Rolf Knobel

Assignee: Roche Molecular Systems

Describes systems and methods for determining characteristic transition values such as elbow values in sigmoid or growth-type curves, such as the Ct value in PCR amplification curves. A double sigmoid function with parameters determined by a Levenberg-Marquardt regression process is used to find an approximation to a curve that fits a PCR dataset. Once the parameters have been determined, the curve can be normalized using one or more of the determined parameters. Normalization is advantageous for determining the Ct value if one chooses the arbitrary fluorescence level approach to calculating Ct values for amplification curves. After normalization, the normalized curve is processed by applying a root-finding algorithm to determine the root of the function representing the normalized curve [and] which root corresponds to the Ct value. The Ct value is then returned and may be displayed or otherwise used for further processing.

The Scan

Billions for Antivirals

The US is putting $3.2 billion toward a program to develop antivirals to treat COVID-19 in its early stages, the Wall Street Journal reports.

NFT of the Web

Tim Berners-Lee, who developed the World Wide Web, is auctioning its original source code as a non-fungible token, Reuters reports.

23andMe on the Nasdaq

23andMe's shares rose more than 20 percent following its merger with a special purpose acquisition company, as GenomeWeb has reported.

Science Papers Present GWAS of Brain Structure, System for Controlled Gene Transfer

In Science this week: genome-wide association study ties variants to white matter stricture in the brain, and more.