Time-warped background signal for sequencing-by-synthesis operations
AssigneeLife Technologies Corporation
InventorEarl Hubbell
Life of this patent
Estimating the term…
Abstract
Methods for analyzing signal data generated by sequencing of a polynucleotide strand using a pH-based method of detecting nucleotide incorporation(s). In an embodiment, the method comprises formulating a function that models the output signal of a representative empty well of a reactor array. A time transformation is applied to the empty well function to obtain a time-warped empty well function. The time-warped empty well function is fitted to an output signal from the loaded well representative of a flow that results in a non-incorporation event in the loaded well. The fitted time-warped empty well function can then be used to analyze output signals from the loaded well for other flows.
Claims20
A method of sequencing a polynucleotide strand, comprising:
- flowing a series of nucleotide reagents onto a reactor array having multiple reaction confinement regions, wherein the polynucleotide strand is located in a loaded reaction confinement region of the reactor array;
- receiving signal data from the reactor array;
- determining a function that models an output signal of a representative empty reaction confinement region;
- determining a time-warped empty reaction confinement region function;
- and
- estimating a number of nucleotide incorporations using the time-warped empty reaction confinement region function.
A sequencing apparatus comprising:
- a machine-readable memory;
- and
- a processor configured to execute machine-readable instructions, said instructions which when executed cause the apparatus to:
- receive signal data relating to chemical reactions resulting from the flow of a series of nucleotide reagents onto a reactor array having multiple reaction confinement regions, wherein a polynucleotide strand is located in a loaded reaction confinement region of the reactor array;
- determine a function that models an output signal of a representative empty reaction confinement region, wherein the function is stored in a computer memory;
- determine a time-warped empty reaction confinement region function;
- estimate a number of nucleotide incorporations using the time-warped empty reaction confinement region function;
- and
- store the estimated number of nucleotide incorporations in the memory.
A non-transitory machine-readable storage medium comprising instructions which, when executed by a processor, cause the processor to:
- receive signal data relating to chemical reactions resulting from the flow of a series of nucleotide reagents onto a reactor array having multiple reaction confinement regions, wherein a polynucleotide strand is located in a loaded reaction confinement region of the reactor array;
- determine a function that models an output signal of a representative empty reaction confinement region, wherein the function is stored in a computer memory;
- determine a time-warped empty reaction confinement region function;
- estimate a number of nucleotide incorporations using the time-warped empty reaction confinement region function;
- and
- store the estimated number of nucleotide incorporations in the memory.
Dependencies are inferred from the claim text.