Encoding state change of nanopore to reduce data size
A system includes a circuit configured to detect a voltage corresponding to an electrical measurement of a nanopore. The system also includes a component configured to compare the voltage to another voltage. Based at least in part on the comparison, a one bit indicator is determined. The one bit indicator indicates whether the voltage indicates a change in a state of the nanopore. In the event it is determined that the voltage indicates the change in the state of the nanopore, a multiple bit signal is provided for output.
1. A system, comprising:
a circuit configured to measure a first voltage after a first time interval has elapsed, the first voltage corresponding to an electrical measurement of a nanopore, the circuit further configured to measure a second voltage after a second time interval, the second voltage corresponding to a second electrical measurement of the same nanopore, wherein the first time interval is equal in magnitude to the second time interval, wherein the first time interval spans a voltage range from a first preset voltage to the first voltage, wherein the second time interval spans a voltage range from a second preset voltage to the second voltage, wherein the first time interval and the second time interval do not overlap; and
a component configured to compare the first voltage to the second voltage;
wherein based at least in part on the comparison of the first and second voltages, a nanopore state change indicator is configured to determine whether a difference between the first voltage and the second voltage indicates a change in a state of the nanopore, and based at least in part on the determination of the nanopore state change indicator, it is periodically determined whether to provide as output a nanopore measurement value that can be used for a subsequent identification of a tag or molecule or save data bandwidth by not outputting the nanopore measurement value.
2. The system of claim 1 , wherein the change in the state of the nanopore indicates a nanopore event.
3. The system of claim 1 , wherein detecting the first voltage includes detecting a voltage of a capacitor electrically coupled to the nanopore.
4. The system of claim 1 , wherein the system is included in a biochip.
5. The system of claim 1 , wherein the second voltage is a previous voltage measurement corresponding to a previous electrical measurement of the nanopore.
6. The system of claim 1 , wherein the second voltage corresponds an open-channel state of the nanopore.
7. The system of claim 1 , wherein the first voltage is one of a sequence of voltages detected at a periodic interval.
8. The system of claim 1 , wherein the nanopore state change indicator is a one bit indicator.
9. The system of claim 1 , wherein the comparing the first voltage includes determining whether the difference is above a threshold value.
10. The system of claim 1 , wherein the comparing the first voltage includes determining whether the difference is within a specified value range.
11. The system of claim 1 , wherein the nanopore measurement value includes a value of the difference.
12. The system of claim 1 , wherein the change in the state of the nanopore is a change in the state of the nanopore from an open-channel state to a threaded state.
13. The system of claim 1 , wherein the change in the state of the nanopore is a change in the state of the nanopore from a first threaded state to a second threaded state or to an open-channel state.
14. The system of claim 1 , wherein determining the nanopore state change indicator includes determining whether the first voltage corresponds to a tag threaded state of the nanopore.
15. The system of claim 1 , wherein the nanopore state change indicator is concatenated with a plurality of other one bit indicators corresponding to a plurality of other nanopores.
16. The system of claim 1 , wherein in the event it is determined that the first voltage does not indicate the change in the state of the nanopore, it is determined to not output a value of the first voltage.
17. The system of claim 1 , wherein the first voltage has a magnitude that is smaller than a magnitude of the first preset voltage, wherein the second voltage has a magnitude that is smaller than a magnitude of the second preset voltage.
18. The system of claim 1 , wherein the circuit is configured to measure the first voltage and second voltage at a sampling rate that is based at least in part on a duration of time in which the nanopore is expected to remain in a state.
19. A method, comprising:
detecting a first voltage change corresponding to an electrical measurement of a nanopore;
comparing the first voltage change detected over a first interval of time to a second voltage change corresponding to a second electrical measurement of the same nanopore detected over a second interval of time,
wherein the first interval of time is equal in magnitude to the second interval of time, wherein the first interval of time spans a voltage range from a first preset voltage to a first voltage, wherein the second interval of time spans a voltage range from a second preset voltage to a second voltage, wherein the first interval of time and the second interval of time do not overlap;
determining, based at least in part on the comparison of the first and second voltage changes detected over different intervals of time, a change in state of the nanopore with a nanopore state change indicator; and
based at least in part on the determination of the nanopore state change indicator, periodically determining whether to provide as output a nanopore measurement value that can be used for a subsequent identification of a tag or molecule or save data bandwidth by not outputting the nanopore measurement value.