Wide-area-sample based reader design for diagnostic detection of bio-particles

1. A process for detecting fluorescence measurements via a reader comprising:

i. locating a vertical flow cartridge, comprising a cavity loaded with a bioparticle sample, within a slide-in slot of a reader to locate the bioparticle sample directly below a wide-area photodetector of the reader, the reader comprising:

ii. a light-tight enclosure;

iii. the slide-in slot arranged within the light-tight enclosure and configured to receive the vertical flow cartridge defining the cavity loaded with the bioparticle sample and defining a cavity size;

iv. the wide-area photodetector:

(1) arranged within the light-tight enclosure above the slide-in slot;

(2) defining a detector area exceeding the cavity size; and

(3) configured to receive a fluorescent signal emitted from the bioparticle sample;

v. an array of excitation LEDs arranged adjacent the wide-area photodetector and configured to apply a uniform excitation intensity throughout the cavity to illuminate the cavity;

vi. an optical emission filter:

(1) arranged between the wide-area photodetector and the cavity; and

(2) configured to attenuate wavelengths outside of an emission wavelength range; o

vii. a low-noise amplifier coupled to the wide-area photodetector and configured to amplify a signal output by the wide-area photodetector; and

viii. an analog integrator coupled to the low-noise amplifier and configured to reduce noise in the signal;

a. exciting the bioparticle sample with an excitation wavelength using via the array of excitation LEDs;

b. collecting a series of fluorescence signal sample measurements for the bioparticle sample;

c. collecting a series of temperature readings of the detector wide-area photodetector while collecting the series of fluorescent signal sample measurements;

d. deriving a bioparticle fluorescence measurement based on an average of the series of fluorescence signal sample measurements;

e. calculating a corrected bioparticle fluorescence measurement based on the bioparticle fluorescence measurement and the series of temperature readings;

f. accessing a background fluorescence measurement corresponding to detected fluorescence of a read buffer loaded in the slide-in slot absent the bioparticle sample;

g. calculating a difference between the corrected bioparticle fluorescence measurement and the background fluorescence measurement; and

h. estimating a bioparticle count for the bioparticle sample based on the difference and a calibration curve linking outputs of the wide-area photodetector to bioparticle counts of samples loaded in the slide-in slot.

2. The process of claim 1 , further comprising filtering and accepting results if the series of fluorescence signal sample measurements fall within a 5% tolerance window.

3. The process of claim 1 :

wherein locating the vertical flow cartridge within the slide-in slot of the reader comprises locating the vertical flow cartridge within the slide-in slot of the reader comprising a lens positioned to collect all of the signal from a sample loaded in the slide-in slot and feed all of the signal to the wide-area photodetector; and

wherein collecting the series of fluorescence signal sample measurements for the bioparticle sample comprises collecting all of the signal from the bioparticle sample and feeding all of the signal to the wide-area photodetector via the lens.

4. The process of claim 1 , wherein locating the vertical flow cartridge within the slide-in slot of the reader comprises locating the vertical flow cartridge within the slide-in slot of the reader comprising a controller configured to regulate an excitation wavelength of one or more LED of the array of excitation LEDs.

5. The process of claim 1 , wherein the reader further comprises a temperature sensor configured to collect temperature measurements of the wide-area photodetector.

6. The process of claim 5 , wherein locating the vertical flow cartridge within the slide-in slot of the locating the vertical flow cartridge within the slide-in slot of the reader comprising a processor and a computer readable medium comprising a non-transitory memory encoded with instructions to be executed by the processor configured to extract a set of signal samples from a series of collected signal samples and calculate the bioparticle count based on the set of signal samples and temperature drift based on temperature measurements of the wide-area photodetector.

7. The process of claim 1 , wherein locating the vertical flow cartridge within the slide-in slot of the reader comprises locating the vertical flow cartridge within the slide-in slot of the reader comprising an analog to digital converter that converts an analog output of the analog integrator into digital domain.

8. The process of claim 7 , wherein locating the vertical flow cartridge within the slide-in slot of the reader comprises locating the vertical flow cartridge within the slide-in slot of the reader comprising a post processor that collects a series of signal samples from the analog to digital converter over a time duration.

9. The process of claim 1 , wherein accessing the background fluorescence measurement corresponding to detected fluorescence of a read buffer loaded in the slide-in slot absent the bioparticle sample comprises:

locating the vertical flow cartridge, comprising the cavity loaded with the read buffer absent the bioparticle sample, within the slide-in slot directly below the wide-area photodetector;

exciting the read buffer with the excitation wavelength via the array of excitation LEDs;

collecting a second series of fluorescence signal sample measurements for the read buffer;

collecting a second series of temperature readings of the wide-area photodetector while collecting the second series of fluorescent signal sample measurements; and

calculating the background fluorescence measurement based on an average of the second series of fluorescence signal sample measurements and the second series of temperature readings.

10. A method for deriving fluorescence of a bioparticle sample comprising:

loading a read buffer into a cavity of a vertical flow cartridge to generate a bioparticle sample comprising target bioparticles, dispersed throughout the read buffer;

inserting the vertical flow cartridge within a slide-in slot of a reader to locate the bioparticle sample below a wide-area photodetector, arranged within the reader, configured to detect fluorescence of the bioparticle sample and defining a detector area exceeding the cavity size;

triggering activation of an array of excitation LEDS arranged adjacent the wide-area photodetector, within the reader, and configured to apply a uniform excitation intensity throughout the cavity at an excitation wavelength to excite the bioparticle sample;

during a detection period:

accessing a series of fluorescence measurements for the bioparticle sample collected by the wide-area photodetector; and

recording a series of temperature measurements for the wide-area photodetector recorded by a temperature sensor installed within the reader;

deriving a bioparticle fluorescent measurement based on the series of fluorescence measurements and the series of temperature measurements;

accessing a background fluorescence measurement corresponding to detected fluorescence of a volume of the read buffer, absent target bioparticles, loaded in the slide-in slot of the reader;

deriving a difference between the bioparticle fluorescent measurement and the background fluorescence measurement;

accessing a calibration curve linking fluorescence of bioparticle samples to presence of the target bioparticle in bioparticle samples loaded in the reader; and

estimating a bioparticle count, corresponding to presence of the target bioparticle in the bioparticle sample, based on the difference and the calibration curve.

11. The method of claim 10 :

wherein accessing the calibration curve linking fluorescence of bioparticle samples to presence of the target bioparticle in bioparticle samples loaded in the reader comprises accessing the calibration curve linking fluorescence of bioparticle samples to concentration of the target bioparticle in bioparticle samples loaded in the reader; and

wherein estimating the bioparticle count, corresponding to presence of the target bioparticle in the bioparticle sample, based on the difference and the calibration curve comprises estimating a concentration of the target-bioparticle in the bioparticle sample based on the difference and the calibration curve.