Digital PCR system development accelerator-A methodology to emulate dPCR results

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216305%3A26620%2F22%3APU147286" target="_blank" >RIV/00216305:26620/22:PU147286 - isvavai.cz</a>

Nalezeny alternativní kódy

RIV/00064165:_____/22:10448751 RIV/00216208:11110/22:10448751

Výsledek na webu

<a href="https://www.sciencedirect.com/science/article/pii/S0925400522001691?via%3Dihub" target="_blank" >https://www.sciencedirect.com/science/article/pii/S0925400522001691?via%3Dihub</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1016/j.snb.2022.131527" target="_blank" >10.1016/j.snb.2022.131527</a>

Jazyk výsledku

angličtina

Název v původním jazyce

Digital PCR system development accelerator-A methodology to emulate dPCR results

Popis výsledku v původním jazyce

The development of a digital polymerase chain reaction (dPCR) system typically begins with an idea for the system configuration and chip layout, followed by design, fabrication, and hardware testing. The image processing software can be developed and verified based on the test results. In this paper, we proposed a dPCR emulation methodology to train the developed image processing software before building the dPCR system hardware. We developed a script in a MATLAB environment to generate artificial dPCR images and emulate the dPCR results. First, we defined the number of parameters corresponding to the emulated results, such as the number of partitions with targets, background fluorescence distribution and intensity, image defects, image rotation angle, shift, non-uniform light distribution, and temperature sensitivity. We then implemented the defined parameters and generated an artificial dPCR chip image based on layout design or pattern recognition algorithm. Finally, we obtained a dataset from the artificial image for subsequent result analysis. The generated images could then be used to train the image processing algorithms based on the requirements. We verified the proposed method using various designs of dPCR chips from recently published papers, demonstrating the method's versatility. The proposed method also demonstrated the capability for separating the software and hardware development. Thus, our method allowed the image processing and hardware to be concurrently designed and tested simplifying and speeding up the dPCR system development.

Název v anglickém jazyce

Digital PCR system development accelerator-A methodology to emulate dPCR results

Popis výsledku anglicky

The development of a digital polymerase chain reaction (dPCR) system typically begins with an idea for the system configuration and chip layout, followed by design, fabrication, and hardware testing. The image processing software can be developed and verified based on the test results. In this paper, we proposed a dPCR emulation methodology to train the developed image processing software before building the dPCR system hardware. We developed a script in a MATLAB environment to generate artificial dPCR images and emulate the dPCR results. First, we defined the number of parameters corresponding to the emulated results, such as the number of partitions with targets, background fluorescence distribution and intensity, image defects, image rotation angle, shift, non-uniform light distribution, and temperature sensitivity. We then implemented the defined parameters and generated an artificial dPCR chip image based on layout design or pattern recognition algorithm. Finally, we obtained a dataset from the artificial image for subsequent result analysis. The generated images could then be used to train the image processing algorithms based on the requirements. We verified the proposed method using various designs of dPCR chips from recently published papers, demonstrating the method's versatility. The proposed method also demonstrated the capability for separating the software and hardware development. Thus, our method allowed the image processing and hardware to be concurrently designed and tested simplifying and speeding up the dPCR system development.

Druh

J_imp - Článek v periodiku v databázi Web of Science

CEP obor

—

OECD FORD obor

10405 - Electrochemistry (dry cells, batteries, fuel cells, corrosion metals, electrolysis)

Projekt

<a href="/cs/project/LTACH19005" target="_blank" >LTACH19005: Vysoce přesný systém digitální polymerázové řetězové reakce pro detekci cfDNA pro neinvazivní prenatální testování (NIPT</a><br>

Návaznosti

I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Rok uplatnění

2022

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název periodika

Sensors and Actuators B: Chemical

ISSN

0925-4005

e-ISSN

—

Svazek periodika

358

Číslo periodika v rámci svazku

131527

Stát vydavatele periodika

CH - Švýcarská konfederace

Počet stran výsledku

10

Strana od-do

„“-„“

Kód UT WoS článku

000860657000007

EID výsledku v databázi Scopus

2-s2.0-85124169022