Enhanced fluorescent detection of nucleosomes using functionalized magnetic beads on a digital microfluidic device

Yaas Bigdeli; Shruti Preetam; Kristen C. Scott; Zhanwei Zhong; Tung-Che Liang; Zachary Tini; Krishnendu Chakrabarty; Richard B. Fair

doi:10.1117/12.2620556

2 March 2022 Enhanced fluorescent detection of nucleosomes using functionalized magnetic beads on a digital microfluidic device

Yaas Bigdeli, Shruti Preetam, Kristen C. Scott, Zhanwei Zhong, Tung-Che Liang, Zachary Tini, Krishnendu Chakrabarty, Richard B. Fair

Author Affiliations +

Proceedings Volume 11955, Microfluidics, BioMEMS, and Medical Microsystems XX; 1195506 (2022) https://doi.org/10.1117/12.2620556
Event: SPIE BiOS, 2022, San Francisco, California, United States

Abstract

Epigenetics, the study of inheritable mechanisms that regulate gene expression, has clinical ramifications from cancer to autoimmune disorders to psychiatric pathologies. The main tool to study epigenetics is chromatin immunoprecipitation (ChIP), which probes the relationship between DNA and its structural nucleosome-forming histone proteins. Standard benchtop ChIP has three major drawbacks: (1) it requires a large input volume of cells, (2) it is very time consuming and work intensive, and (3) it is low throughput. Digital microfluidic biochips (DMFB) have proven to be successful at utilizing small volumes of reagents and samples to perform high throughput bioanalyses and assays of macromolecules. Their ease of configurability, automation, and high sensitivity make them an ideal platform for ChIP adaptation. Previously, we demonstrated the first step towards ChIP implementation on a DMFB by detecting specifically modified nucleosomes, the building blocks of chromatin, in a semi-quantitative nucleosome immunoprecipitation (NuIP) assay. Herein, we modify the prior ‘sweep-through’ DMFB design to enhance the capture and detection of analyte-bound magnetic beads. With this modification, we can increase both the level of detection and granularity when probing a sample. Furthermore, this new ‘pull-through’ design presents a novel method for bead collection using an on-chip magnetic source.

Conference Presentation

Citation Download Citation

Yaas Bigdeli, Shruti Preetam, Kristen C. Scott, Zhanwei Zhong, Tung-Che Liang, Zachary Tini, Krishnendu Chakrabarty, and Richard B. Fair "Enhanced fluorescent detection of nucleosomes using functionalized magnetic beads on a digital microfluidic device", Proc. SPIE 11955, Microfluidics, BioMEMS, and Medical Microsystems XX, 1195506 (2 March 2022); https://doi.org/10.1117/12.2620556

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