School of Engineering Department of Chemical and Biological Engineering 72 Developing Genetically Encoded Molecular Tools for Controlled Intracellular Phase Separation Supervisor: SUN Fei / CBE Student: LIU Ganye / BIEN Course: UROP 1000, Summer The ability to manipulate the conformation of protein complexes is crucial for determining their functionality. However, current tools face challenges in accurately interpreting and constructing of these biological complexes. This study combines the advantages of DNA origami and the DNA-protein covalent-linking approach (D-clip) to develop a novel bottom-up protein fabrication method. The DNA structures are designed using origami tools and assembled via one-pot self-assembly, followed by purification and examination and the D-clip was constructed by incorporating a highly efficient DNA-binding protein, UdgX, and the SpyTag/SpyCatcher protein-coupling system. This would hopefully be potential in fabricating large protein complex. Deep Learning Enables Multi-spectral Imaging for Histological Style Transformation Supervisor: WONG Tsz Wai / CBE Student: ZHANG King Shing / BIEN Course: UROP 1000, Summer Deep learning has emerged as a powerful tool in the field of microscopic image translation, enabling significant advancements in visualizing, analyzing, and interpreting histological images. This project leverages a unified deep learning framework to enhance multi-spectral imaging for histological style transformation, which is crucial for cancer detection and tissue classification. By integrating supervised and unsupervised learning approaches, the framework addresses the challenges of data misalignment and achieves superior image translation performance across various applications, including virtual histological staining and signal-to-noise ratio improvement. The outcomes of this research contribute to more accurate diagnoses and improved patient outcomes, underscoring the potential of deep learning to set new standards in medical imaging and histopathology. Interdisciplinary Bioengineering: Microfluidic Device for Cell Manipulation/Culture and Molecular Biology Supervisor: WU Angela Ruohao / CBE Student: SULLIVAN Charlton Antony / BCB Course: UROP 1100, Fall The heterogeneous nature of the human cortical organoid enables the analysis of expression patterns from different genes allowing the characterization and identification of different cell types within the organoid as a result. Due to lack of vasculature within the organoid, some samples are engineered to express ETV2 forming endothelial tissues. The report focuses on the difference in expression patterns between H9EC and H9 day 30 organoid by using RT-qPCR. Single cell analysis of d30 H9 organoid is later carried out to identify specific cell types that are present within the organoid using 10x genomics and bioinformatic tools: R and SEURAT.
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