My work focuses on developing imaging and computational tools to process and analyze complex biological images. This allows cellular interactions to be directly observed, shedding new light on how bacteria behave at the single-cell level.

I am also a lecturer at the Department of Molecular, Cellular, and Developmental Biology, teaching courses and workshops on quantitative image analysis.

I am looking for new opportunities and collaborations to expand on my work.

  • Biological imaging and analysis
  • Optical engineering and design
  • Photoacoustics and ultrasound imaging
  • Wavefront shaping for deep-tissue imaging



Recent publications

  • A semi-automated workflow for brain Slice Histology Alignment, Registration, and Cell Quantification (SHARCQ)

    eNeuro • 2022

    Tools for refined cell-specific targeting have significantly contributed to understanding the characteristics and dynamics of distinct cellular populations by brain region. While advanced cell-labeling methods have accelerated the field of neuroscience, specifically in brain mapping, there remains a need to quantify and analyze the data. Here, by modifying a toolkit that localizes electrodes to...

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  • Lifecycle of a cyanobacterial carboxysome

    Science Advances • 2020

    Carboxysomes, prototypical bacterial microcompartments (BMCs) found in cyanobacteria, are large (~1 GDa) and essential protein complexes that enhance CO2 fixation. While carboxysome biogenesis has been elucidated, the activity dynamics, lifetime, and degradation of these structures have not been investigated, owing to the inability of tracking individual BMCs over time in vivo. We have developed a...

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  • Single cell analysis reveals multiple requirements for zinc in the mammalian cell cycle

    eLife • 2020

    Zinc is widely recognized as essential for growth and proliferation, yet the mechanisms of how zinc deficiency arrests these processes remain enigmatic. Here we induce subtle zinc perturbations and track asynchronously cycling cells throughout division using fluorescent reporters, high throughput microscopy, and quantitative analysis. Zinc deficiency induces quiescence and resupply stimulates...

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Currently teaching

  • Quantitative Optical Imaging

    MCDB/BCHM 4312/5312
    Fall 2019 - Present

    Explores the fundamentals of optical imaging in biology, especially molecular and cellular biology. Covered topics include an introduction to optics and microscopes, fluorescence microscopy and image analysis, and biological applications. MATLAB will be taught at the beginning of the course and used throughout for image processing. Prior experience with MATLAB (or Python) is highly recommended but not required.

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Current projects

  • Software tools and algorithms for biological imaging

    Optical imaging enables biological systems to be studied at the single-cell level. However, the resulting image datasets are large and difficult to analyze. I develop software to extract information from time-lapse microscope images.

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  • Single cell responses to environmental changes

    Bacterial cells live in a constantly changing environment, which requires them to react quickly if the environment becomes hostile. I use fluorescence microscopy and molecular biology to study how cellular processes are affected by local changes, and how these give rise to individual behavior that differs from the population as a whole.

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  • Interactions in multi-species microscopic communities

    In nature, bacteria exist in multi-species communities. I use microscopy to study how individual cells within a population interact with each other, as well as interactions between different species of microscopic organisms.

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