A5006631325- Cell Image Analysis Techniques
- 3D Printing in Biomedical Research
- Single-cell and spatial transcriptomics
- Advanced Fluorescence Microscopy Techniques
- Neuroscience and Neuropharmacology Research
- Photoreceptor and optogenetics research
- Bone Tissue Engineering Materials
- Advanced Biosensing Techniques and Applications
- MicroRNA in disease regulation
- Glioma Diagnosis and Treatment
- Retinal Development and Disorders
- Neural dynamics and brain function
- Cancer-related molecular mechanisms research
- Circular RNAs in diseases
- Geotechnical Engineering and Soil Stabilization
Massachusetts Institute of Technology
2018-2025
ABSTRACT Studying the function and dysfunction of complex biological systems necessitates comprehensive understanding individual cells. Advancements in three-dimensional (3D) tissue processing imaging modalities have enabled rapid visualization phenotyping cells their spatial context. However, system-wide interrogation within large intact remains challenging, low throughput, error-prone owing to lack robust labeling technologies. Here we introduce a rapid, versatile, scalable method, eFLASH,...
Understanding cellular architectures and their connectivity is essential for interrogating system function dysfunction. However, we lack technologies mapping the multiscale details of individual cells in human organ-scale system. We developed a platform that simultaneously extracts spatial, molecular, morphological, information from same brain. The includes three core elements: vibrating microtome ultraprecision slicing large-scale tissues without losing (MEGAtome), polymer hydrogel-based...
Brain organoids grown from human pluripotent stem cells self-organize into cytoarchitectures resembling the developing brain. These three-dimensional models offer an unprecedented opportunity to study brain development and dysfunction. Characterization currently sacrifices spatial information for single-cell or histological analysis leaving whole-tissue mostly unexplored. Here, we present SCOUT pipeline automated multiscale comparative of intact cerebral organoids. Our integrated technology...
eMAP preserves epitopes by purely physical tissue-hydrogel hybridization in swellable tissue-gel networks.
Abstract Here we describe an image processing pipeline for quantitative analysis of terabyte-scale volumetric images SHIELD-processed mouse brains imaged with light-sheet microscopy. The utilizes open-source packages destriping, stitching, and atlas alignment that are optimized parallel processing. destriping step removes stripe artifacts, corrects uneven illumination, offers over 100x speed improvements compared to previously reported algorithms. stitching module builds upon Terastitcher...
Abstract Understanding cellular architectures and their connectivity is essential for interrogating system function dysfunction. However, we lack technologies mapping the multi-scale details of individual cells in human organ-scale system. To address this challenge, developed a platform that simultaneously extracts spatial, molecular, morphological, information from same brain, by integrating novel chemical, mechanical, computational tools. The includes three key tools: (i) vibrating...
Abstract Circular RNAs (circRNAs) are a class of closed-loop, single stranded whose expression is particularly enriched in the brain. Despite this enrichment and evidence that circRNAs altered by synaptic development response to plasticity vitro , regulation function majority experience-dependent vivo remain unexplored. Here, we employed transcriptome-wide analysis comparing differential both mRNAs juvenile mouse primary visual cortex (V1) following monocular deprivation (MD), model...
Experience‐dependent plasticity refers to the brain’s ability sculpt and remodel its circuits in an experience‐dependent manner. In binocular visual cortex, where inputs from both eyes converge onto single neurons, relative responsiveness of a neuron input one eye can shift when that is deprived input. Ocular dominance (ODP) well‐established model for plasticity, it triggered by monocular deprivation (MD) suturing eyelid. This classically measured calculating ocular index (ODI), measure...