A5091919745- Photochromic and Fluorescence Chemistry
- Chemical Synthesis and Analysis
- Estrogen and related hormone effects
- Protein Degradation and Inhibitors
- Single-cell and spatial transcriptomics
- Advanced biosensing and bioanalysis techniques
- Immune cells in cancer
- Developmental Biology and Gene Regulation
- interferon and immune responses
- Advanced Biosensing Techniques and Applications
- Hedgehog Signaling Pathway Studies
- Epigenetics and DNA Methylation
- Genomics and Chromatin Dynamics
- RNA Research and Splicing
California Institute of Technology
2023-2024
Dana-Farber Cancer Institute
2024
The mammalian nucleus is compartmentalized by diverse subnuclear structures. These structures, marked nuclear bodies and histone modifications, are often cell-type specific affect gene regulation 3D genome organization
Image-based spatial transcriptomics methods enable transcriptome-scale gene expression measurements with information but require complex, manually tuned analysis pipelines. We present Polaris, an pipeline for image-based that combines deep-learning models cell segmentation and spot detection a probabilistic decoder to quantify single-cell accurately. Polaris offers unifying, turnkey solution analyzing data from multiplexed error-robust FISH (MERFISH), sequential fluorescence in situ...
Abstract Medulloblastoma is one of the most common malignant brain tumors children, and 30% medulloblastomas are driven by gain-of-function genetic lesions in Sonic Hedgehog (SHH) signaling pathway. EYA1, a haloacid dehalogenase phosphatase transcription factor, critical for tumorigenesis proliferation SHH medulloblastoma (SHH-MB). Benzarone benzbromarone have been identified as allosteric inhibitors EYA proteins. Using benzarone point departure, we developed panel 35 derivatives tested them...
Abstract Image-based spatial transcriptomics methods enable transcriptome-scale gene expression measurements with information but require complex, manually-tuned analysis pipelines. We present Polaris, an pipeline for image-based that combines deep learning models cell segmentation and spot detection a probabilistic decoder to quantify single-cell accurately. Polaris offers unifying, turnkey solution analyzing data from MERFSIH, seqFISH, or ISS experiments. is available through the DeepCell...
<div>Abstract<p>Medulloblastoma is one of the most common malignant brain tumors children, and 30% medulloblastomas are driven by gain-of-function genetic lesions in Sonic Hedgehog (SHH) signaling pathway. EYA1, a haloacid dehalogenase phosphatase transcription factor, critical for tumorigenesis proliferation SHH medulloblastoma (SHH-MB). Benzarone benzbromarone have been identified as allosteric inhibitors EYA proteins. Using benzarone point departure, we developed panel 35...
<p>Supplemental Methods and Figure Legends</p>
<p>Supplemental Figures 1-8</p>
<p>Supplemental Table 3</p>
<p>Supplemental Table 1</p>
<p>Supplemental Table 5</p>
<p>Supplemental Table 2</p>
<p>Supplemental Table 6</p>
<p>Supplemental Table 4</p>
<p>Supplemental Table 6</p>
<div>Abstract<p>Medulloblastoma is one of the most common malignant brain tumors children, and 30% medulloblastomas are driven by gain-of-function genetic lesions in Sonic Hedgehog (SHH) signaling pathway. EYA1, a haloacid dehalogenase phosphatase transcription factor, critical for tumorigenesis proliferation SHH medulloblastoma (SHH-MB). Benzarone benzbromarone have been identified as allosteric inhibitors EYA proteins. Using benzarone point departure, we developed panel 35...
<p>Supplemental Figures 1-8</p>
<p>Supplemental Methods and Figure Legends</p>
<p>Supplemental Table 5</p>
<p>Supplemental Table 2</p>
<p>Supplemental Table 1</p>
<p>Supplemental Table 4</p>
<p>Supplemental Table 3</p>
Image-based spatial transcriptomics methods enable transcriptome-scale gene expression measurements with information but require complex, manually-tuned analysis pipelines. We present Polaris, an pipeline for image-based that combines deep learning models cell segmentation and spot detection a probabilistic decoder to quantify single-cell accurately. Polaris offers unifying, turnkey solution analyzing data from MERFSIH, seqFISH, or ISS experiments. is available through the DeepCell software...