A5063547462- Gene Regulatory Network Analysis
- CRISPR and Genetic Engineering
- Single-cell and spatial transcriptomics
- Photoreceptor and optogenetics research
- Molecular Communication and Nanonetworks
- Receptor Mechanisms and Signaling
- Cell Image Analysis Techniques
- Photosynthetic Processes and Mechanisms
- RNA and protein synthesis mechanisms
- CAR-T cell therapy research
- Cancer Genomics and Diagnostics
- DNA Repair Mechanisms
- Light effects on plants
- bioluminescence and chemiluminescence research
- Biomedical and Engineering Education
- Insect Resistance and Genetics
- Tuberculosis Research and Epidemiology
- biodegradable polymer synthesis and properties
- Advanced biosensing and bioanalysis techniques
- Lung Cancer Research Studies
- Viral Infections and Immunology Research
- Microbial Metabolic Engineering and Bioproduction
- Lung Cancer Treatments and Mutations
- Genetic factors in colorectal cancer
- Photochromic and Fluorescence Chemistry
University of California, San Francisco
2024
University of Pennsylvania
2021-2024
Princeton University
2017-2021
Long Island University
2015
Abstract A growing number of optogenetic tools have been developed to reversibly control binding between two engineered protein domains. In contrast, relatively few confer light-switchable a generic target interest. Such capability would offer substantial advantages, enabling photoswitchable endogenous proteins in cells or light-based purification vitro. Here, we report the development opto-nanobodies (OptoNBs), versatile class chimeric whose interest can be enhanced inhibited upon blue...
Significance Cancers associated with the human papillomavirus, including oropharyngeal, anal canal, cervical, and vulvar carcinomas, constitute about 4.5% of all solid tumors. In many cases, they can be readily cured radiotherapy, which is mainstay treatment. HPV-associated cancers are more radiosensitive than HPV-negative cancers, but mechanism this radiosensitivity unknown. Across oncology, HPV association one only validated molecular biomarker radiosensitivity. Here, we demonstrate that...
Light-activated protein domains provide a convenient, modular, and genetically encodable sensor for optogenetics optobiology. Although these have now been deployed in numerous systems, the precise mechanism of photoactivation accompanying structural dynamics that modulate output domain activity remain to be fully elucidated. In C-terminal light–oxygen–voltage (LOV) plant phototropins (LOV2), blue light activation leads formation an adduct between conserved Cys residue embedded FMN...
Abstract Cellular responses to environmental stimuli are typically thought be governed by genetically encoded programs. We demonstrate that melanoma cells can form and maintain cellular memories during the acquisition of therapy resistance exhibit characteristics learning dependent on transcription factor AP-1. show exposed a low dose adapt become resistant high dose, demonstrating was not purely selective. The application itself results in encoding transient gene expression into memory this...
Double strand break (DSB) repair primarily occurs through 3 pathways: non-homologous end-joining (NHEJ), alternative (Alt-EJ), and homologous recombination (HR). Typical methods to measure pathway usage include integrated cassette reporter assays or visualization of DNA damage induced nuclear foci. It is now well understood that Cas9-induced breaks also involves NHEJ, Alt-EJ, HR pathways, providing a new format usage. Here, we have developed simple Cas9-based system with validated outcomes...
The function of the lung is closely coupled to its structural anatomy, which varies greatly across vertebrates. Although architecturally simple, a complex pattern airflow thought be achieved in lizard due cavernous central lumen and honeycomb-shaped wall. We find that wall generated from an initially smooth epithelial sheet, pushed through holes hexagonal muscle meshwork by forces fluid pressure, similar stress ball. Combining transcriptomics with time-lapse imaging reveals self-assembles...
Despite recent advances in mammalian synthetic biology, there remains a lack of modular receptors that can robustly respond to soluble ligands and turn activate cellular functions. Such would have extensive clinical potential regulate the activity engineered therapeutic cells, but date only against cell surface targets approached translation. To address this gap, we developed receptor based on SynNotch, called intramembrane proteolysis (SNIPRs), added ability be activated by ligands, both...
Many cell- and tissue-level functions are coordinated by intracellular signaling pathways that trigger the expression of context-specific target genes. Yet input-output relationships link to genes they activate incompletely understood. Mapping pathway-decoding logic natural could also provide a basis for engineering novel signal-decoding circuits. Here we report construction synthetic immediate-early (SynIEGs), Erk implement complex, user-defined regulation can be monitored using live-cell...
PHB-U-IC has been prepared for the first time by cocrystallization method. The structure and conformation of poly(3-hydroxybutyrate) (PHB) chains encapsulated in urea (U) channels formed PHB-U inclusion complex (PHB-U-IC) were studied DSC, FTIR, solid-state NMR spectroscopy. XRD pattern FTIR spectroscopy demonstrated that takes a different crystal than well-reported hexagonal trigonal structures polymer compounds. an expanded tetragonal structure. PHB confined environment characterized shown...
Abstract Cells employ intracellular signaling pathways to sense and respond changes in their external environment. In recent years, live-cell biosensors have revealed complex pulsatile dynamics many pathways, but studies of these are limited by the necessity imaging at high spatiotemporal resolution 1 . Here, we describe an approach infer from just a single measurement fixed cells using pulse-detecting gene circuit. We computationally screened for circuit with pulse detecting capability,...
Abstract For tissues to grow and function properly, cells must coordinate actions such as proliferation, differentiation apoptosis. This coordination is achieved in part by the activation of intracellular signaling pathways that trigger expression context-specific target genes. While these natural circuits has been actively studied, synthetic biology provides additional powerful tools for deconstructing, repurposing, designing novel signal-decoding circuits. Here we report construction...
Abstract Light-activated protein domains provide a convenient, modular, and genetically encodable sensor for optogenetics optobiology. Although these have now been deployed in numerous systems, the precise mechanism of photoactivation accompanying structural dynamics that modulate output domain activity remain to be fully elucidated. In C-terminal light, oxygen, voltage (LOV) plant phototropins (LOV2), blue light activation leads formation an adduct between conserved Cys residue embedded FMN...
Double strand break (DSB) repair mainly occurs through 3 pathways: non-homologous end-joining (NHEJ), alternative (Alt-EJ), and homologous recombination (HR). We present an assay system that enables simultaneous measurement of all three pathways using Cas9-generated DSBs next generation sequencing to profile quantify pathway choice. The has provided several insights. First, absence the key Alt-EJ factor Pol q only abrogates ~50% total Alt-EJ. Second, single-strand templated (SSTR) requires...