A5077950247- Single-cell and spatial transcriptomics
- Microfluidic and Capillary Electrophoresis Applications
- Cancer Cells and Metastasis
- Cancer Genomics and Diagnostics
- Microfluidic and Bio-sensing Technologies
- Biosensors and Analytical Detection
- Innovative Microfluidic and Catalytic Techniques Innovation
- Advanced biosensing and bioanalysis techniques
- Electrowetting and Microfluidic Technologies
- T-cell and B-cell Immunology
- Advanced Biosensing Techniques and Applications
- RNA modifications and cancer
- RNA Research and Splicing
- 3D Printing in Biomedical Research
- MicroRNA in disease regulation
- Glioma Diagnosis and Treatment
- RNA and protein synthesis mechanisms
- Seismology and Earthquake Studies
- Immunotherapy and Immune Responses
- Cell Adhesion Molecules Research
- earthquake and tectonic studies
- Neuroinflammation and Neurodegeneration Mechanisms
- SARS-CoV-2 and COVID-19 Research
- Gene expression and cancer classification
- Cancer Research and Treatments
Istituto Universitario di Studi Superiori di Pavia
2024
Fluidigm (United States)
2014-2022
Stanford University
2018
Nanyang Technological University
2006-2017
UNSW Sydney
2017
National Cancer Centre Singapore
2008
Abstract Single-cell transcriptomic profiling is a powerful tool to explore cellular heterogeneity. However, most of these methods focus on the 3′-end polyadenylated transcripts and provide only partial view transcriptome. We introduce C1 CAGE, method for detection transcript 5′-ends with an original sample multiplexing strategy in TM microfluidic system. first quantifiy performance CAGE find it as accurate sensitive other then use profile promoter enhancer activities response TGF-β lung...
Air bubble formation during polymerase chain reaction (PCR) thermocycling in microreactors has been reported as one of the major causes for PCR failure. In this paper we investigate locations, mechanisms and other characteristics micro inside a microreactor array chip made by polydimethylsiloxane (PDMS) bonded with glass. The is found to be strongly related features bonding interface, especially near inner corners microreactors, which are dependent on micro-fabrication methods used. Gas...
We collated publicly available single-cell expression profiles of circulating tumor cells (CTCs) and showed that CTCs across cancers lie on a near-perfect continuum epithelial to mesenchymal (EMT) transition. Integrative analysis CTC transcriptomes also highlighted the inverse gene pattern between PD-L1 MHC, which is implicated in cancer immunotherapy. used tandem with peripheral blood mononuclear cell (PBMC) train classifier accurately recognizes diverse phenotype. Further, we this validate...
The study of single cells has evolved over the past several years to include expression and genomic analysis an increasing number cells. Several studies have demonstrated wide spread variation heterogeneity within cell populations similar phenotype. While characterization these will likely set foundation for our understanding genomic- expression-based diversity, it not be able link functional differences a its underlying structure activity. Currently, is difficult perturb in controlled...
Systematic delineation of complex biological systems is an ever-challenging and resource-intensive process. Single-cell transcriptomics allows us to study cell-to-cell variability in tissues at unprecedented resolution. Accurate modeling gene expression plays a critical role the statistical determination tissue-specific patterns. In past few years, considerable efforts have been made identify appropriate parametric models for single-cell data. The zero-inflated version Poisson/negative...
Assays detecting blood transcriptome changes are studied for infectious disease diagnosis. Blood-based RNA alternative splicing (AS) events, which have not been well characterized in pathogen infection, potential normalization and assay platform stability advantages over gene expression Here, we present a computational framework developing AS diagnostic biomarkers. Leveraging large prospective cohort of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection whole-blood...
The identification and characterization of circulating tumor cells (CTCs) are important for gaining insights into the biology metastatic cancers, monitoring disease progression, medical management disease. limiting factor in enrichment purified CTC populations is their sparse availability, heterogeneity, altered phenotypes relative to primary tumor. Intensive research both at technical molecular fronts led development assays that ease detection from peripheral blood. Most methods based on...
Bovine serum albumin (BSA) is widely used as an additive in polymerase chain reaction (PCR)-based microfluidic devices to passivate reactors and alleviate nucleic-acid amplification. BSA available commercially two types: either acetylated or non-acetylated. A survey of literature indicates that both types are PCR-based devices. Our study results reveal the use PCR micro-devices leads differential inhibition PCR, compared non-acetylated BSA. This result noticed for first time, generally goes...
Abstract Cell–cell communication and physical interactions play a vital role in cancer initiation, homeostasis, progression, immune response. Here, we report system that combines live capture of different cell types, co-incubation, time-lapse imaging, gene expression profiling doublets using microfluidic integrated fluidic circuit enables measurement distances between cells the associated transcriptional profiles due to cell–cell interactions. We track temporal variations natural...
Abstract Background Label-free methods for isolating circulating tumor cells (CTCs) are attractive because they provide an opportunity to analyze a larger set of CTCs that may otherwise be missed due variable or no expression protein (label) markers. Understanding genetic and functional heterogeneity in allows us gain insight into the mechanisms underscoring metastasis, drug resistance, aggressiveness. Currently, simple workflow isolation molecular characterization single by mRNA sequencing...
Predicting coastal tsunami impact requires the computation of inundation metrics such as maximum height or momentum flux at all locations interest. The high computational cost modelling, in both long term hazard assessment and urgent computing, comes from two major factors: (1) number simulations needed to capture source uncertainty (2) need solve nonlinear shallow water equations on high-resolution grids. We seek mitigate second these factors using machine learning. offshore wave is far...