Hsuan-Hsuan Lu’s Post

We are going to publish a series of our App Notes covering Syncell's Microscoop technology and various applications showcasing our unique capability in subcellular spatial proteomic discovery. This is the first one briefing Microscoop methodology. #proteomics #spatialbiology #microscopy #omics

📢Our latest application note has just been released! Discover the power of precision with Microscoop™ – the forefront of image-guided proteomics! 🎯 Our platform is redefining protein isolation by zeroing in on specific regions within cells and tissue samples. No guesswork here – just robust, hypothesis-free protein identification powered by microscopic analysis. 🔬 With Microscoop™, experience the power of precise photo-biotinylation utilizing ultrafast femtosecond pulses for two-photon illumination, pinpointing targets at the scale of individual organelles. This technology opens doors to a detailed exploration of subcellular protein dynamics and relationships, providing critical insights into the intricate subcellular structures that drive biological discovery. Learn more about the broad application of Microscoop in our new #AppNote - https://lnkd.in/gtz6_q6B #Microscoop #Proteomics #ProteinDiscovery #LaserNanoPulldown #ScoopBiology

Our new manuscript "Microscopy-guided subcellular proteomic discovery by high-speed ultra-content photo-biotinylation" is now accessible on bioRxiv! Microscopy-guided proteomics at an organelle-dimension resolution is desired for revealing unknown protein constituents at specific disease- or functional-associated regions at the molecular-molecular interactions level. Our innovative optoproteomics technology allows for precise spatial purification and identification of proteins within user-defined regions, automating the exploration of thousands of fields of view. Witness how our novel methodology has already identified stress granule-specific and amyloid β-localized proteins, confirmed through immunostaining. Check out the manuscript here:  https://lnkd.in/gMuKBWM9 #proteomics #spatialbiology #Syncell #Microscoop

💡 Thank you Jay Nakamura Clark 🧠 from 🌟 Stellaromics Inc. 🌟 for connecting with me! It was so nice to learn about your company and your #SpatialBiology platform #STARmap (spatially-resolved transcript amplicon readout mapping). STARmap is #transcriptomic, but in 3D tissue blocks about 40-50 micron thickness. This integrates (1) hydrogel-tissue chemistry, (2) targeted signal amplification, and (3) in situ sequencing. So in essence, instead of z-stacking our images with thin slices, we can get a block of transcriptomic info in one run. The hydrogel also offers better stability for the sample. I'm sure 💙 Pathomics.ai would be very interested 🤔 in analyzing this data 📊 . You can read more about STARmap and 3-D intact-tissue sequencing in their Science paper. https://lnkd.in/gn7a-RtR

This interesting study provides insights into recent advancements in high-throughput microscopy for studying subcellular protein dynamics following perturbation. Reicher et al. introduce a new framework combining high-throughput microscopy, computer vision, and machine learning to detect changes in multicolour-tagged visual proteomics cell (vpCell) pools. By using genome-wide and cancer-focused sgRNA libraries, they created vpCell pools and an array of clones with unique fluorescent protein tags, enabling the simultaneous live-cell monitoring of numerous proteins. By analyzing localization patterns and expression levels of tagged proteins, they demonstrated the vpCell approach's capability to simultaneously track multiple proteins within a pathway. This method holds significant potential for mechanistic studies and drug discovery. Paper link: https://lnkd.in/dv_jfkTr #TiwariLab #WeeklyJournalClub #JournalClub #SDU

The article discusses the various spatial omics technologies that have emerged in recent years, which aim to measure the physical structure and molecular characteristics of tissues simultaneously. It covers the key principles, advantages, and limitations of different approaches, including cyclic immunofluorescence, in situ sequencing, and spatial barcoding of bulk sequencing reads. The main challenges highlighted include the technical barriers of single-molecule microscopy, image co-registration, and sample heterogeneity. The article also touches on the data analysis aspects, noting the similarities to single-cell sequencing pipelines but the added complexity of spatial information. #healthcare #medicine #precisionmedicine #spatialomics

❓ Question: What is Molecular Pixelation (MPX)? 💡 Answer: MPX is an optics-free, DNA sequence-based method for #spatial #proteomics of single cells using antibody-oligonucleotide conjugates (AOCs) and DNA-based, nanometer-sized molecular pixels. We want to highlight this relatively new #SpatialBiology platform from Pixelgen Technologies. MPX enables the co-localization of protein on the cell surface, can examine and designate polarity scores, or even allow for spatial analysis of chemotaxis. You can get more information from their latest #NatureMethods paper: https://lnkd.in/depdihwJ. The basis of this technology relies on #RollingCircleAmplification which we promise to highlight in the upcoming posts. So many Spatial Biology platforms rely on this simple replication method. Simon Fredriksson, William Love, Steve G., Trang Vu, PhD, Alex M., Trevor McKee

MALDI Imaging is a powerful mass spectrometry tool for mapping the distribution of molecules from a thin sample, ranging from small metabolites to large proteins, without molecular tags or labels. A single MALDI Imaging measurement produces up to several thousands of distribution maps, or ion images, to reveal greater insight and understanding of molecular makeup and regional heterogeneity. For more than 25 years, Bruker has been the leader in MALDI mass spectrometry innovation. MALDI is amenable for any analytical task and this is exemplified in the scientific literature where MALDI Imaging publications dominate 5:1 over the next ionization technology. Bruker delivers MALDI Imaging systems that incorporate novel MALDI technologies to accomplish any targeted or untargeted imaging study. This paper from Prof. Ron Heeren is a good example of what you can achieve with MSI using our timsTOF Flex. #bruker #massspectromery #imaging #msi #maldi #tissueimaging #spatialomics

Introduction to Amira Software for cell biology - On Demand Webinar During this 20-minutes webinar, you will learn how to: ▪ Accelerate subcellular (membrane, organelle) detection and segmentation from Electron Microscopy (TEM) data using a range of readily available tools, including 3D Deep Learning model training. ▪ Analyze multichannel fluorescence endothelial cell culture data by performing fast and effective cleaning, segmentation, volume colocalization and neighbor cell proximity. ▪ Extract complex information in 3D such as detection, segmentation and penetration of cancer or immune cells to manage multichannel High Content Screening multi-well images of organoid models. ▪ Quickly convert, visualize and accurately process large (~100GB) multi-channel and time series light sheet tissue imaging data. Watch webinar → https://lnkd.in/gCv3KZhD

Enhancing mass spectrometry imaging accessibility using convolutional autoencoders for deriving hypoxia-associated peptides from tumors - npj Systems Biology and Applications https://buff.ly/4dW5A0A