Spatial Omics @SpatialOmics
Tweets about spatial biology including genomics, transcriptomics, proteomics, or other -omics in general. Some tweets about single-cell DNA or RNA sequencing. Joined June 2020-
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Spatial Omics retweeted
Congrats to @ZhuBokai and the wonderful team! Ever feeling frustrated with annotating cells from a spatial-omics dataset with a small targeted panel? CellSNAP helps by leveraging info from cell location and tissue image via a parallel GNN architecture. biorxiv.org/content/10.110…
Congrats to @ZhuBokai and the wonderful team! Ever feeling frustrated with annotating cells from a spatial-omics dataset with a small targeted panel? CellSNAP helps by leveraging info from cell location and tissue image via a parallel GNN architecture. biorxiv.org/content/10.110…
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Spatial Omics retweeted
Excited to share our AI research on brain tumor classification from H&E images, now published in @NatureMedicine! 🎉 Honored to be a co-first author with @danhtai_hoang. This work was co-led by @NCIEytanRuppin and @NCIKenAldape. Check out our tweetorial: #AI #DigitalPathology
Excited to share our AI research on brain tumor classification from H&E images, now published in @NatureMedicine! 🎉 Honored to be a co-first author with @danhtai_hoang. This work was co-led by @NCIEytanRuppin and @NCIKenAldape. Check out our tweetorial: #AI #DigitalPathology
Spatial Omics retweeted
#BGI-Research's cutting-edge liver studies have been selected as the cover story for @NatureGenet . These two studies integrate scRNA-seq and Stereo-seq data to characterize molecular signatures and interactions of liver cell types across different states including homeostasis,…
Spatial Omics retweeted
Spatial Transition Tensor or STT, developed by Qing Nie and colleagues @UCI_CMCF is a method that connects messenger RNA splicing and cell state transitions across spatiotemporal dimensions. nature.com/articles/s4159…
Spatial Omics retweeted
STT: Spatial transition tensor of single cells nature.com/articles/s4159…
Spatial Omics retweeted
We've begun rolling out anatomical annotations to the Allen Brain Cell Atlas! The first data set to support these annotations is the MERFISH Spatial Transcriptomics Dataset of a Single Adult Mouse Brain - registered to CCFv3. 🔗 knowledge.brain-map.org/abcatlas#AQEBW…
Spatial Omics retweeted
Pleased to share our new Research highlights article, which summarizes some of the core features and applications of the BANKSY spatial omics algo. Viewable via: rdcu.be/dH1mz ! Thanks @NigelChouS @NatureRevGenet @shyam_lab @khchenlab @astar_gis!
Spatial Omics retweeted
🌏 The Asia Pacific Spatial Omics Technology Conference is happening next week in #Taipei. Don’t miss out on key presentations from @vizgen_inc! Visit us at Booth #4 to learn more & win fun prizes! Register- hubs.ly/Q02wTDZD0 #SpatialOmics #MERSCOPEUltra #Vizgen
Spatial Omics retweeted
Wanna annotate cells in your spatial-omics data but tired of just calling them by their general phenotypes? Hey we got the solution for you! See awesome thread by the hotshot @ZhuBokai, and working with maestros @ZongmingMa and @GarryPNolan
Wanna annotate cells in your spatial-omics data but tired of just calling them by their general phenotypes? Hey we got the solution for you! See awesome thread by the hotshot @ZhuBokai, and working with maestros @ZongmingMa and @GarryPNolan
Spatial Omics retweeted
Spatial transition tensor of single cells nature.com/articles/s4159… #journals #feedly
Spatial Omics retweeted
The multimodality cell segmentation challenge: toward universal solutions nature.com/articles/s4159…
Spatial Omics retweeted
SpiDe-Sr Spatial proteomic images denoising & super-resolution #SpatialProteomics ⏫peak signal-to-noise ratio & cell extraction accuracy in #ImagingMassCytometry "In denoising module training, a pair of sub-sampled images (g1(y), g2(y)) were generated from noise image y with…
Spatial Omics retweeted
Is cell segmentation a solved problem? Maybe not yet, but the results of this multimodality cell segmentation challenge get us closer! (Spoiler, the winner is a generalist Transformer-based model). @BoWang87 nature.com/articles/s4159…
Spatial Omics retweeted
Thrilled to announce our paper in @Nature introducing MUSIC! For the first time, MUSIC enables simultaneous mapping of multiplexed chromatin interactions, RNA-chromatin interactions, RNA-RNA interactions & gene transcription at single-cell resolution. doi.org/10.1038/s41586…
Spatial Omics retweeted
I'm behind @broadinstitute's benchmarking efforts led by Sami and team. While our preliminary work took a different approach and strategy, we ended up demonstrating the same findings. Stay tuned. More on this soon. biorxiv.org/content/10.110… biorxiv.org/content/10.110…
Spatial Omics retweeted
DART-FISH #SpatialTranscriptomics Pad-lock probe Rolony RiboSoma for cell segmentation Detect <1kb short RNA (able to probe pri-microRNAs?😁) Very nice reading if interested in how to design/optimize imaging-based ST methods👍 121 genes for human Cortex 300 genes for human…
Spatial Omics retweeted
STCellbin Use Nuclei+Cell Membrane/Wall stains to improve #CellSegmentation & single-cell-resolved #SpatialTranscriptomics Tailored for #StereoSeq, but likely implementable for other ST methods Susanne Brix & Xun Xu labs @GigaByteJournal 2024 gigabytejournal.com/articles/110
Spatial Omics retweeted
Starfysh ️ for spatial transcriptomic+histology analysis and multi-sample integration nature.com/articles/s4158…
Spatial Omics retweeted
Spatial transcriptomics reveal neuron–astrocyte synergy in long-term memory nature.com/articles/s4158… #journals #feedly
Spatial Omics retweeted
🤩🤩🤩 Spatial Omics fans, I am super excited to share our latest manuscript!!! 🤩🤩🤩 #spatialomics #spatialbiology #singlecell Spatially Exploring RNA Biology in Archival Formalin-Fixed Paraffin-Embedded Tissues biorxiv.org/content/10.110…
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