Unlocking the 🌎 of Single-Cell & Spatial Omics 🔬One cell at a time! 🔄 Building a community | Cátia Moutinho, PhD
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Joined October 2022
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The Single Cell World retweeted
Discover the future of 3D-omics! Our perspective aritcle explores how tissue clearing and AI with single-cell omics could revolutionize understanding of entire organs & organisms. Read the full article: nature.com/articles/s41592-0…
What if we could map every cell in the body, revealing its location and molecular identity? In this @NatureMethods perspective, we discuss the new era of 3D-omics by tissue clearing and AI, called Deep 3D Histology: rdcu.be/dNBe8 PDF: bit.ly/3WaD0QU 🧵👇🏼
The Single Cell World retweeted
1/ 23 tools to work with (single-cell) TCR/BCR-seq immune repertoire data🧵
The Single Cell World retweeted
Today we’re pleased to release the Pixelgen Single Cell Spatial Proteomics Kit, Immunology Panel 2, Human v2 (product number PXGIMM002) or MPX v2.
pixelgen.com
#MolecularPixelation #MPXv2ishere #MPXv2 #Singlecell #Spatialproteomics #PixelgenTechnologies #spatialbiology
The Single Cell World retweeted
A systematic overview of single-cell transcriptomics databases, their use cases, and limitations
frontiersin.org/journals/bio…
The Single Cell World retweeted
Open-ST: High-resolution spatial transcriptomics in 3D👏👏👏 cell.com/cell/fulltext/S0092…
The Single Cell World retweeted
Systematic comparison of sequencing-based spatial transcriptomic methods in @naturemethods
In summary:
“- Stereo-seq, Slide-tag, Visium shows the better capture efficiency with raw sequencing depth
- Slide-seq V2, Visium (probe), DynaSpatial gives the better capture efficiency with normalized sequencing depth.”
nature.com/articles/s41592-0…
The Single Cell World retweeted
Single-nucleus and spatial transcriptomic profiling of human temporal cortex and white matter reveals novel associations with AD pathology biorxiv.org/content/10.1101/…
The Single Cell World retweeted
New review from @coletrapnell summarizing major statistical inference methods applied to single-cell, spatial, perturbation data to study gene function in healthy and disease states @NatureRevGenet nature.com/articles/s41576-0…
The Single Cell World retweeted
So excited to announce our new method for multiplexed RNA imaging in bacterial cells: bacterial-MERFISH! A huge congratulations to the team of @AriSarfatis, Yuanyou Wang, and Nana Twumasi-Ankrah! Check out the following thread or our bioRxiv (biorxiv.org/content/10.1101/…) 1/12
The Single Cell World retweeted
🎯📢multiomics2024.org coming in hot!!! 📢🎯Get your registrations in!!! @JoeYeong @sitcancer
Speakers multiomics2024.org/speakers-…
Program: multiomics2024.org/program 🔬🧪
The Single Cell World retweeted
CellTag-multi is finally out in @NatureBiotech nature.com/articles/s41587-0…. We didn't make the cover this time, but I love what we put together with @DrawImpacts! Here's our fun vision of CellTag cell barcoding and capture across single-cell RNA-seq and ATAC-seq @kjkjindal
The June issue is live nature.com/nbt/volumes/42/is…
On our cover, Roohani et al. present GEARS, a computational method that integrates deep learning with a knowledge graph of gene–gene relationships to simulate the effects of genetic perturbations go.nature.com/3E37kEo
The Single Cell World retweeted
Systematic comparison of sequencing-based spatial transcriptomic methods | Nature Methods nature.com/articles/s41592-0…
The Single Cell World retweeted
Technology impacts the reliability of your #singlecell data. An independently conducted study reported that our Chromium Flex and 3' assays outperformed other technologies. See how the others stacked up: biorxiv.org/content/10.1101/…
The Single Cell World retweeted
Interested in 3' UTR changes in scRNA-seq? Check out our:
* CPA-Perturb-seq paper
* UCSC Perturb-seq tracks (see who regulates your favorite 3’ UTR!)
* Seurat extension for polyA site analysis (PASTA)
* Deep neural perturbation network (APARENT-Perturb)
cell.com/cell/fulltext/S0092…
The Single Cell World retweeted
Now shipping: Xenium Prime 5K pan tissue & pathways assays! eXplore your biology like never before with #singlecellspatial analysis of 5,000 genes featuring exceptional performance & industry-leading throughout. Request a quote here: bit.ly/3XssJC1
The Single Cell World retweeted
Terrific Nature paper that will greatly improve the analysis of spatial transcriptomic data!
Working on this as an editorial advisor was a blast, and more publications are coming!
I'm sure @KSusztak @HumphreysLab will like it, as well as @10xGenomics
nature.com/articles/s41586-0…
The Single Cell World retweeted
New publication from our Lab @ScienceAdvances 🚨
Honoured to have played a substantial role in it! 😃
🧵1/5
Integration mapping of cardiac fibroblast single-cell transcriptomes elucidates cellular principles of fibrosis in diverse pathologies science.org/doi/10.1126/scia…
The Single Cell World retweeted
Bin2cell reconstructs cells from high resolution Visium HD data🫶 biorxiv.org/content/10.1101/…
