@samuel_marsh

Scientific Editor @CellCellPress | Formerly @Stevens1lab | Interested in Alzheimer’s disease, all things single cell | Dad 👧👶🏻 | #scicomm | NEU ‘10 & UCI ’16

 Boston, MA
samuel-marsh.science/
Joined February 2013
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Thrilled to announce my 1st paper from @stevens1lab is now published @NatureNeuro. “Dissection of Artifactual and Confounding Glial Signatures by scRNA-seq of Mouse and Human Brain”. Why is it important? a 🧵👇 #singlecell #microglia #methodsmatter 1/n nature.com/articles/s41593-0…

Dissection of artifactual and confounding glial signatures by single-cell sequencing of mouse and...

Nature Neuroscience - Marsh et al. demonstrate that enzymatic dissociation induces an aberrant ex vivo gene expression signature, most prominently in microglia, which when not addressed can...

nature.com
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Amanda Urke@amanda_urkeMar 2
1/8 We learned what kinds of neurons are in the brain with Drop-seq, and where they are located with Slide-seq/tags. But what about their synaptic anatomy?
bioRxiv Neuroscience@biorxiv_neursciFeb 27
Protein-guided RNA barcoding links transcriptomes to synaptic architecture biorxiv.org/content/10.64898… #biorxiv_neursci

Protein-guided RNA barcoding links transcriptomes to synaptic architecture

Mammalian brain function relies on the precise synaptic architecture of diverse cell types, yet scalable methods for linking a neuron’s transcriptomic profile to its neuroanatomy remain limited. We...

biorxiv.org
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Amanda Urke@amanda_urkeMar 2
2/8 Introducing Synapse-seq: our AAV-based tool for mapping brainwide presynaptic projections or postsynaptic distributions of molecularly-defined neurons, via protein-guided RNA barcoding & single-cell/spatial readouts: doi.org/10.64898/2026.02.26.…
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Samantha Morris@morris_lab24 Feb 2025
🚨 We're hiring! 🚨 The Morris Lab @BrighamWomens & @harvardmed is looking for a Research Technician to join our team! 🔬 Focus: Lineage reprogramming & genomic tech development 🧫 Skills: Molecular biology, cell culture, mouse work 📍 Boston, MA tinyurl.com/ydbjrecz
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Dr. Jean Fan@JEFworks6 Jan 2025
Our #bionformatics #Rstats method CRAWDAD (Cell-type Relationship Analysis Workflow Done Across Distances) for quantifying cell-type spatial relationships in #singlecell #spatialomics data is now published! nature.com/articles/s41467-0… Congrats to the team 🥳🥂 #AcademicTwitter
Rafael@rdsantospeixoto5 Jan 2025
Have you ever wondered what cell types are colocalized or separated? If these relationships change across scales? Or if we could use them to compare samples? Check out CRAWDAD, our package for analyzing cell-type spatial relationships across length scales! nature.com/articles/s41467-0…
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🚨 scCustomize v3.0.0 is released! 🚨 Lots of changes (see thread for highlights and changelog for full details). Thanks as always to everyone who has submitted bug reports or suggestions and thanks to everyone using the package!! Enjoy!😀💻🧬📈 cran.r-project.org/web/packa… 1/n

scCustomize: Custom Visualizations & Functions for Streamlined Analyses of Single Cell Sequencing

Collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using 'R'. 'scCustomize' aims to provide 1) Customized visualizations for aid in ease of...

cran.r-project.org
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As always there are a ton of bug fixes in this update here too. Thank you to everyone who has report issues on GitHub! There’s more in this update too besides these highlights so check out changelog for full details!! 19/n
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Finally, as always, I want to thank everyone who uses scCustomize. I could never have imagined it would be adopted & used by some many people & it’s really fantastic every time I read paper or see plot that was made using scCustomize. Happy single cell analysis!!! 💻📈🧬 20/20
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