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Luciano Martelotto

@lgmartelotto.bsky.social

Sc/St-Omics pro-aficionado. Knowledge sharing is my thing. Views, opinions and comments are my own and do not represent those of my employer. Like/Share ≠ endorse Favorite quote: “Be curious, not judgmental”

60 Posts1793 Follower1480 Folgt
Jovana Maksimovic@jovmaksimovic.bsky.social · 2w ago

This one's for the #scRNAseq lovers (or haters) everywhere @ozsinglecell.bsky.social @abacbs.bsky.social! The order of QC really matters, and most of us have been doing it wrong!!! 😱 Wonderful work by our PhD student @michellemeier.bsky.social in the @aliciao.bsky.social lab!

Michelle Meier@michellemeier.bsky.social · 2w ago

Equally happy and terrified to share my first preprint of my PhD! Turns out the order of your scRNA-seq QC pipeline matters more than we thought: removing ambient RNA before doublet detection can reduce doublet detection performance!

Caleb Lareau@caleblareau.bsky.social · 7mo ago

It's cool to see we aren't the only ones that think rationally designed probes + gapfilling is the future. Check out a corroborating workflow from @mgrillo.bsky.social, @lgmartelotto.bsky.social, Anna Nam, and colleagues: bsky.app/profile/mgri... 7/n

Marco Grillo@mgrillo.bsky.social · 7mo ago

Capturing somatic mutations in single-cell probe-based assays (ie. 10X Flex) is a hard task, especially if you don't know *exactly* the mutations you want to capture, or if your target sequence is a mutational hotspot with many possible alternative alleles. Here's the way we pulled this off. Enjoy!

Mats Nilsson's Lab@nilssonlab.org · 7mo ago

New work from our @mgrillo.bsky.social with @lgmartelotto.bsky.social and others. Capture somatic mutations in single-cell assays via RNA-targeted gap filling. Check it out!

Marco Grillo@mgrillo.bsky.social · 7mo ago

Capturing somatic mutations in single-cell probe-based assays (ie. 10X Flex) is a hard task, especially if you don't know *exactly* the mutations you want to capture, or if your target sequence is a mutational hotspot with many possible alternative alleles. Here's the way we pulled this off. Enjoy!

Marco Grillo@mgrillo.bsky.social · 7mo ago

Capturing somatic mutations in single-cell probe-based assays (ie. 10X Flex) is a hard task, especially if you don't know *exactly* the mutations you want to capture, or if your target sequence is a mutational hotspot with many possible alternative alleles. Here's the way we pulled this off. Enjoy!

Luciano Martelotto@lgmartelotto.bsky.social · 7mo ago

We GoT a Filling…uuuuhoooo 𝗧𝗮𝗿𝗴𝗲𝘁𝗲𝗱 𝘀𝗲𝗾𝘂𝗲𝗻𝗰𝗶𝗻𝗴 𝗼𝗳 𝗺𝘂𝘁𝗮𝘁𝗶𝗼𝗻𝘀 𝘃𝗶𝗮 𝗥𝗡𝗔-𝘁𝗲𝗺𝗽𝗹𝗮𝘁𝗲𝗱 𝗴𝗮𝗽 𝗳𝗶𝗹𝗹𝗶𝗻𝗴 𝗼𝗳 𝗼𝗹𝗶𝗴𝗼𝗻𝘂𝗰𝗹𝗲𝗼𝘁𝗶𝗱𝗲𝘀 𝗳𝗼𝗿 𝘀𝗶𝗻𝗴𝗹𝗲-𝗰𝗲𝗹𝗹 𝗥𝗡𝗔-𝘀𝗲𝗾 www.biorxiv.org/content/10.6...

Luciano Martelotto@lgmartelotto.bsky.social · 7mo ago

We GoT a Filling…uuuuhoooo 𝗧𝗮𝗿𝗴𝗲𝘁𝗲𝗱 𝘀𝗲𝗾𝘂𝗲𝗻𝗰𝗶𝗻𝗴 𝗼𝗳 𝗺𝘂𝘁𝗮𝘁𝗶𝗼𝗻𝘀 𝘃𝗶𝗮 𝗥𝗡𝗔-𝘁𝗲𝗺𝗽𝗹𝗮𝘁𝗲𝗱 𝗴𝗮𝗽 𝗳𝗶𝗹𝗹𝗶𝗻𝗴 𝗼𝗳 𝗼𝗹𝗶𝗴𝗼𝗻𝘂𝗰𝗹𝗲𝗼𝘁𝗶𝗱𝗲𝘀 𝗳𝗼𝗿 𝘀𝗶𝗻𝗴𝗹𝗲-𝗰𝗲𝗹𝗹 𝗥𝗡𝗔-𝘀𝗲𝗾 www.biorxiv.org/content/10.6...

biorxiv.org

Jasmine Plummer@jasmineplummer.bsky.social · 11mo ago

Goliath effort to help with standards in spatial trancriptomics-can only be more amazing when done with @lgmartelotto.bsky.social @christophermason.bsky.social 🚀 Paper: nature.com/articles/s4158… Touchstone portal: spatialtouchstone.org Spatial touchstone protocols: protocols.io/view/spatial-t���

nature.com

St. Jude Children's Research Hospital@stjuderesearch.bsky.social · 11mo ago

A collaborative project led by St. Jude has established a comprehensive framework for standardizing spatial transcriptomics. The Spatial Touchstone project integrates publicly available imaging data with newly curated datasets across six tissue types. ow.ly/Ghrg50XBkr6

Nature Biotechnology@natbiotech.nature.com · 11mo ago

Standardized metrics for assessment and reproducibility of imaging-based spatial transcriptomics datasets - @jasmineplummer.bsky.social @lgmartelotto.bsky.social go.nature.com/4rBC1Z0

Standardized metrics for assessment and reproducibility of imaging-based spatial transcriptomics datasets - Nature Biotechnology

A multi-institute, multi-platform initiative generates standard metrics and best practices for spatial transcriptomics analysis.

go.nature.com

Nature Reviews Genetics@natrevgenet.nature.com · last yr.

New online! Imaging-based multimodal profiling of single cells with STAMP

Imaging-based multimodal profiling of single cells with STAMP

Nature Reviews Genetics, Published online: 21 August 2025; doi:10.1038/s41576-025-00891-6In this Tools of the Trade article, Kellie Wise and Anna Pascual-Reguant introduce STAMP (single-cell transcriptomics analysis and multimodal profiling), which harnesses imaging to measure RNA and/or protein expression in fixed cells or nuclei.

nature.com