#smfish — Public Fediverse posts
Live and recent posts from across the Fediverse tagged #smfish, aggregated by home.social.
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🎯🐠 I've been away for a while. But here:
I wrote a blog post on "Imaging mRNA modifications in situ"Featuring: m6AISH-PLA, ARPLA (on #glycoRNA) & DART-FISH.
#smFISH #m6A #RNA #mRNA #RNAmodifications #microscopy #imaging #singlemolecule
https://greenfluorescentblog.wordpress.com/2023/10/31/imaging-mrna-modifications-in-situ/
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Wow! 💥 🔥 🔥 🔥
This is so cool!
In this paper,
"Spatially resolved single-cell translatomics at molecular resolution", they used a tri-probe FISH system combined with in situ amplification and in situ sequencing to detect multiplex translating mRNAs at sub-cellular resolution in cell culture (981 genes) and mouse brain tissue slices (5413 genes!). -
Wow!
looks like super awesome method from Long Cai lab"High-resolution spatial multi-omics reveals cell-type specific nuclear compartments"
They did mRNA #seqFISH+ (1200 genes, 17K introns), DNA seqFISH+ (100K loci) and #immunofluorescence (up to 65 antibodies) all in the same experiment!
200+ rounds of #imaging! That's incredible.#mRNA #mRNALocalization #smFISH #DNA #3D_genome
#transcription #microscopy -
"HT-smFISH: a cost-effective and flexible workflow for high-throughput single-molecule RNA imaging"
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I tried the original protocol a few years ago and didn't work well. inconsistent labeling (some good, some poor) and wasn't *that* cheap.
but maybe time to re-visit this protocol with this improved version:"Improved enzymatic labeling of fluorescent in situ hybridization probes applied to the visualization of retained introns in cells"
@biorxivpreprint -
CW: Trying RS-FISH plugin for FISH spot detection
RS-FISH is a new #FIJI plugin for single-molecule FISH analysis
https://www.nature.com/articles/s41592-022-01669-y
I spent an hour playing with it. Installation was very easy & instructions of use are clear. I got nice spot detection on a not-so-nice FISH image.
I need to learn more about this tool, particularly using with masks & batch processing - but seems very nice & easy to use.
@preibischs @successprocess
#mRNA #fluorescence #smFISH #SingleMolecule #microscopy #imaging -
"RS-FISH: precise, interactive, fast, and scalable FISH spot detection"
New, user-friendly, FISH spot detection software; runs as a #Fiji plugin.
From Stephen Preibisch lab with @successprocess and Kyle Harrington
Out in @naturemethods
#mRNA #fluorescence #smFISH #SingleMolecule #microscopy #imaging