Silpa Suthram
@ssuthram.bsky.social
Computational biologist/ex-Gilead/ex-BMS. Ex-Nautilus Biotech
All opinions are just my own #proteomics #single-cell #spatial #data-science #CRISPR
All opinions are just my own #proteomics #single-cell #spatial #data-science #CRISPR
Reposted by Silpa Suthram
From great collaborations come great things. Excited to share Segger, the solution to segmentation of spatial transcriptomics (ST) data, with the @steglelab.bsky.social and @moritzgerstung.bsky.social labs, spearheaded by the great Andrew Moorman and Elyas Heidari www.biorxiv.org/content/10.1...
Segger: Fast and accurate cell segmentation of imaging-based spatial transcriptomics data
The accurate assignment of transcripts to their cells of origin remains the Achilles heel of imaging-based spatial transcriptomics, despite being critical for nearly all downstream analyses. Current c...
www.biorxiv.org
March 20, 2025 at 11:40 AM
From great collaborations come great things. Excited to share Segger, the solution to segmentation of spatial transcriptomics (ST) data, with the @steglelab.bsky.social and @moritzgerstung.bsky.social labs, spearheaded by the great Andrew Moorman and Elyas Heidari www.biorxiv.org/content/10.1...
Reposted by Silpa Suthram
1/ New preprint! 🍳
@elihei.bsky.social and our team at @embl.org , @dkfz.bsky.social, and @mskcancercenter.bsky.social built #segger - a fast, accurate cell segmentation tool for spatial transcriptomics that assigns transcripts to their cell origins!
doi.org/10.1101/2025...
@elihei.bsky.social and our team at @embl.org , @dkfz.bsky.social, and @mskcancercenter.bsky.social built #segger - a fast, accurate cell segmentation tool for spatial transcriptomics that assigns transcripts to their cell origins!
doi.org/10.1101/2025...
March 18, 2025 at 2:48 PM
1/ New preprint! 🍳
@elihei.bsky.social and our team at @embl.org , @dkfz.bsky.social, and @mskcancercenter.bsky.social built #segger - a fast, accurate cell segmentation tool for spatial transcriptomics that assigns transcripts to their cell origins!
doi.org/10.1101/2025...
@elihei.bsky.social and our team at @embl.org , @dkfz.bsky.social, and @mskcancercenter.bsky.social built #segger - a fast, accurate cell segmentation tool for spatial transcriptomics that assigns transcripts to their cell origins!
doi.org/10.1101/2025...
Reposted by Silpa Suthram
Single-cell RNA sequencing of immune cells for over 1,000 people age 18-97 years. A clock of our immune system aging. Tells us about an individual's response to infection, vaccination, Long Covid. Towards an immunome.
www.nature.com/articles/s43...
www.nature.com/articles/s43...
March 5, 2025 at 2:53 PM
Single-cell RNA sequencing of immune cells for over 1,000 people age 18-97 years. A clock of our immune system aging. Tells us about an individual's response to infection, vaccination, Long Covid. Towards an immunome.
www.nature.com/articles/s43...
www.nature.com/articles/s43...
Reposted by Silpa Suthram
It is important at this pivotal moment to @standupforscience.bsky.social. Looking forward to sharing my thoughts on why this should be a national priority at tomorrow’s rally in SF:
March 5, 2025 at 4:54 PM
It is important at this pivotal moment to @standupforscience.bsky.social. Looking forward to sharing my thoughts on why this should be a national priority at tomorrow’s rally in SF:
Reposted by Silpa Suthram
Looking forward to celebrating 80 years of federally funded science, technology and innovation @standupforscience.bsky.social SF, March 7, Civic Center, 1-3 pm 🧪 🧫 🧬
March 3, 2025 at 6:55 PM
Looking forward to celebrating 80 years of federally funded science, technology and innovation @standupforscience.bsky.social SF, March 7, Civic Center, 1-3 pm 🧪 🧫 🧬
Reposted by Silpa Suthram
@thejohnnyyu.bsky.social, @therealnima.bsky.social, and I, are excited to tell you about Tahoe-100M! The largest publicly available single-cell dataset that measures the effect of 1200 genes on 50 cell line models. The Vevo team has outdone itself. #Tahoe100M www.biorxiv.org/content/10.1...
Tahoe-100M: A Giga-Scale Single-Cell Perturbation Atlas for Context-Dependent Gene Function and Cellular Modeling
Building predictive models of the cell requires systematically mapping how perturbations reshape each cell's state, function, and behavior. Here, we present Tahoe-100M, a giga-scale single-cell atlas ...
www.biorxiv.org
February 25, 2025 at 1:25 PM
@thejohnnyyu.bsky.social, @therealnima.bsky.social, and I, are excited to tell you about Tahoe-100M! The largest publicly available single-cell dataset that measures the effect of 1200 genes on 50 cell line models. The Vevo team has outdone itself. #Tahoe100M www.biorxiv.org/content/10.1...
Reposted by Silpa Suthram
Before we pull out the champagne to ring in the new year, we're celebrating 2024 on the #TranslatingProteomics podcast by highlighting 3 our favorite proteomics publications from the year!
www.nautilus.bio/blog/transla...
#Proteomics #Science #Research #Proteome #Biology #UnleashTheProteome
www.nautilus.bio/blog/transla...
#Proteomics #Science #Research #Proteome #Biology #UnleashTheProteome
Translating Proteomics 2024 Year-End Special: 3 Exciting Examples of Proteomics Research
Translating Proteomics hosts Parag Mallick and Andreas Huhmer discuss 3 exciting examples of proteomics research from 2024.
www.nautilus.bio
December 19, 2024 at 5:29 PM
Before we pull out the champagne to ring in the new year, we're celebrating 2024 on the #TranslatingProteomics podcast by highlighting 3 our favorite proteomics publications from the year!
www.nautilus.bio/blog/transla...
#Proteomics #Science #Research #Proteome #Biology #UnleashTheProteome
www.nautilus.bio/blog/transla...
#Proteomics #Science #Research #Proteome #Biology #UnleashTheProteome
Reposted by Silpa Suthram
I just wish this cartoon I drew 10+ years ago wasn't so relevant today...
December 14, 2024 at 8:11 PM
I just wish this cartoon I drew 10+ years ago wasn't so relevant today...
Reposted by Silpa Suthram
Here's a fun paper I wrote on how to make and use science comics. Why? Comic/cartoon art is a way of lowering the 'energy barrier' to communicating complex ideas. And comics can be used in many ways to help promote better #scicomm @biodataganache.bsky.social
journals.plos.org/ploscompbiol...
journals.plos.org/ploscompbiol...
Science friends 🧪🌎🦑, @altmetric.com tracks Bluesky posts now! Quote or reply to this post with a link to the paper you’re best known for or most proud of, and a brief plain-language summary of what you found and why it matters!
Let’s fill Bluesky with SCIENCE!
Let’s fill Bluesky with SCIENCE!
a man with glasses and suspenders is standing in front of a group of people and says science !!
ALT: a man with glasses and suspenders is standing in front of a group of people and says science !!
media.tenor.com
December 4, 2024 at 2:37 PM
Here's a fun paper I wrote on how to make and use science comics. Why? Comic/cartoon art is a way of lowering the 'energy barrier' to communicating complex ideas. And comics can be used in many ways to help promote better #scicomm @biodataganache.bsky.social
journals.plos.org/ploscompbiol...
journals.plos.org/ploscompbiol...
Reposted by Silpa Suthram
By popular demand, I have updated our starter pack in Stats, ML & Omics. Let me know if you'd like to be added. #ML #AI #singlecell #spatial #omics #statistics
go.bsky.app/73rcuJn
go.bsky.app/73rcuJn
December 5, 2024 at 4:36 PM
By popular demand, I have updated our starter pack in Stats, ML & Omics. Let me know if you'd like to be added. #ML #AI #singlecell #spatial #omics #statistics
go.bsky.app/73rcuJn
go.bsky.app/73rcuJn
Reposted by Silpa Suthram
December 3, 2024 at 6:36 PM
Reposted by Silpa Suthram
🎨 In case anyone need…
The NIH BioArt Source is an awesome library of *free* professionally drawn illustrations for scientific presentations or figures. Downloadable in HD. Thank you NIH for this invaluable tool 🙏!
Check it out 👇
bioart.niaid.nih.gov
The NIH BioArt Source is an awesome library of *free* professionally drawn illustrations for scientific presentations or figures. Downloadable in HD. Thank you NIH for this invaluable tool 🙏!
Check it out 👇
bioart.niaid.nih.gov
November 23, 2024 at 3:50 PM
🎨 In case anyone need…
The NIH BioArt Source is an awesome library of *free* professionally drawn illustrations for scientific presentations or figures. Downloadable in HD. Thank you NIH for this invaluable tool 🙏!
Check it out 👇
bioart.niaid.nih.gov
The NIH BioArt Source is an awesome library of *free* professionally drawn illustrations for scientific presentations or figures. Downloadable in HD. Thank you NIH for this invaluable tool 🙏!
Check it out 👇
bioart.niaid.nih.gov
Reposting due to the name!!
This study presents replication-aware single-molecule accessibility mapping (RASAM), a method to nondestructively measure replication status and protein-DNA interactions on chromatin genome-wide. #Cell #scisky
Open Access
www.cell.com/cell/fulltex...
Open Access
www.cell.com/cell/fulltex...
December 1, 2024 at 2:59 AM
Reposting due to the name!!
Reposted by Silpa Suthram
If you're interested in trying out LLMs in #rstats but don't know where to begin, I've added a few two vignettes to elmer: elmer.tidyverse.org/articles/elm... and elmer.tidyverse.org/articles/pro...
Getting started with elmer
elmer.tidyverse.org
November 29, 2024 at 3:45 PM
If you're interested in trying out LLMs in #rstats but don't know where to begin, I've added a few two vignettes to elmer: elmer.tidyverse.org/articles/elm... and elmer.tidyverse.org/articles/pro...