Scott Adamson
@sadamson.bsky.social
Post-doc studying genetics and post-transcriptional gene regulation. Outdoor hobbyist, sports fan, and amateur critter photographer.
Reposted by Scott Adamson
SAVE THE DATE: the yearly NY Population Genetics meeting will be back on March 9 2026, generously hosted by the
@simonsfoundation.org. Details to follow. Please RT.
@simonsfoundation.org. Details to follow. Please RT.
November 14, 2025 at 5:05 PM
SAVE THE DATE: the yearly NY Population Genetics meeting will be back on March 9 2026, generously hosted by the
@simonsfoundation.org. Details to follow. Please RT.
@simonsfoundation.org. Details to follow. Please RT.
Reposted by Scott Adamson
KATMAP infers splicing factor activity and regulatory targets from knockdown data - @daspliceisright.bsky.social go.nature.com/47ycrMJ
KATMAP infers splicing factor activity and regulatory targets from knockdown data - Nature Biotechnology
A biophysical model uses knockdown or overexpression data to infer splicing factor activity.
go.nature.com
November 4, 2025 at 3:13 PM
KATMAP infers splicing factor activity and regulatory targets from knockdown data - @daspliceisright.bsky.social go.nature.com/47ycrMJ
Reposted by Scott Adamson
Reposted by Scott Adamson
Excited for this to be out officially! It was a great team effort and has a lot of useful tidbits for studying isoform function. www.nature.com/articles/s41...
Cas13d-mediated isoform-specific RNA knockdown with a unified computational and experimental toolbox - Nature Communications
The majority of human genes can produce multiple isoforms, but studying their functional relevance requires tools to target specific isoforms. Here, the authors develop a CRISPR-based exon-exon juncti...
www.nature.com
July 29, 2025 at 4:35 PM
Excited for this to be out officially! It was a great team effort and has a lot of useful tidbits for studying isoform function. www.nature.com/articles/s41...
Reposted by Scott Adamson
A resource of RNA-binding protein motifs across eukaryotes reveals evolutionary dynamics and gene-regulatory function go.nature.com/4mc1SmQ
A resource of RNA-binding protein motifs across eukaryotes reveals evolutionary dynamics and gene-regulatory function - Nature Biotechnology
RNA-binding motifs in eukaryotic proteins are presented in a comprehensive resource.
go.nature.com
July 25, 2025 at 3:46 PM
A resource of RNA-binding protein motifs across eukaryotes reveals evolutionary dynamics and gene-regulatory function go.nature.com/4mc1SmQ
Reposted by Scott Adamson
Very excited that our most significant work, a collaboration w/ Dr. Can Cenik at UT Austin on translational gene regulation, was finally published in Nature Biotechnology in a dual set of studies:
Paper 1 -- an AI model trained to predict translation rates from mRNA sequences: rdcu.be/exN1l
Paper 1 -- an AI model trained to predict translation rates from mRNA sequences: rdcu.be/exN1l
Predicting the translation efficiency of messenger RNA in mammalian cells
Nature Biotechnology - A deep convolutional neural network model predicts the influence of the full-length mRNA sequence on translation efficiency.
url.de.m.mimecastprotect.com
July 25, 2025 at 1:37 PM
Very excited that our most significant work, a collaboration w/ Dr. Can Cenik at UT Austin on translational gene regulation, was finally published in Nature Biotechnology in a dual set of studies:
Paper 1 -- an AI model trained to predict translation rates from mRNA sequences: rdcu.be/exN1l
Paper 1 -- an AI model trained to predict translation rates from mRNA sequences: rdcu.be/exN1l
Reposted by Scott Adamson
Love RNA biology and care about reproducibility? I’m co-editing a @bio-protocol.bsky.social special issue with @marionhogg.bsky.social & Renate Weizbauer —focusing open access and transparent RNA detection protocols.
Submit yours today - en.bio-protocol.org/content17
#OpenScience #ReproRNAbiology
Submit yours today - en.bio-protocol.org/content17
#OpenScience #ReproRNAbiology
July 12, 2025 at 1:34 PM
Love RNA biology and care about reproducibility? I’m co-editing a @bio-protocol.bsky.social special issue with @marionhogg.bsky.social & Renate Weizbauer —focusing open access and transparent RNA detection protocols.
Submit yours today - en.bio-protocol.org/content17
#OpenScience #ReproRNAbiology
Submit yours today - en.bio-protocol.org/content17
#OpenScience #ReproRNAbiology
Reposted by Scott Adamson
New work from the lab trying to wrap our heads around the massive complexity of the human transcriptome revealed by long-read RNA-seq! Fun collab with Gloria Sheynkman. www.biorxiv.org/content/10.1...
Perplexity as a Metric for Isoform Diversity in the Human Transcriptome
Long-read sequencing (LRS) has revealed a far greater diversity of RNA isoforms than earlier technologies, increasing the critical need to determine which, and how many, isoforms per gene are biologic...
www.biorxiv.org
July 2, 2025 at 11:46 PM
New work from the lab trying to wrap our heads around the massive complexity of the human transcriptome revealed by long-read RNA-seq! Fun collab with Gloria Sheynkman. www.biorxiv.org/content/10.1...
Reposted by Scott Adamson
Our new contribution to the quest to find causal GWAS genes! Sam Ghatan from my lab at @nygenome.org led a systematic comparison of eQTLs and CRISPRi+scRNA-seq screens. TL;DR: they provide highly complementary insights, with ortogonal pros and cons. 🧵👇
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
May 6, 2025 at 5:01 PM
Our new contribution to the quest to find causal GWAS genes! Sam Ghatan from my lab at @nygenome.org led a systematic comparison of eQTLs and CRISPRi+scRNA-seq screens. TL;DR: they provide highly complementary insights, with ortogonal pros and cons. 🧵👇
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Scott Adamson
Reposted by Scott Adamson
Excited to share our first foray into (noncoding) rare variant association testing: a probabilistic model that learns functional annotation importance and finds associations missed by existing methods. Anjali did a fantastic job with model assessment and scaling! www.medrxiv.org/content/10.1...
Leveraging functional annotations to map rare variants associated with Alzheimer's disease with gruyere
The increasing availability of whole-genome sequencing (WGS) has begun to elucidate the contribution of rare variants (RVs), both coding and non-coding, to complex disease. Multiple RV association tes...
www.medrxiv.org
December 9, 2024 at 5:03 PM
Excited to share our first foray into (noncoding) rare variant association testing: a probabilistic model that learns functional annotation importance and finds associations missed by existing methods. Anjali did a fantastic job with model assessment and scaling! www.medrxiv.org/content/10.1...
Finally I'm in a top percentile of scientists!
(please amplify) 4% of scientists face an important barrier to an the ENTIRE FIELD of single-cell genomics and here is why
November 26, 2024 at 2:33 AM
Finally I'm in a top percentile of scientists!
Reposted by Scott Adamson
If we post enough complementary Heng Li memes, he'll surely join.
November 20, 2024 at 6:37 PM
If we post enough complementary Heng Li memes, he'll surely join.
Reposted by Scott Adamson
New preprint alert! EuPRI has everything:
* New binding data (174 RBPs)
* New motifs (34,000 RBPs)
* New ML for inferring motifs from protein sequence (JPLE)
* Evolution of RBP motifs across eukaryotes
* 12 Plant RBPs assigned PTR function. Stay tuned for more
www.biorxiv.org/content/10.1...
* New binding data (174 RBPs)
* New motifs (34,000 RBPs)
* New ML for inferring motifs from protein sequence (JPLE)
* Evolution of RBP motifs across eukaryotes
* 12 Plant RBPs assigned PTR function. Stay tuned for more
www.biorxiv.org/content/10.1...
Reconstructing the sequence specificities of RNA-binding proteins across eukaryotes
RNA-binding proteins (RBPs) are key regulators of gene expression. Here, we introduce EuPRI (Eukaryotic Protein-RNA Interactions) — a freely available resource of RNA motifs for 34,736 RBPs from 690 e...
www.biorxiv.org
October 18, 2024 at 1:56 PM
New preprint alert! EuPRI has everything:
* New binding data (174 RBPs)
* New motifs (34,000 RBPs)
* New ML for inferring motifs from protein sequence (JPLE)
* Evolution of RBP motifs across eukaryotes
* 12 Plant RBPs assigned PTR function. Stay tuned for more
www.biorxiv.org/content/10.1...
* New binding data (174 RBPs)
* New motifs (34,000 RBPs)
* New ML for inferring motifs from protein sequence (JPLE)
* Evolution of RBP motifs across eukaryotes
* 12 Plant RBPs assigned PTR function. Stay tuned for more
www.biorxiv.org/content/10.1...
Reposted by Scott Adamson
We're recruiting postdocs! Join our lab at
@scilifelab.bsky.social and KTH in Stockholm to work on functional genomics at the experimental and/or computational intersection of CRISPR/scRNA-seq/genetics approaches. Close links to our team at NY Genome Center. 1/
@scilifelab.bsky.social and KTH in Stockholm to work on functional genomics at the experimental and/or computational intersection of CRISPR/scRNA-seq/genetics approaches. Close links to our team at NY Genome Center. 1/
April 19, 2024 at 1:10 PM
We're recruiting postdocs! Join our lab at
@scilifelab.bsky.social and KTH in Stockholm to work on functional genomics at the experimental and/or computational intersection of CRISPR/scRNA-seq/genetics approaches. Close links to our team at NY Genome Center. 1/
@scilifelab.bsky.social and KTH in Stockholm to work on functional genomics at the experimental and/or computational intersection of CRISPR/scRNA-seq/genetics approaches. Close links to our team at NY Genome Center. 1/
Reposted by Scott Adamson
For those in the NY area, SAVE THE DATE (& register) for a Symposium on Human Genetics at Columbia University: Oct 10-11 2024. Talks will also be streamed.
March 13, 2024 at 11:42 PM
For those in the NY area, SAVE THE DATE (& register) for a Symposium on Human Genetics at Columbia University: Oct 10-11 2024. Talks will also be streamed.
Reposted by Scott Adamson
You got the kind of hedgehog that can be so smooth, yeah
Give me your heart, make it real, or else forget about it
Give me your heart, make it real, or else forget about it
Smooth hedgehog?
Smooth hedgehog
December 22, 2023 at 2:58 PM
You got the kind of hedgehog that can be so smooth, yeah
Give me your heart, make it real, or else forget about it
Give me your heart, make it real, or else forget about it
Gotta love a surprise Grinch on a motorcycle and Polar Express while wandering around town.
December 9, 2023 at 7:38 PM
Gotta love a surprise Grinch on a motorcycle and Polar Express while wandering around town.
Reposted by Scott Adamson
Spurred on by ribosome profiling and other cool methods, translation elongation has grown into a whole field with new surprises all the time (and new relevance for vaccine mRNAs!). Here’s our latest on why synonymous codons aren’t all the same. (Thread) www.biorxiv.org/content/10.1...
Codon optimality modulates protein output by tuning translation initiation
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
www.biorxiv.org
November 29, 2023 at 7:07 AM
Spurred on by ribosome profiling and other cool methods, translation elongation has grown into a whole field with new surprises all the time (and new relevance for vaccine mRNAs!). Here’s our latest on why synonymous codons aren’t all the same. (Thread) www.biorxiv.org/content/10.1...
Reposted by Scott Adamson
Very excited to share the first manuscript out of my PhD presenting our analysis into the genetic architecture of gene expression and splicing using blood RNA-seq of 4,732 blood donors from the INTERVAL study. (1/7)
Genetic determinants of blood gene expression and splicing and their contribution to molecular pheno...
medRxiv - The Preprint Server for Health Sciences
www.medrxiv.org
November 28, 2023 at 12:00 PM
Very excited to share the first manuscript out of my PhD presenting our analysis into the genetic architecture of gene expression and splicing using blood RNA-seq of 4,732 blood donors from the INTERVAL study. (1/7)
Reposted by Scott Adamson
Inside of you is one homer, what is your homer?
October 25, 2023 at 4:45 AM
Inside of you is one homer, what is your homer?
Reposted by Scott Adamson
Created an #RNAbiology feed to talk RNA science! Let's use it.
@onamy.bsky.social @mgblango.bsky.social @graveley.bsky.social @nickingolia.bsky.social @hogglab.bsky.social @quaidmorris.bsky.social @snf.bsky.social @lucksmith.bsky.social
@onamy.bsky.social @mgblango.bsky.social @graveley.bsky.social @nickingolia.bsky.social @hogglab.bsky.social @quaidmorris.bsky.social @snf.bsky.social @lucksmith.bsky.social
October 17, 2023 at 12:23 PM
Created an #RNAbiology feed to talk RNA science! Let's use it.
@onamy.bsky.social @mgblango.bsky.social @graveley.bsky.social @nickingolia.bsky.social @hogglab.bsky.social @quaidmorris.bsky.social @snf.bsky.social @lucksmith.bsky.social
@onamy.bsky.social @mgblango.bsky.social @graveley.bsky.social @nickingolia.bsky.social @hogglab.bsky.social @quaidmorris.bsky.social @snf.bsky.social @lucksmith.bsky.social
Reposted by Scott Adamson
Interested in doing a PhD with me in Sweden? Experimental+computational genomics skills and/or interests? We have an open position! Great environment at KTH on @SciLifeLab campus, staff benefits, well-funded project, close interactions with our New York team. kth.varbi.com/en/what:job/...
October 5, 2023 at 9:00 AM
Interested in doing a PhD with me in Sweden? Experimental+computational genomics skills and/or interests? We have an open position! Great environment at KTH on @SciLifeLab campus, staff benefits, well-funded project, close interactions with our New York team. kth.varbi.com/en/what:job/...
Is there any etiquette for sharing science threads from X for research that isn't mine (and I can't find the poster/author on bluesky)?
October 4, 2023 at 12:34 PM
Is there any etiquette for sharing science threads from X for research that isn't mine (and I can't find the poster/author on bluesky)?