Reposted by Scott AdamsonDavid A Knowles @davidaknowles.bsky.social · 21hExcited this is officially out! RNA fingerprinting interprets sc perturbation experiments using large reference datasets, accounting for baseline heterogeneity, perturbation strength, outliers and correlation structure. Fun collaboration with Satija lab led by fantastic postdoc Izzy Grabski. 084
Scott Adamson @sadamson.bsky.social · 19hNot sure; I'd imagine a lot of it's very straightforward and some parts are incredibly tricky. Plus there's also new genes to try to build annotations for. I'd also assume both teams are spending a lot of brainpower working on moving things over right now, but don't think it's quite ready yet. 000
Scott Adamson @sadamson.bsky.social · 09/10/2026Gencode and ensembl gtfs aren't available yet for hs1 (as far as I know), which is my biggest hesitancy. I have a lot of code and infrastructure built around both of these. 120
Scott Adamson @sadamson.bsky.social · 08/09/2026This has a lot to do with incredible sports lore and things I personally enjoy. Couldn't write it any better.static.klipy.comGunna: Fire and WritingAlt: Gunna writing with flames coming out of pen on parchment (.gif). 001
Scott Adamson @sadamson.bsky.social · 21/08/2026It worked in Sharknado, why not for the bond market too 🤔? 010
Reposted by Scott AdamsonJonathan Pritchard @jkpritch.bsky.social · 09/08/2026Must-know numbers in human genetics -- As many of you know, I'm writing a free online textbook in human genetics. In this blog post I cover a key skill for genome scientists from that book: how to use mental math to figure out key genome properties. jkpritchard.substack.com/p/on-fermi-p...jkpritchard.substack.comOn Fermi Problems in Human Geneticsand some very useful numbers about human genomes to get you started! 918570
Scott Adamson @sadamson.bsky.social · 25/07/2026One of the things I love about living in New York is that closing down the street for wrestling is something that happened today. 020
Reposted by Scott AdamsonEllen @elcush.bsky.social · 17/07/2026i wrote about how baseball is TOO LOUD www.theatlantic.com/culture/2026...theatlantic.comWhen Did Sports Get So Loud?Athletes have become influencers. In-game production has become “storytelling.” And everything has gotten very, very stimulating. 9233
Scott Adamson @sadamson.bsky.social · 17/07/2026Great article Ellen! I 💯 agree with your S-tier "old baseball writer" take here. 010
Reposted by Scott AdamsonTuuli Lappalainen @tuuliel.bsky.social · 10/07/2026With my postdocs Nathan Andrews and @josiegleeson.bsky.social , we demonstrate the importance and analyze methods for isoform-level resolution in single cell-CRISPR perturbations. TL;DR: Long reads are the way. 3/3 www.biorxiv.org/content/10.6...biorxiv.orgIsoform-level resolution in single-cell CRISPR screens reveals hidden functional consequences of gene perturbationSingle-cell CRISPR screens have enabled systematic investigation of gene function, but studies have largely focused on gene-level effects, overlooking transcriptional complexity and isoform usage. Met... 091
Reposted by Scott AdamsonTuuli Lappalainen @tuuliel.bsky.social · 10/07/2026We're recruiting! An open functional genomics postdoc position at @scilifelab-ngi.bsky.social / my lab / Robert Månsson lab. Top notch environment for technology and applications development in lovely Stockholm. Please spread the word or apply if interested: www.kth.se/lediga-jobb/...kth.seKTH | Postdoc in genomicsKTH jobs is where you search for jobs at www.kth.se. 01321
Scott Adamson @sadamson.bsky.social · 02/07/2026I've never felt shorter than getting in a tiny hotel elevator that was already holding the starting lineup of a college basketball team. 110
Reposted by Scott AdamsonMichaela Müller-McNicoll @mixmue.bsky.social · 17/06/2026How can a splicing factor bind to thousands of exons but regulate only a few of them? In our new preprint, we show that SRSF6 resolves this paradox through two distinct binding modes. @lab-nmr.bsky.social & @julianvonehr.bsky.social. Check it out: www.researchsquare.com/article/rs-9... 15022
Reposted by Scott AdamsonMatthew Taliaferro @jmtali.bsky.social · 11/06/2026New paper! How do RNAs "know" where to go inside a cell? We dug into the sequence elements that route RNAs to the right place. It turns out that, in mammals, they're surprisingly massive (>200 nt), multipartite, and wonderfully complicated. 🧵 816565
Reposted by Scott AdamsonKurianlab @kurianlab.bsky.social · 23/04/2026www.sciencedirect.com/science/arti...sciencedirect.comComprehensive RNA-binding protein analyses and deep learning uncover genetic constraints and disease associations in protein-RNA interfacesRNA-binding proteins (RBPs) orchestrate post-transcriptional processes, including splicing, cleavage and polyadenylation, and translation. Our updated… 096
Scott Adamson @sadamson.bsky.social · 22/04/2026I tried doing that today and it didn't work. LGM 🫠 000
Reposted by Scott AdamsonKurianlab @kurianlab.bsky.social · 03/04/2026link.springer.com/article/10.1...link.springer.comAlu-mediated RNA duplexes are associated with widespread exon skipping across primate transcriptomes - Genome BiologyAlternative splicing patterns have diverged rapidly during vertebrate evolution. By integrating genome-wide predictions of stable RNA duplexes, alternative splicing profiles, and proximity ligation-de... 0105
Reposted by Scott AdamsonBUM CHILLUPS AKA SPENCER HALL AKA PRESIDENT FOOTBALL @edsbs.bsky.social · 30/03/2026UConn 439129
Reposted by Scott AdamsonMargaret Echelbarger @bskybymidge.bsky.social · 24/02/2026I'd say be there or be square, but if you're there, you're in the square! Puns aside -- there will be a @standupforscience.bsky.social rally in NYC! Plz repost! 0144
Reposted by Scott AdamsonTugce Aktas @aktast.bsky.social · 25/02/2026Our most recent work on the “function and evolution” of #nuclear-speckles is now online at Cell @cp-cell.bsky.social doi.org/10.1016/j.ce... Read the thread👇 for the highlights of our findings.doi.orgRedirecting 912561
Reposted by Scott AdamsonEdward Nirenberg @enirenberg.bsky.social · 19/12/2025Well. It's certainly not boring over in vaccine world.sciencenews.orgHe made beer that’s also a vaccine. Now controversy is brewingAn NIH scientist’s maverick approach reveals legal, ethical, moral, scientific and social challenges to developing potentially life-saving vaccines. 69922
Reposted by Scott AdamsonMolly Przeworski @mollyprz.bsky.social · 14/11/2025SAVE 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. 26039
Reposted by Scott AdamsonNature Biotechnology @natbiotech.nature.com · 04/11/2025KATMAP infers splicing factor activity and regulatory targets from knockdown data - @daspliceisright.bsky.social go.nature.com/47ycrMJgo.nature.comKATMAP infers splicing factor activity and regulatory targets from knockdown data - Nature BiotechnologyA biophysical model uses knockdown or overexpression data to infer splicing factor activity. 1159
Reposted by Scott AdamsonSelene FeRNAndez @selfdz.bsky.social · 01/08/2025Happy #RNA Day everyone!!! 🎉🎉🎉 #AUG1st #RNASkymedia.tenor.coma 3d rendering of a colorful dna molecule with a black backgroundALT: a 3d rendering of a colorful dna molecule with a black background 0359
Reposted by Scott AdamsonDavid A Knowles @davidaknowles.bsky.social · 29/07/2025Excited 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...nature.comCas13d-mediated isoform-specific RNA knockdown with a unified computational and experimental toolbox - Nature CommunicationsThe 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... 24217
Reposted by Scott AdamsonNature Biotechnology @natbiotech.nature.com · 25/07/2025A resource of RNA-binding protein motifs across eukaryotes reveals evolutionary dynamics and gene-regulatory function go.nature.com/4mc1SmQgo.nature.comA resource of RNA-binding protein motifs across eukaryotes reveals evolutionary dynamics and gene-regulatory function - Nature BiotechnologyRNA-binding motifs in eukaryotic proteins are presented in a comprehensive resource. 15322
Reposted by Scott AdamsonVikram Agarwal @vagar.bsky.social · 25/07/2025Very 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/exN1lurl.de.m.mimecastprotect.comPredicting the translation efficiency of messenger RNA in mammalian cellsNature Biotechnology - A deep convolutional neural network model predicts the influence of the full-length mRNA sequence on translation efficiency. 35021
Reposted by Scott AdamsonKif Liakath-Ali @kifla.bsky.social · 12/07/2025Love 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 0128
Reposted by Scott AdamsonDavid A Knowles @davidaknowles.bsky.social · 03/07/2025New 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...biorxiv.orgPerplexity as a Metric for Isoform Diversity in the Human TranscriptomeLong-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... 25522
Reposted by Scott AdamsonTuuli Lappalainen @tuuliel.bsky.social · 06/05/2025Our 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... 19842
Scott Adamson @sadamson.bsky.social · 27/12/2024Had that for the first time last week... it's spreading... 010
Reposted by Scott AdamsonDavid A Knowles @davidaknowles.bsky.social · 09/12/2024Excited 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...medrxiv.orgLeveraging functional annotations to map rare variants associated with Alzheimer's disease with gruyereThe 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... 13811
Scott Adamson @sadamson.bsky.social · 22/11/2024Looks like a pleco (Hypostomus plecostomus) to me. Although I'm not sure I'm exactly a fish person per se 😅. 010
Reposted by Scott AdamsonAdam M Novak @adamnovak.graphs.vg · 20/11/2024If we post enough complementary Heng Li memes, he'll surely join. 1297
Reposted by Scott AdamsonQuaid Morris @quaidmorris.bsky.social · 18/10/2024New 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...biorxiv.orgReconstructing the sequence specificities of RNA-binding proteins across eukaryotesRNA-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... 1135
Reposted by Scott AdamsonTuuli Lappalainen @tuuliel.bsky.social · 19/04/2024We'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/ 123
Reposted by Scott AdamsonMolly Przeworski @mollyprz.bsky.social · 13/03/2024For 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. 01110
Reposted by Scott AdamsonArtologica aka Michele Banks @artologica.net · 22/12/2023You got the kind of hedgehog that can be so smooth, yeah Give me your heart, make it real, or else forget about it 083
Scott Adamson @sadamson.bsky.social · 09/12/2023Gotta love a surprise Grinch on a motorcycle and Polar Express while wandering around town. 051