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Quaid Morris

@quaidmorris.bsky.social
5.7K followers 2.6K following 1.6K posts

Computational biology, machine learning, AI, RNA, cancer genomics. My views are my own. www.morrislab.ai He/him/his

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Reposted by Quaid Morris
Caroline Bartman @cbartman.bsky.social · 26/09/2026
Are there key discoveries made with spatial RNA seq? Or what are your favorite spatial rna seq papers? Pls reski!
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Asher Cutter @asherdcutter.bsky.social · 17/09/2026
Come to @romtoronto.bsky.social and EEB in Toronto! ROM is seeking entomologist/arachnologist curator who would also be faculty in EEB at UofT royalontariomuseum.applytojob.com/apply/mdMTpA...
royalontariomuseum.applytojob.com
Curator of Insects & Arachnids - Royal Ontario Museum - Career Page
Apply to Curator of Insects & Arachnids at Royal Ontario Museum in Toronto, ON, Canada.
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Tanja Stadler @tanjastadler.bsky.social · 15/09/2026
🚀 Interested in joining our Computational Evolution group at ETH Zürich in Basel @bsse.ethz.ch as a Postdoc? We will be hosting ETH AI Center's Postdoc Fellows on AI x evolution, AI x single cell biology as well as AI x public health. Apply now 👉 ai.ethz.ch/apply Deadline: Oct 27, 2026
ai.ethz.ch
Fellowship Programs
The application portal for the ETH AI Center Fellowship Programs is now closed. The deadline for submitting reference letters is 23:59 CET on November 14, 2025.
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George O'Toole (he/him/his) @geiselbiofilm.bsky.social · 15/09/2026
Pls share: Princeton has an open rank faculty search in the areas of cancer biology, cancer prevention, and cancer-relevant computational science, including connections between cancer and immunology or metabolism. apply.interfolio.com/191852
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Quaid Morris @quaidmorris.bsky.social · 04/09/2026
Probably what Toronto accent mapped to the USA should look like: SW Ontario, a bit of Vancouver and some snowbirds in South Florida
Contour map from http://mydialect.ca with dark blue (representing least like you) centered on Alabama and Louisiana and darkest red near the Great Lakes and Seattle wiith a bit of orange in South Florida
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Judith Kribelbauer @jk-swietek.bsky.social · 10/08/2026
Huge undertaking of many labs for many years, highlighting the power of multi-platform comparisons and open collaborations! So many Zoom meetings, bridging an 11h+ time zone difference to make it all happen!
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Quaid Morris @quaidmorris.bsky.social · 07/08/2026
Excited to share the results of the Codebook Project, an international effort to identify accurate DNA-binding motifs and genomic binding loci for >300 uncharacterized human transcription factors (TFs) www.nature.com/articles/s41...
nature.com
An expanded codebook of human transcription factor DNA-binding specificity - Nature
Results from a panel of assays that analyse different aspects of DNA sequence specificity reveal more than 100 new motifs to aid the characterization of putative human transcription factors.
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Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 01/08/2026
Riboseek is a fast RNA/DNA search. More sensitive than nhmmer at 250x speed. Structure-aware realignment produces MSAs approaching rMSA quality. Plus 1.7M precomputed RNA MSAs, and an API to search your own 📄 www.biorxiv.org/content/10.6... 💾 github.com/steineggerla... 🌐 search.foldseek.com/riboseek
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Stirling Churchman @stirlingchurchman.bsky.social · 28/07/2026
RNA-seq tells us how much RNA is present in the cell. But to understand gene regulation, we need to easily measure the synthesis and decay rates driving this abundance. We introduce AIR-seq: analog intrinsic recoding sequencing. (1/6) www.biorxiv.org/content/10.6...
biorxiv.org
Analog intrinsic recoding measures RNA dynamics without chemical conversion
Steady-state RNA abundance measurements mask the synthesis and decay rates that shape gene expression. Analog intrinsic recoding sequencing (AIR-seq) repurposes the base-pairing properties of N4-hydro...
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Alejandro Montenegro @aemonten.bsky.social · 25/07/2026
"We show here that the protein sequence is insufficient for the biogenesis of fully active IDR-containing transcriptional regulators in cells, suggesting that mRNA 3′ UTRs control their activity by preventing co-translational misfolding" doi.org/10.1016/j.ce...
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Quaid Morris @quaidmorris.bsky.social · 22/07/2026
🖥️🧬🧪
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Benjamin D. Greenbaum @bengrbm.bsky.social · 21/07/2026
Matching T cells to their cognate peptides presented on MHC molecules from sequence data is a key unsolved problem in computational immunology. A transformative collaboration with @quaidmorris.bsky.social. Led by Olga Lyudovyk, @levinejon.bsky.social & Melissa Pathil! 👇 @mskcancercenter.bsky.social
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Quaid Morris @quaidmorris.bsky.social · 21/07/2026
Can we predict which T cells recognize which peptides? A lot of the signal is hiding in AlphaFold3's (AF3's) hallucinations. enFoldX: instead of one predicted structure, we use the whole noisy ensemble to predict TCR:pMHC binding. www.biorxiv.org/content/10.6... 💻 🧬 github.com/jonlevi/enFoldX
biorxiv.org
Ensembles of in silico structures enable T cell peptide-MHC binding prediction
Adaptive immunity relies on T-cell receptor (TCR) recognition of peptides presented by the major histocompatibility complex (pMHC). Accurate prediction of TCR:pMHC binding pairs from sequence data rem...
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Andrew Gordon Wilson @andrewgwils.bsky.social · 14/07/2026
How far can we compress billion-parameter LLMs? We introduce requential coding, which achieves < 1-bit per param compression, and explains why scaling doesn't hit a generalization wall! arxiv.org/pdf/2607.11883 w/ Shikai Qiu, Marc Finzi, Yujia Zheng, Kun Zhang 1/🧵
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Dr. Samantha Montano @samlmontano.bsky.social · 02/07/2026
Sorry if this is a silly question but do you not put tenure on your CV? I googled it and it seems like you don’t? Surely that is worthy of note?
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Kate Cook @eskay8.bsky.social · 10/06/2026
Getting there. I signed up for a sale at the end of the month (my first!) and am trying to get a bunch of stuff finished
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Molly Knight @mollyknight.bsky.social · 31/05/2026
Are we rooting for the Thunder or the Spurs
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Mann Lab @mannlab.bsky.social · 28/05/2026
1/5 Cell identity is written in the proteome, not in the DNA, and not always in the RNA. Out on bioRxiv today: The first cell type-resolved, MS-based proteomic atlas of the human body. www.biorxiv.org/content/10.6...
biorxiv.org
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Doug Gordon @brooklynspoke.bsky.social · 28/05/2026
Pedestrianizing the Financial District would be another one of those projects where as soon as it went into effect people would wonder why New York didn't do it earlier and, before too long, even more people would forget it was ever any different.
nyc.streetsblog.org
Data Show Why Mamdani Must Pedestrianize the Financial District - Streetsblog New York City
People walk in the Financial District, but the neighborhood's business group prioritizes the car.
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Larry Hunter @proflhunter.bsky.social · 20/05/2026
New family of generative DNA language models trained on 1T 6-mer DNA tokens in long genomic contexts. Open weights, open source, open training data... h/t @mmitchell.bsky.social huggingface.co/spaces/Huggi...
huggingface.co
Carbon - a Hugging Face Space by HuggingFaceBio
Enter a DNA string and the Carbon model can continue the sequence, score genetic variants, or predict the protein’s 3‑D structure. You can also explore gene‑embedding visualisations and see the ful...
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Dr. Julie Claycomb @farmgirlphd.bsky.social · 13/05/2026
Attention all #RNA26 Montreal @rnasociety.bsky.social attendees! Get your special edition @rnacanada.ca RNEh? tshirt to celebrate your Canadian RNA pride. Order here: gametime.gearware.com/stores/rna thru Friday, May 29th. Delivery ONLY to RNA2026 in MTL/no shipping. Image design by Jasmine Tsang.
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David A Knowles @davidaknowles.bsky.social · 06/05/2026
#MLCB2026 will be November 16-17 at (once again) @nygenome.org, NYC! Paper/abstract deadline is July 1st, more deets at mlcb.org. We'll be opening in-person registration alongside paper decisions. Mailing list to stay in the loop: groups.google.com/g/mlcb. Keynotes TBA! Please RP!
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Nature Methods @natmethods.nature.com · 29/04/2026
Orthus: an RNA foundation model pretrained via contrastive learning based on splicing isoforms and orthologous transcripts. @phil-fradkin.bsky.social @heyitsmeianshi.bsky.social @taykhoomdalal.bsky.social @bowang87.bsky.social @quaidmorris.bsky.social www.nature.com/articles/s41...
nature.com
Orthrus: toward evolutionary and functional RNA foundation models - Nature Methods
Orthrus is an RNA foundation model pretrained via contrastive learning based on splicing isoforms and orthologous transcripts. This pretraining strategy leads to its strong performances in various tas...
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Harvard_MCB @harvardmcb.bsky.social · 16/04/2026
Small Model, Big Insight: RNA Structure Rules Emerge from Minimal Data 🧬 #AcademicSky #higherEd #RNA www.mcb.harvard.edu/department/n... @rachellegaudet.bsky.social @naoshigeuchida.bsky.social @nature.com @harvard.edu
mcb.harvard.edu
Small Model, Big Insight: RNA Structure Rules Emerge from Minimal Data - Harvard University - Department of Molecular & Cellular Biology
MCB Senior Research Fellow Elena Rivas and colleagues have demonstrated that the fundamental rules governing RNA structure can be learned using a remarkably simple computational model—challenging assu...
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Memorial Sloan Kettering Cancer Center @mskcancercenter.bsky.social · 16/04/2026
New research from MSK, led by Dr. Scott Lowe, Dr. Dana Pe'er, & colleagues, shows how pancreatic cells can shift from a benign state to cancer — revealing a key “switch” in this process. The study, published in @cellpress.bsky.social, identifies a critical window for early detection and prevention.
mskcc.org
From Benign Growth to Pancreatic Cancer: New Study Shows How the Switch Gets Flipped | Memorial Sloan Kettering Cancer Center
An MSK study reveals new details about how pancreatic cells carrying oncogenic mutations transition from benign to malignant — shining new light on the ecosystems that supports emerging tumors.
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Tineke Lenstra @tinekelenstra.bsky.social · 12/03/2026
Ever wondered how a eukaryotic transcription factor finds its specific DNA motif in the vast genome? In this preprint, we directly measured the dynamics of this search process in living cells, revealing a cooperative mechanism mediated by disordered regions. 1/10 doi.org/10.64898/202...
doi.org
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Donnelly Centre @donnellycentre.bsky.social · 17/02/2026
The Donnelly Centre is hiring a new Research and Communications Officer! As a vital part of our administration team, this role covers the external and internal communications of our community. Learn more about the role and apply at the link below: jobs.utoronto.ca/job/Toronto-...
jobs.utoronto.ca
Research & Communications Officer
Research & Communications Officer
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EMBL-EBI @ebi.embl.org · 10/02/2026
We’re hiring: Research Group Leader in computational biology. Are you generating more research ideas than you can explore? Lead cutting-edge AI & biology research at EMBL-EBI. Apply by 11 April 2026: embl.wd103.myworkdayjobs.com/en-US/EMBL/j... #ScienceCareers @ewaldlab.org @embl.org
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Quaid Morris @quaidmorris.bsky.social · 29/01/2026
In a new paper, we introduce Metient, a new method to reconstruct the migration history of metastatic clones, and learn cancer-type specific patterns of metastatic spread, from bulk or single-cell sequencing data. www.nature.com/articles/s41...
nature.com
Inferring cancer type-specific patterns of metastatic spread using Metient - Nature Methods
Metient is a statistical framework that infers patterns of metastatic spread and reconstructs cancer migration histories.
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Žiga Avsec @avsecz.bsky.social · 28/01/2026
AlphaGenome is out in @nature.com today along with model weights! 🧬 📄 Paper: www.nature.com/articles/s41... 💻 Weights: github.com/google-deepm... Getting here wasn’t a straight path. We discussed the story behind the model, paper & API in the following roundtable: youtu.be/V8lhUqKqzUc
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Quaid Morris @quaidmorris.bsky.social · 29/01/2026
Now with a bioinformatics/genomics label 🖥️🧬
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Quaid Morris @quaidmorris.bsky.social · 29/01/2026
In a new paper, we introduce Metient, a new method to reconstruct the migration history of metastatic clones, and learn cancer-type specific patterns of metastatic spread, from bulk or single-cell sequencing data. www.nature.com/articles/s41...
nature.com
Inferring cancer type-specific patterns of metastatic spread using Metient - Nature Methods
Metient is a statistical framework that infers patterns of metastatic spread and reconstructs cancer migration histories.
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Alex Stark @alex-stark.bsky.social · 29/12/2025
Join @stirlingchurchman.bsky.social, @moffittlab.bsky.social, @saramostafavi.bsky.social, me and all speakers for the 2026 CSHL meeting Systems Biology: Global Regulation of Gene Expression, March 11-14. Abstract deadline January 9! More infos and registration at meetings.cshl.edu/meetings.asp...
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Molly Przeworski @mollyprz.bsky.social · 14/11/2025
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.
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Caleb Lareau @caleblareau.bsky.social · 14/12/2025
We are very excited to share the first preprint of a new direction for our group. Led by the fearless duo of @arthurwchow.bsky.social and @hoyinchu.bsky.social, our foray into computational protein design—
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Reactome @reactome.org · 08/12/2025
New Reactome paper in NAR 2026 Databases Issue: doi.org/10.1093/nar/... Redesigned Angular interface ReacFoam & entity-level visualizations Multi-omics analysis tools React-to-Me chatbot FAIR-compliant, CoreTrustSeal certified, and ELIXIR-recognized 🖥️🧬
doi.org
The Reactome Knowledgebase 2026
Abstract. The Reactome Knowledgebase (https://reactome.org) is a freely accessible, expert-curated, open-source, and open-data resource that describes huma
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Jason Moore @moorejh.bsky.social · 06/12/2025
True
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Wyeth Wasserman @wywywa.bsky.social · 03/12/2025
It's always exciting when the latest edition of JASPAR comes out. Great leadership by @amathelier.bsky.social and pleased to welcome @anshulkundaje.bsky.social to the journey. #Jaspar2026 academic.oup.com/nar/advance-...
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Randall Munroe @xkcd.com · 26/11/2025
Fifteen Years xkcd.com/3172/
Comic. Panels up to the 10-year point are grayed out. New panels since the Ten Years comic, which chronicles the first ten years of PERSON 1's journey with cancer: (1) [two people in bed] PERSON 1 (woman): One more chapter? PERSON 2 (man): Don’t we both have to get up early? PERSON 1: Nnnnnggggh PERSON 2: Sure, good point. (2) [many people wearing masks, walking while looking at graphs on their phones] (3) [birds landing on people] PERSON 2 in beanie and scarf: Hah! They like *my* seeds best. PERSON 1 in scarf holding phone with a bird sitting on it: Wait, how do I take a picture of this one? (4) [two people rowing boats with tree landscape] (5) [Person 1 carries overflowing stack of things to Person 2 in bed] PERSON 1: I brought you honey lemon tea, more pillows, a cinnamon roll, Tylenol, another blanket, a– PERSON 2: It was just Appendicitis, I’m really– PERSON 1: *It is my turn to take care of you and I am going to do it right!* (6) [Two people in car] (7) [still in car) PERSON 1: Oh my god. PERSON 2: Oh my god. (8) [car driving] PERSON 1: Pull over! PERSON 2: I am! (9) [both people get out of car] (10) [Large colored panel of aurora borealis over water with both people looking on] (11) [Person 1 sits against tree while Person 2 lies on the ground] PERSON 1: Fifteen years. No sign of the cancer. (12) I *am* having some weird symptoms. Joint pain. Fatigue. I think I’m losing my close-up vision. PERSON 2: Yeah. Me too. (13) PERSON 2: I think we’re getting old. (14) PERSON 1: I guess that’s okay. PERSON 2: It’s all I wanted.
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Mikko Taipale @miketilapia.bsky.social · 19/11/2025
We are looking for a postdoctoral fellow to work on induced proximity 🤜🤛 and functional genomics! Join our team in Toronto 🇨🇦 to tackle major challenges in oncology and neurodegeneration. www.nature.com/naturecareer...
nature.com
POSTDOCTORAL FELLOW - Toronto (City), Ontario (CA) job with Taipale Lab, Donnelly Centre, University of Toronto | 12849004
The Taipale lab in the Donnelly CCBR and University of Toronto is looking for a highly motivated Postdoctoral Fellow
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Plaschka lab @plaschkalab.bsky.social · 21/11/2025
Messenger RNA is made in the nucleus before it is exported to the cytoplasm for translation. But how are only correctly made mRNAs chosen and remodeled in the nucleus for export? Our new paper investigates the nuclear events leading to human mRNA export. www.nature.com/articles/s41.... (1/4)
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Kieran Campbell @kieranrcampbell.bsky.social · 23/10/2025
Great collaboration with @gingraslab.bsky.social & congrats to lead author Vesal. Paper: www.nature.com/articles/s41... Thanks to @sinaihealth.bsky.social
Screenshot of paper title
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eric lai @lucksmith.bsky.social · 10/11/2025
new Lai lab paper @natsmb.nature.com! Dicer is specifically mutated in cancer, but we don't fully understand its molecular/reg impacts. with @danweihuangfu.bsky.social, we characterized the first knockin Dicer hotspot in hESCs, and found unexpected defects in miRNA biogenesis! 🧬 1/4 rdcu.be/eOc0q
rdcu.be
Human DICER1 hotspot mutation induces both loss and gain of miRNA function
Nature Structural & Molecular Biology - Jee et al. study a cancer hotspot allele of DICER1 that disrupts RNaseIIIb activity. Beyond ablating 5p hairpin cleavage, 3p passenger strands are...
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Jerome @fjerome.bsky.social · 02/11/2025
Good morning to all the puppies not observing the time change
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W. Brent Derry @wbderry.bsky.social · 28/10/2025
Fantastic opportunity at The Hospital for Sick Children. Please repost. www.nature.com/naturecareer...
nature.com
SCIENTIST – Developmental, Stem Cell &amp; Cancer Biology Program - Toronto (City), Ontario (CA) job with The Hospital for Sick Children - Developmental &amp; Stem Cell Biology Program | 12848200
Discovery-based and/or translational research using model organism genetics and/or stem cell and organoid platforms to study paediatric cancer.
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John Chodera @jchodera.bsky.social · 27/10/2025
My institution---the Sloan Kettering Institute, the basic science arm of the Memorial Sloan Kettering Cancer Center---is hiring new faculty this cycle! Applications close Nov 15. www.mskcc.org/research/ski...
mskcc.org
Faculty Positions
The Sloan Kettering Institute is seeking innovative scientists to join our faculty.
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Matthew Hahn @3rdreviewer.bsky.social · 06/10/2025
The most important paper in evolutionary biology I'd never heard of: 1/ www.sciencedirect.com/science/arti...
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Tim Wu @superwuster.bsky.social · 03/10/2025
Finalized my 2025 book tour! Coming through New York, DC, Chicago, Toronto, San Francisco, Los Angeles, London, Oxford and Cambridge. Click here for details: timwu.net#booktour
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ralucagordan.bsky.social @ralucagordan.bsky.social · 03/10/2025
I'm very pleased to announce the official publication of our lab's paper "DNA mutagenesis driven by transcription factor competition with mismatch repair" in today's issue of Cell! www.cell.com/cell/abstrac...
cell.com
DNA mutagenesis driven by transcription factor competition with mismatch repair
Competition between transcription factors and mismatch repair machinery drives localized hypermutation at regulatory elements, with implications for cancer and genome evolution.
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Max Kozlov @maxkozlov.bsky.social · 30/09/2025
Staff members at the NIH seem to have done the impossible: spend the agency's $48 billion budget. “Everyone has been rallying together to clean up the mess, but it’s a mess that did not need to be made,” an NIH program officer told me. www.nature.com/articles/d41...
nature.com
NIH races to spend its 2025 grant money — but fewer projects win funding
Despite political obstacles, officials are on track to disburse all of the research funds allocated to US biomedical behemoth.
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