Excited to share this preprint that describes my latest work on using GPUs to accelerate processing of RNA-seq data.
The title says it all: "RNA-seq analysis in seconds using GPUs" now on biorxiv www.biorxiv.org/content/10.6... and github github.com/pachterlab/k...
Figure 1 shows they key result
Data visualization is a critical step in data analysis. 8 links to bookmark for better data visualization:🧵
Wonderful and inspiring news article about Dr. Yvette Bonny (former @umontreal.ca professor and clinician at our host institute), who pioneered pediatric bone marrow transplants in Quebec.
www.cbc.ca/news/canada/...
The most important #RNA conference of the year with lots of amazing science and a really friendly atmosphere. This year in beautiful Montreal 🇨🇦 !
www2.rnasociety.org
Our thoughts, impressions, and presentations of the "2nd EuroDepMap symposium" in Milan (Nov 2025) are online at
@febsletters.bsky.social.
febs.onlinelibrary.wiley.com/doi/10.1002/...
Useful!
Does the noncoding genome actually carry more genetic information than coding seqs? Motivated by this question we mutated every bp in the 10kb MYC locus. Results are even more exciting: Decoding the MYC locus reveals a druggable ultraconserved RNA element www.biorxiv.org/content/10.6...
Just out @natrevimmunol.nature.com
RNA-binding proteins and ribonucleoproteins as determinants of immunity
www.nature.com/articles/s41...
gives our perspective on this growing area of research. Special thanks to the editor Alexandra, for streamlining the manuscript.
I was maybe 2.5 years into my position as an Assistant Professor when my phone rang, and it was Kirsty Duncan, the new federal science minister, calling out of the blue. I had never met her. She asked me what she could do for early career investigators. /1
Stem Cell Reports is calling for applications to serve on its editorial team as an Early Career Editor, a prestigious opportunity for outstanding, early-career scientists to help shape the future of stem cell publishing. The deadline to apply is 13 March 2026. https://ow.ly/8iiP50XWscj
We’re hiring!
@jcellsci.bsky.social is looking for a Reviews Editor to join the team. This is a fantastic opportunity for someone who loves #cellbiology and wants to stay connected with the field. A great chance to work for an organisation that believes in helping the community!
Details below👇
📣 Calling all trainees and HQP working in #StemCell or #RegenerativeMedicine in Canada!
The 2026–2027 SCN International Travel Awards are now open. Conference travel taking place April 1, 2026 – March 15, 2027, is eligible. Apply by February 17, 2026: stemcellnetwork.ca/training/wor...
Sensitive and unbiased genome-wide profiling of base-editor-induced off-target activity using CHANGE-seq-BE - @stjuderesearch.bsky.social go.nature.com/4qB6qp8
McGill’s Arts Building on campus, featuring its stone façade and green dome, with the McGill flag raised and autumn foliage surrounding the building.
McGill is recruiting top-tier researchers working abroad through the federally funded Canada Impact+ Research Chairs program, addressing global and national challenges. The first round is due in early 2026.
Learn more and submit your candidacy: https://mcgill.ca/x/5Zh
📢 NEW exciting opportunity!
Join Queen’s University as a tenure-track Assistant Professor in Cell Engineering and Biomanufacturing, with opportunities for interdisciplinary research across #ChemicalEngineering and #Biomedical and #MolecularSciences. 🔬
🔗 stemcellnetwork.ca/career-oppor...
Delivery of DLL1+FLT3L+IL-7 mRNA to hepatocytes boosted thymopoiesis to rejuvenate aged T cells & enhance DC abundance/function to restore immune function @nature.com @hhmi-science.bsky.social @broadinstitute.org @zhangf.bsky.social
www.nature.com/articles/s41...
www.nature.com/articles/d41...
Now in @natcomms.nature.com! Expanded well beyond the preprint, w/new experiments in iPSCs, kinetic analysis at the DNA & protein levels, & more. Kudos to the team (esp. Rajini Srinivasan, Tao Sun, and Andrew Ng) & the editor + reviewers for strengthening this work!
www.nature.com/articles/s41...
67th ASH Annual Meeting Original Article | Dec. 8, 2025 | NEJM.org Universal Base-Edited CAR7 T Cells for T-Cell Acute Lymphoblastic Leukemia Figure 2F. Minimal Residual Disease before and after Receipt of BE-CAR7 T Cells. The NEJM identity sits at the bottom.
In relapsed or refractory T-cell acute lymphoblastic leukemia, off-the-shelf allogeneic base-edited CAR7 T cells mediated responses in 11 patients, enabling stem-cell transplantation in 9 patients in deep remission. Full study results: nej.md/48wiyQL
#ASH25 | @ash.hematology.org
Announcing the 2026 edition of the EMBO workshop on RNA localization and local translation! This meeting will be held June 30 - July 4 near Porto, Portugal. Come for exciting updates in the field from both established investigators and trainees. See the link below for details!
🧪
@gingraslab.bsky.social
compared 10 enzymes used for proximity biotinylation proteomics experiments. UltraID is the winner.
www.biorxiv.org/content/10.1...
Grateful to the @src-crs.bsky.social for supporting our project using next-gen cell-based models + functional genomics to map how prostate cancer develops + how drug resistance arises! Many thanks to our collaborators + congrats to fellow awardees! cancerresearchsociety.ca/news/100-new...
Professor / Associate Professor (Tenure) – Dr. Connie Eaves Chair in Cancer Stem Cell Research
🔊 Career opportunity: Professor / Associate Professor (Tenure) – Dr. Connie Eaves Chair in Cancer Stem Cell Research!
This position offers a unique opportunity to drive transformative research integrating cutting-edge technologies to improve patient outcomes. 🔬
🔗 stemcellnetwork.ca/wp-content/u...
Original Article | Nov. 20, 2025 Efficacy, Immunogenicity, and Safety of Modified mRNA Influenza Vaccine Figure 1A. Laboratory-Confirmed Cases of Influenza The NEJM identity sits at the bottom.
Influenza remains an important cause of illness and death. In a phase 3 trial, a nucleoside-modified mRNA (modRNA) quadrivalent vaccine was found to be superior to a standard quadrivalent vaccine in preventing influenza illness. Full trial results: nej.md/43udoTG
#MedSky #IDSky
Our new preprint is online! Viruses, bacteria and parasites use effector proteins to evade immunity and rewire host cell pathways. Together with @AlexanderStark8, we wondered if we could systematically map what these effectors, regardless of their origin, do in human cells. 1/8
A parts list of promoters and gRNA scaffolds for mammalian genome engineering and molecular recording - @jshendure.bsky.social @troymcdiarmid.bsky.social @uwgenome.bsky.social go.nature.com/49eTPCu
🌍Open call: Junior Group Leader positions!
Join a world-class biomedical research institute at the heart of the Vienna BioCenter, where curiosity drives discovery.
Lead your own lab, pursue bold ideas, and shape the future of science at the IMP: www.imp.ac.at/career/open-...
I take this example from @ceronifranci.bsky.social to highlight that we, at CSH Protocols, are also always interested in review articles like this, centered around techniques.
So, if you have an idea, let's talk!
www.sciencedirect.com/science/arti...
Transcriptional interferences ensure one olfactory receptor per ant neuron
www.nature.com/articles/s41...
Caviar for RNA-Seq nerds! Check this out
I am proud to be a member of the #ISSCR2026 Program Committee and to have helped develop the outstanding program, taking place in Montréal, Canada on 8-11 July 2026. Register to hear the excellent science presented! invt.io/1bxbi6gtbsl @isscr.org
