Jüri Reimand

Ancestry and somatic profile indicate acral melanoma origin and prognosis - Nature Analysis of the somatic and transcriptomic profile of 123 acral melanoma samples from Mexican patients helps understand tumour origins and prognosis, and highlights the importance of including samples...

We are very happy to see our study finally appear online @nature.com! This has been work of nearly 10 years in collaboration with the National Institute of Genome Medicine 🇲🇽, the National Cancer Institute 🇲🇽, the @sangerinstitute.bsky.social and others ⬇️

www.nature.com/articles/s41...

rwSNVs are enriched in cancer driver genes and pathways. For example, UV-associated rwSNVs at BRAF V600E are predicted to generate a PLK1 phosphorylation motif, adding a new layer to canonical MAPK activation. Congrats to our PhD student @jigsmishra.bsky.social on leading this study! @oicr.on.ca

Analyzing >11,000 cancer genomes and 144 classes of SLiMs, we identify motif-rewiring SNVs (rwSNVs) that create or disrupt signaling motifs or remove phosphoresidues. APOBEC, methylcytosine deamination, and UV light emerge as major drivers of rwSNVs.

Somatic mutational signatures describe where mutations come from 🧬. But do they shape how proteins function? In our new preprint, we show that mutational processes can systematically rewire cellular signaling networks by altering short linear motifs (SLiMs). Preprint: www.biorxiv.org/content/10.6...

First I'm hearing of DOPRA, love it! "Denial of peer review attack" concept by @lpachter.bsky.social

Genomic profiling implicates candidate genes and mutagenic pathways driving lung cancer recurrence Lung cancer remains the leading cause of cancer-related deaths worldwide, with tumor recurrence a major contributor to its high mortality. The genetic and molecular mechanisms of recurrence remain poo...

New preprint from the lab: medrxiv.org/cgi/content/... . HNY2026!

Finding the right balance of persistence and letting-it-go

Graduate school interview season is approaching.
After ~12 years of interviewing PhD and MD/PhD applicants, I’ve noticed some common interview mistakes that hold otherwise strong candidates back...
#GraduateSchool #PhDLife #MDPhD #GradSchoolTips #AcademicBluesky

👇

Functional modules predict cancer-relevant genetic interactions in mammalian cells Genetic interactions can reveal gene function and identify cancer-relevant synthetic lethals, but systematic mapping in human cells is constrained by inefficient reagents, vast combinatorial search sp...

Merry Christmas, genetic interaction nerds:

www.biorxiv.org/content/10.6...

Protein that unties tangled DNA linked to hotspots of cancer mutations - Ontario Institute for Cancer Research Research from the Ontario Institute for Cancer Research associated a chemotherapy-related cellular process with genetic mutations and used it to identify novel cancer driver alterations. New research ...

🧬 Protein that unties tangled DNA linked to hotspots of cancer mutations: Research from @reimand.bsky.social and his collaborators associated a chemotherapy-related cellular process with genetic mutations and used it to identify novel cancer driver alterations. https://bit.ly/4iMcV5B

Thank you: collaborators @wilson-md.bsky.social &lab for epigenomics experiments, topoisomerase insights; @danielschramek.bsky.social &lab for functional genomics; @MamathaBhat3 &lab for liver cancer expertise. For funding @oicr.on.ca CIHR TFRI, and to patients for tumor samples in PCAWG, HMF. [7/7]

Overall, the study reveals how genome structure, DNA repair, and even chemotherapy shape where cancers begin -- and opens the door to finding many more hidden regulatory drivers. [6/7]

Using CRISPR in mouse models and human cells, we showed that mutations at this RMRP element can accelerate tumour growth, confirming it as a true non-coding driver. [5/7]

Focusing on these regions helped us discover new non-coding driver mutations, including a key regulatory hotspot at the RMRP non-coding RNA gene. [4/7]

These mutation-prone sites often sit at busy regulatory hubs where the genome folds and loops, and might affect gene regulatory circuits. They’re also might be sensitive to common chemotherapy drugs that inadvertently target TOP2B. [3/7]

By combining TOP2B maps with 6,500 whole cancer genomes, we found that this enzyme marks genomic fault lines -- places where small mutations (SNVs, indels) and structural variants (CNAs, translocations) tend to pile up. [2/7]

Topoisomerase IIb binding delineates localized mutational processes and driver mutations in cancer genomes - Nature Communications Topoisomerases resolve topological DNA stress via double-strand breaks and are established targets of cancer chemotherapies. Here, the authors link genomic binding of TOP2B with localized mutational p...

⚠️New study: we mapped DNA-binding of topoisomerase TOP2B in cancer, uncovering surprising hotspots of DNA damage. TOP2B, normally essential for DNA stress relief, can act as a double-edged sword. co-led by @LiisUuskula @ChristianLee, out now @natcomms.nature.com www.nature.com/articles/s41... [1/7]

Evidence for improved DNA repair in long-lived bowhead whale - Nature Analysis of the longest-lived mammal, the bowhead whale, reveals an improved ability to repair DNA breaks, mediated by high levels of cold-inducible RNA-binding protein.  &nbs...

Better DNA repair machinery protects one of the largest mammals from cancer: www.nature.com/articles/s41... 🐋

SCIENTIST – Developmental, Stem Cell & Cancer Biology Program - Toronto (City), Ontario (CA) job with The Hospital for Sick Children - Developmental & 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.

Fantastic opportunity at The Hospital for Sick Children. Please repost. www.nature.com/naturecareer...

made my first meme to celebrate the never-boring pathway to publication. #PIlyfe #openaccess

Fluid shear stress activates a targetable mechano-metastatic cascade to promote medulloblastoma metastasis - Nature Biomedical Engineering Fluid shear stress plays a role in medulloblastoma metastasis through a PIEZO2-actomyosin-GLUT1 signalling cascade.

Excited to see this study led by Nick Min & Xi Huang published this week and grateful for a decade of collaborations : www.nature.com/articles/s41...

The PACIFIC method is available on github: github.com/reimandlab/P...

Congrats to our PhD student Masroor Bayati for his first-author publication out this week. We developed a computational method to map synergistic interactions in omics datasets and studied prognostic signals of co-occurring cancer driver alterations and TME features. aacrjournals.org/mcr/article/...

Scientists no Longer Find Twitter Professionally Useful, and have Switched to Bluesky Synopsis. Social media has become widely used by the scientific community for a variety of professional uses, including networking and public outreach. For

Hey everybody! @drjuliawester.bsky.social and I have a new paper!

We surveyed over 800 scientists, science communicators, and science educators who use social media.

Conclusion: Scientists no longer find Twitter useful or pleasant, and many have switched to Bluesky! 🧪🌎🦑

doi.org/10.1093/icb/...

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.

A resource of RNA-binding protein motifs across eukaryotes reveals evolutionary dynamics and gene-regulatory function go.nature.com/4mc1SmQ

GitHub - reimandlab/ActivePathways: Integrative pathway enrichment analysis of multivariate omics data Integrative pathway enrichment analysis of multivariate omics data - reimandlab/ActivePathways

We released a new version of ActivePathways for directional integration of multiomics datasets. V2.0.6 includes methods to compare directional & non-directional analyses to find candidate genes & pathways lost or gained when directionality is accounted for: github.com/reimandlab/A... led by @mslob95

www.nature.com/articles/s41...

meticulously delve into intricate this

Therapeutic radiation drives leptomeningeal dissemination of medulloblastoma through an innate immune process Radiation, the most effective treatment for medulloblastoma, induces an innate immune response and opens the blood-brain barrier, allowing for the intravasation of tumor cells into the blood circulati...

Another great collaboration with Carolina Nor & Michael Taylor: Therapeutic radiation drives leptomeningeal dissemination of medulloblastoma through an innate immune process. @abahcheli.bsky.social led our omics integration via pathway analyses. @cp-devcell.bsky.social www.cell.com/developmenta...

Transparent peer review to be extended to all of Nature’s research papers From today, all new submissions to Nature that are published will be accompanied by referees’ reports and author responses — to illuminate the process of producing rigorous science.

From today, every paper submitted to Nature -if published - will be accompanied by peer reviewers comments & authors rebuttal.

We started the trial in 2020; we now want to open up the review process & showcase its role in shaping & improving papers
🧪 #AcademicSky

www.nature.com/articles/d41...