Jüri Reimand
@reimand.bsky.social
Computational biology, cancer research. assoc prof at University of Toronto, PI at OICR. Opinions my own. 🇨🇦🇪🇪
⚠️ new preprint: Chromatin accessibility of primary cancers informs regional mutagenesis in metastases through multi-scale deep learning. led by @hanlijiang13.bsky.social @moleculargenetics.bsky.social @oicr.on.ca www.biorxiv.org/content/10.6... [1/3]
biorxiv.org
OICR is hiring a junior/mid comp.bio PI! Interests include AI/ML for cancer biology, digital pathology, variant effects, drug target discovery, perturbation modeling, cancer evolution, +more. Come join the excellent research ecosystem of the UToronto discovery district. oicr.bamboohr.com/careers/442
Early Career or Mid-Career Principal Investigator
About OICR OICR is Ontario’s cancer research institute. We bring together people from across the province and around the world to improve the lives of everyone affected by cancer. We take on the big...
oicr.bamboohr.com
Enjoyed this recent review/perspective: many somatic mutations are already present in normal tissues, shifting attention from driver mutations to non-mutagenic promoters of oncogenesis. Also wild that it took 3 years from submission to publication. nature.com/articles/s41586-026-10386-x
Tumour promotion through the lens of evolution - Nature
This Review revisits tumour initiation and promotion in light of clonal diversity and the presence of cancer driver mutations in normal tissues, aiming to understand mechanisms that enable environment...
nature.com
New preprint from our lab out "Pairwise genomic alterations identify prognostic tumor states in multiple cancer types". Most genomic models of cancer prognosis focus on single alterations. Here, we asked what can be learned from combinations of events [1/4] doi.org/10.64898/202...
doi.org
New preprint from our lab "Therapy-associated mutagenesis at CTCF binding sites is shaped by chromatin context and DNA repair capacity" led by @cclkevin.bsky.social. This work asks how genotoxic cancer therapies shape mutations at regulatory elements in cancer genomes [1/3] doi.org/10.64898/202...
doi.org
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...
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...
nature.com
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...
biorxiv.org
First I'm hearing of DOPRA, love it! "Denial of peer review attack" concept by @lpachter.bsky.social
Berna Devezer@devezer.bsky.social · 7mo agoevery big data paper with a bold story that is impossible to comprehend, evaluate, and independently verify reminds me of DOPRA. i've come to increasingly appreciate small, unassuming papers with humble conclusions that you can track word for word, data point by data point, assumption by assumption.
New preprint from the lab: medrxiv.org/cgi/content/... . HNY2026!
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...
medrxiv.org
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 👇
Merry Christmas, genetic interaction nerds: www.biorxiv.org/content/10.6...
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...
biorxiv.org
🧬 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
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 ...
oicr.on.ca
⚠️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]
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...
nature.com
Better DNA repair machinery protects one of the largest mammals from cancer: www.nature.com/articles/s41... 🐋
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...
nature.com
Fantastic opportunity at The Hospital for Sick Children. Please repost. www.nature.com/naturecareer...
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.
nature.com
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...
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.
nature.com
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/...
Cancer genomic alterations and microenvironmental features encode synergistic interactions with disease outcomes
Abstract. Oncogenesis, tumor progression and therapy response are shaped by somatic alterations in the cancer genome and features of the tumor immune microenvironment (TME). How interactions between t...
aacrjournals.org
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/...
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
doi.org
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
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
GitHub - reimandlab/ActivePathways: Integrative pathway enrichment analysis of multivariate omics data
Integrative pathway enrichment analysis of multivariate omics data - reimandlab/ActivePathways
github.com
meticulously delve into intricate this
Science Magazine@science.org · last yr.The appearance of large language models caused a drastic shift in the vocabulary of academic writing, according to an analysis in #ScienceAdvances of more than 15 million biomedical abstracts published from 2010 to 2024. scim.ag/3IhpoQF
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...
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...
cell.com
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...
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.
nature.com
Very happy to have contributed to this comprehensive study on myelin–axon interface vulnerability in Alzheimer’s disease by @yifeicai.bsky.social @jgrutzendler.bsky.social. @mslob95 led our integrative pathway analyses. All started from a brief posterside chat at CSHL www.nature.com/articles/s41...
Myelin–axon interface vulnerability in Alzheimer’s disease revealed by subcellular proteomics and imaging of human and mouse brain - Nature Neuroscience
In Alzheimer’s disease (AD), disruptions in myelin and axonal structures occur, although the underlying mechanisms remain unclear. Here the authors show that, at the myelin–axon interface, axon–glial ...
nature.com
very happy to have contributed to this collaboration with the Taylor lab - with integrative pathway analyses & rich network visualizations led by our PhD student @abahcheli.bsky.social
Nature Cell Biology@natcellbio.nature.com · last yr.💫NEW: Taylor & co report that the presence of leptomeningeal metastatic #tumor cells leads to the recruitment and remodeling of #fibroblasts, which, in turn, facilitate the colonization and outgrowth of #medulloblastoma cells in the leptomeninges. bit.ly/3ESVYac
“Recruiting U.S. scientists is a fine idea – except we’re barely supporting Canadian scientists as it is” https://www.theglobeandmail.com/gift/aaa9fec50b2b595cc0291494fc97e4bd10e7d6945d5c457e0bfa75d42846a705/4FRDBEKLNFESVJ3ZILAS36KR7Y
George R. R. Martin on @biorxiv-evobio.bsky.social!
a man with a beard wearing a hat and glasses says ' hahahahahah ' on the screen
ALT: a man with a beard wearing a hat and glasses says ' hahahahahah ' on the screen
media.tenor.com
bioRxiv Evolutionary Biology@biorxiv-evobio.bsky.social · last yr.On the ancestry and evolution of the extinct dire wolf https://www.biorxiv.org/content/10.1101/2025.04.09.647074v1
