Just released nature: slide-DNA-seq, our new method for spatial DNA sequencing in tissues 🧬 Excited to add a genetic dimension to the rapidly expanding spatial toolbox with the tech dev superteam of Tongtong Zhao, Jason Buenrostro & Fei Chen Lab (1/6) nature.com/articles/s4158…

Just published! We proudly present "Hallmarks of Cancer: New Dimensions" by Douglas Hanahan, the third update to the seminal series. bit.ly/3GkSqZK Ludwig Cancer

Ever wondered about the source of stochastic #single_cell epigenetic and transcriptional heterogeneity in #cancer? In back-to-back ⁦bioRxiv⁩ from us and the Pellman lab we identify #chromosomal_instability as a source of epigenetic/transcriptional dysregulation

We find no evidence for clustering of, or supercharged transcription from, ecDNA in glioblastoma. MRC_HGU ECAT (Edinburgh Clinical Academic Track) Pollard Lab Institute of Genetics and Cancer biorxiv.org/content/10.110…

🔥OUT TODAY: clusters of #mutations identified as a major driver of tumour evolution. New Cancer Grand Challenges research published today in nature also joins the dots between ecDNA and APOBEC3, coining the team ‘kyklonas’ where they occur together. Learn more: bit.ly/3GCEjyc

Mechanical regulation of chromatin and transcription go.nature.com/3LCObdZ #Review by Sirio Dupont Università di Padova & Wickstrom-Lab University of Helsinki MPI Molecular Biomedicine

Chromosomal INstability causes chaotic cancer genomes. Making sense of this chaos was hard. Come sit around the fire and listen to our tale of The #17DeadlyCINs a gripping epic of mechanisms of CIN, therapy response prediction and drug target discovery nature.com/articles/s4158… 1/

Online now nature, our lab’s latest paper showing that cells with a chromosomal instability (CIN) phenotype rely on cGAS-STING signaling for survival and that this can be exploited to selectively kill cancers with CIN Research UMCG ERIBA (1/15). nature.com/articles/s4158…

Extrachromosomal DNA (ecDNA) are small rings of DNA that help tumours evolve and evade treatment. The eDyNAmiC team will look at ways to interfere with ecDNA, slow down tumour development & ultimately bring hope to patients whose cancers have become resistant to treatment. 4/6

Over the years, the lab and I have come up with various materials for science process (writing, presenting, reviewing, etc.). Here they are, loosely organized in a Google Doc. Hope it is useful! docs.google.com/document/d/1jB…

Extrachromosomal DNA amplifications in cancer have unique properties and functions. We summarized current knowledge and identified therapeutic opportunities in Nature Reviews Genetics; rdcu.be/cTsZd thanks to co-authors Eunhee Yi @RoChamorro1 and Anton Henssen

How do the #genome, #epigenome and #transcriptome co-evolve in colorectal #cancer? In the second of two papers in @nature, we find gene expr is not strongly heritable & evaluate "driverness" of muts directly in patient tumours nature.com/articles/s4158… Andrea Sottoriva #EPICC2 1/7

It's been great meeting with postdocs about the faculty position application process! Put together some collected thoughts on the process here. Main thing I've noticed: work on describing your research and *why it's important*. Concrete examples within. docs.google.com/document/d/1Ye…

9 new #CancerGrandChallenges 📢 We're inviting international teams to apply for up to $25m in funding. Expressions of Interest are now open until 22 June. Explore the challenges⏬ cancergrandchallenges.org/new-challenges…

So when does ecDNA arise, exactly? Our study on #ecDNA and the transformation of pre-cancerous Barrett’s esophagus into cancer is out today. This collaboration brought together @Team_eDyNAmiC, Rebecca Fitzgerald Lab and the @FredHutch Seattle Barrett’s Study.🧵 nature.com/articles/s4158…

1/n Cancer researchers are familiar with focal copy number alterations containing oncogenes--but how do they arise in the first place? In our paper out today, we describe a new model that we named "translocation-bridge amplification" nature.com/articles/s4158…

Another newly minted PhD from the DGlab. Congrats Dr. Daniel Muliaditan Daniel Muliaditan!! It's been awesome working with you!

ecDNA in #PancreaticCancer! Perfectly timed preprint with #AACRPan23 from Pancreas Verona: ecDNA amplification of MYC drives intratumor copy-number heterogeneity and adaptation to stress in PDAC. biorxiv.org/content/10.110…

Excited to announce the SpACE-Dx joint lab with Nanostring and Next Level Genomics that'll focus on the development & discovery of novel biomarkers & therapeutic targets using spatial multiomics for early interventions/screening strategies. #spatialbiology investors.nanostring.com/news/news-deta…

Our preprint on AmpliconSuite and its companion site AmpliconRepository.org is out! High copy amps in cancer genomes take many forms - including #ecDNA. Want to ID them in your own samples? Browse prior analyses like CCLE, PCAWG, TCGA? Take a look👇 biorxiv.org/content/10.110…