Franco Izzo

GoT-ChA! I am thrilled to announce that our paper "Mapping Genotypes to Chromatin Accessibility Profiles in Single Cells" is now out in @Nature !! 👩‍🔬👨‍🔬🧬If you want to link somatic mutations to epigenetic changes directly in patient samples: nature.com/articles/s4158… 👇🧵

NYC area folks interested in myelodysplastic syndromes (MDS), please join July 1st for the @MSKCancerCenter & @Columbia Edward P. Evans MDS Centers Symposium July 1st. Speakers include @iannisaifantis1, @CalebLareau, @SKousteni, @Halene_lab, @rosslevinemd ! Register below:

Some great news to announce: a first “save the date” for our 2027 Heme Malignancies @Fusion_Conf Nov 01-04 in Mexico!! Already an impressive line up of speakers headed by @rosslevinemd and Elaine Mardis. Co-organized by @AkEisfeld and @sanamloghavi !! Mark your calendars! fusion-conferences.com/conference/210

‼️Join us in Frankfurt this August for the 5th hPSC-hematopoiesis symposium (and legendary rooftop party! 🎉) at the @ISEHSociety #ISEH2026 meeting. You can now register and submit your abstracts for a short talk👇@Doulatov_lab @Dr_Sturgeon

Now online in @CD_AACR: The Evolution of Polyclonal Competition in Aging Hematopoiesis - by Nathaniel Mon Père, @fterenzi_, and @BenjaminWerner_ doi.org/10.1158/2159-8… @QMBCI

Excited to share our RegVelo paper in Cell cell.com/cell/fulltext/… We unify RNA velocity + GRNs into one model → better OOD prediction of perturbations (e.g. gene KOs), with examples incl. neural crest KO predictions 🔬 Big thanks to W Wang, Z Hu & T Sauka-Spengler 🙏

Our recent @CellCellPress study with @ChrisAWalsh1 lab on somatic mutations in microglia of AD brains highlighted in @NatureAging nature.com/articles/s4358…

Excited to present the first pre-print from our group, an investigation the human bone marrow microenvironments in patients with myelodysplastic syndromes (MDS) and normal age-matched subjects using Xenium genotype-informed spatial transcriptomics: biorxiv.org/content/10.648…

Genomics just hit its “foundation model” moment. AlphaGenome now predicts thousands of molecular effects from 1Mb DNA sequences at single-base resolution [1]. Pair that with UK Biobank’s 490,640 whole genomes and AI is no longer just speeding analysis it’s changing what questions researchers can ask 🧬 Industry noticed. Illumina and NVIDIA are combining sequencing, multiomics and accelerated AI to push drug discovery and clinical research forward [2]. The edge will go to teams that can connect wet labs, compute and interpretable models ⚙️ The challenge: don’t treat ML as magic. Treat genomic data quality, diversity and governance as core infrastructure or the benefits will concentrate in a few regions and companies. 🤔 Where do you think the real bottleneck is now: better models, better data, or better trust? [1] [nature.com/articles/s4158…](nature.com/articles/s4158…) [2] [illumina.com/company/news-c…) [3] [genome.gov/about-genomics…](genome.gov/about-genomics…) #Genomics #MachineLearning #BioAI #PrecisionMedicine

Excited to share a new preprint from the lab led by @LukeKoblan and @WilliamNColgan in which we describe our efforts to define a quantitative cell fate map of mouse embryogenesis! biorxiv.org/content/10.648…

If you want to know what 3′UTRs with long conserved sequence stretches do, check out our BioRxiv preprint doi.org/10.64898/2026.…. They form functional intermolecular 3′UTR-3′UTR interactions that enable co-folding of proteins to rapidly induce transcriptional programs.

Excited to share our Nature Genetics Research Briefing on how the repetitive genome helps shape leukemia stemness. We found that transposable elements sustain stem-like states in AML and predict patient outcomes. nature.com/articles/s4158…

Great science and discussions at the HSC and MDS symposium by Simona Colla @MD Anderson Cancer Center.

1/ Preprint alert 🚨🚨🚨 How do cells decide where an mRNA should end? And how is that decision coordinated with splicing and transcription while the RNA is still being made? Here's what first author @HopeMerens found 👇

Excited to share our @natgenet.nature.com study showing that epigenetically rewired transposable elements control AML leukemia stem cell properties and patient outcome. Grateful to the team & collaborators. nature.com/articles/s4158…

Looking forward to the 3rd annual MDACC MDS symposium organized by the amazing @CollaSimona and to welcoming the MDS community to Houston. The line of speakers and the program are simply spectacular 💫 mdanderson.cloud-cme.com/course/courseo…

Very nice CH review series in Hematologica. haematologica.org/issue/view/459

🚨 Excited to share a new paper in Cell! Human genetics led us to HOTSCRAMBL, a HOXA-locus lncRNA that regulates 🩸#stemcell self-renewal and HOXA9 splicing, with implications for AML. Amazing work by @lvchosen1 with @silvirouskin, @Armstrong_dfci, and many more! cell.com/cell/fulltext/…

Excited to share our discovery of a new programmable RNA-guided DNA-targeting system hiding inside bacteriophages that predates CRISPR. We call it VIPR (Viral Interference Programmable Repeat), and it uses an entirely new logic to find its targets. Thread + link below.

Excited to share our collaborative study w Chris Walsh, August Huang, Alice Lee, Samuele Marro out today in @CellCellPress. sciencedirect.com/science/articl… @IcahnMountSinai @TischCancer @CDRBSinai

Interested in single cell genomics but need help getting started? Come to my lab's 10th (!) Single Cell Genomics Day on 6/12 Talks include Aviv Regev @anshulkundaje @junyue_cao @xinjin + (many) more + @ATJCagan illustrations! Free Youtube livestream at satijalab.org/scgd