Matt Jones
Incoming Assistant Professor @ MIT Biology, Koch Institute, and Institute for Medical Engineering and Science. Single-cell advisor to Vevo Therapeutics. Lineage tracing & cancer evolution. Website: thejoneslaboratory.com
- Reposted by Matt JonesThe @ragoninstitute.bsky.social is launching a new faculty search for a computational immunologist! Applications are open now and reviewed on a rolling basis. Please share broadly with your networks! #immunosky www.nature.com/naturecareer...
- Just about one more week to apply for our tenure-track opening in IMES at MIT! Come start your group in an outstanding community at MIT at the interface of medicine and engineering: faculty-searches.mit.edu/imes-search/
- Reposted by Matt JonesOur paper is out in @nature.com! Oncogenes are often copy-number amplified on extrachromosomal DNA (ecDNA) in cancer, but how is ecDNA inherited by dividing cells? Here we identified elements within ecDNA that promote its retention in dividing cells. 1/11 www.nature.com/articles/s41...
- Delighted to share our new study in @natcellbio.nature.com showing that the unique epigenetic landscape of ecDNA can enable the oncogenic enhancer activation of transposable elements! This was a great collaboration with @katerinakraft.bsky.social and @sedonamurphy.bsky.social. tinyurl.com/mwfbu4w4
- This was a fun project that started on the first day of my postdoc as I chatted with @katerinakraft.bsky.social over coffee. Thanks to our advisors - Howard Chang and Paul Mischel - and the support of Team eDyNAmiC through @cancergrand.bsky.social for helping us push it across the finish line.
- Looking forward, I am launching my lab in the @mitkochinstitute.bsky.social and IMES at @mit.edu, and will continue studying how the unique regulatory landscape of ecDNA enables tumor evolution. We're looking for creative scientists to push this frontier - if you're interested, get in touch!
- Reposted by Matt JonesHere, we show that the unique regulatory landscape of ecDNA enables an ancient LINE to resurrect and act as an enhancer of Myc. This was so fun with @katerinakraft.bsky.social and @mattjones.bsky.social and others. www.nature.com/articles/s41...
- Reposted by Matt JonesOur publication is out today!Big Thanks go to my amazing collaborators: @sedonamurphy.bsky.social for her imaging brilliance and @mattjones.bsky.social for his computational support.They both saw the potential in this project and helped me to explore what turned out to be an exciting discovery.
- Here, we show that the unique regulatory landscape of ecDNA enables an ancient LINE to resurrect and act as an enhancer of Myc. This was so fun with @katerinakraft.bsky.social and @mattjones.bsky.social and others. www.nature.com/articles/s41...
- Reposted by Matt JonesWe are looking for a postdoc to study single-cell transcriptional heterogeneity in the human skin microbiome. We have a new protocol mostly developed, but need someone to see it through. Experience with protocol dev or RNAseq appreciated. Funded by a new grant from MIT-HEALS.
- Reposted by Matt JonesI’m thrilled to share that I’m joining the faculty at the Stanford University School of Medicine. My lab and I will be relocating to Stanford this summer!
- Reposted by Matt JonesOut @nature.com: Clonal tracing with somatic epimutations 🧬 Single cell methylome encodes cell state & clonal identity 🔨 EPI-Clone reads out both (+mutations, +RNA) at scale 🩸 Clonal expansions of HSCs are universal from age 50, not driven by CH mutations doi.org/10.1038/s415... 🧵
- Reposted by Matt JonesOur work on lineage tracing with somatic epimutations is finally out in @nature.com! Check out the thread by @larsplus.bsky.social below. EPI-clone is a revolutionary technique for lineage tracing and it will immediately impact how we trace clones everywhere. Detailed protocols coming out soon!
- Out @nature.com: Clonal tracing with somatic epimutations 🧬 Single cell methylome encodes cell state & clonal identity 🔨 EPI-Clone reads out both (+mutations, +RNA) at scale 🩸 Clonal expansions of HSCs are universal from age 50, not driven by CH mutations doi.org/10.1038/s415... 🧵
- Reposted by Matt JonesA lot of fun teaming up with Hsin and Howard on this, with key contributions from @ruochiz.bsky.social, @zchiang.bsky.social, and @jbuenrostro.bsky.social on the tech dev and @mattjones.bsky.social, Natasha Weiser, and Paul Mischel on the ecDNA analysis. (5/5)
- Reposted by Matt JonesI am elated to share that our manuscript describing Variant-EFFECTS, a high-throughput technology we developed to precisely and quantitatively measure the effects of CRISPR-mediated edits on gene expression, is now published at @cellpress.bsky.social: authors.elsevier.com/c/1kxgiL7PXu...
- Reposted by Matt JonesDelighted to have our Perturb-multiome paper, led by #JorgeMartinRufino and @hemagene.bsky.social from our lab, published today in @science.org. Please check out this powerful approach to decipher gene regulatory networks enriched for genetic variation: www.science.org/doi/10.1126/...
- Reposted by Matt Jones@thejohnnyyu.bsky.social, @therealnima.bsky.social, and I, are excited to tell you about Tahoe-100M! The largest publicly available single-cell dataset that measures the effect of 1200 genes on 50 cell line models. The Vevo team has outdone itself. #Tahoe100M www.biorxiv.org/content/10.1...
- Reposted by Matt JonesQuantification of developmental processes (here early Danio rerio development) with our novel Bayesian phylogenetic methodology - leveraging single cell lineage tracing data based on CRISPR/Cas9 technology royalsocietypublishing.org/doi/10.1098/... Antoine Zwaans @seidels.bsky.social Marc Manceau
- Reposted by Matt JonesVery excited to share the stellar speaker line-up at our ecDNA conference this June in London! 👇 If you're interested in #ecDNA and want to hear or present groundbreaking research, register now. Abstract submission deadline is 14 March. Learn more: www.cancergrandchallenges.org/ecDNA-2025
- Delighted to be presenting a webinar with Curio next Wed 2/19 on our recent work describing a spatially-resolved lineage-tracing technology and its application to the KP model of lung adenocarcinoma. Register here: hubs.ly/Q035NKqd0, and find our preprint here: www.biorxiv.org/content/10.1...
- Reposted by Matt JonesIt’s been a tough few weeks. My 10yo daughter was diagnosed with a very rare, aggressive cancer called interdigitating dendritic cell sarcoma (IDCS). I’m reaching out to identify clinicians/patients who have encountered pediatric IDCS or other (non-LCH) dendritic or histiocytic sarcomas cases.
- Reposted by Matt JonesI've started a list of people working on #cancer #evolution. Many more to be added, so do let me know if that is you. Also if you would like to be removed. go.bsky.app/QuAF4Moat://did:plc:qbstqqtoqaopnbxhikzvkq3r/app.bsky.graph.starterpack/3laqqxge43f25
- Reposted by Matt JonesGetting in on the starter pack game for folks focusing on studying tumor-immune interactions during metastasis — DM/comment if you want to be added! go.bsky.app/GyZxUDHat://did:plc:bli7nmcehdytjynwlujo7unw/app.bsky.graph.starterpack/3lbi3nxyzzi24
- Reposted by Matt JonesThrilled to share our latest work on cutaneous T cell lymphoma. Check it out👇🏼 www.nature.com/articles/s41...
- Reposted by Matt JonesCancer Immunology: bsky.app/starter-pack... A repertoire of immunologists II: bsky.app/starter-pack... Immunometabolism: bsky.app/starter-pack... Immunoengineering: bsky.app/starter-pack... A repertoire of immunologists: bsky.app/starter-pack...at://did:plc:qyujkew4stld75zfscfvpaqu/app.bsky.graph.starterpack/3lb52qbgkrc2w
- Reposted by Matt JonesThe latest from our group, led by Megan Ostrowski and @martyyang.bsky.social, is now published in final form (www.cell.com/cell/fulltex...! Many thanks to our excellent peer reviewers for suggesting several experiments (including CAF-1 perturbation) to really improve the study =) #epigenetics
- Reposted by Matt JonesRegistration now for the 2025 Cancer Genetics and Epigenetics GRC, a premier event for you to dive into groundbreaking research and network with leading experts in the field. 📅 Date: May 18-23, 2025 📍 Venue: Tuscany, Italy 🔗 Apply Now: www.grc.org/cancer-genet...
- Reposted by Matt Jonesat://did:plc:7ylcctguchtf7m5nyccopvsu/app.bsky.graph.starterpack/3lajrl3wone22
