We know little about proteins required for long-range compartment 3D interactions, but this @kyleeagen.bsky.social lab preprint shows that NSD3 can make Mb-scale long-range compartment-like interactions: www.biorxiv.org/content/10.6...
Rhys Allan
@rhyscienceallan.bsky.social
Scientist at WEHI research, fascinated by the DNA circuitry of the immune system https://www.wehi.edu.au/researcher/rhys-allan/
Priscillia Lhoumaud and I were very happy to write a N&V for a monster paper about intriguing DNMT1 biology by @mafdawson.bsky.social and co, just out in @natgenet.nature.com . Check it out here (and the actual paper in the next post) (1/2) www.nature.com/articles/s41...
SUMOylation fine-tunes DNMT1 to silence viral mimicry transcripts - Nature Genetics
DNMT1 binds unmethylated CpG islands at active genes and, upon catalytic inhibition, redistributes to partially methylated, inaccessible regions, triggering viral mimicry via endogenous retroelements ...
nature.com
@mileshuseyin.bsky.social and the lab have put together a comprehensive protocol for genome-wide Micro-C and for Region-Capture Micro-C in @natprot.nature.com : www.nature.com/articles/s41... See also the GitHub for a user-friendly end-to-end computational pipeline: github.com/ahansenlab/M...
Nature Protocols@natprot.nature.com · 3w agoNew Article! Mapping 3D genome organization at nucleosome-scale with Micro-C and Region Capture Micro-C (RCMC)
Our July GOA speaker is @aachinger.bsky.social. Join us to hear her talk titled: 3D chromatin rewiring governs lineage identity in prostate cancer. Registration: unimelb.zoom.us/webinar/regi...
Introns have a hidden regulatory role! 🧬🎉 Delighted to share our latest paper showing that inefficiently spliced introns and spliceosomal proteins direct RNA methylation, engaging RNAi to silence retrotransposons and regulate gene expression nature.com/articles/s41...
bioRxiv alert! CoPhasing resolves haplotype-specific 3D chromatin structures from GAM data, revealing extensive structural heterogeneity between human homologous chromosomes and its interplay with histone modifications and gene expression! Thanks to all coauthors! www.biorxiv.org/content/10.6...
biorxiv.org
Following some amazing discussions with colleagues at EHA about our recent publication in @natcellbio.nature.com, here are some important points showing why considering HSC reconstitution kinetics will make you re-think the concept of lineage biases rdcu.be/fkASJ 1/9
Interested in hearing about mechanisms of cohesin-dependent vs. -independent enhancer regulation? @karissalhansen.bsky.social will be presenting her work **Tues June 23rd 8am CET** www.biorxiv.org/content/10.6... www.science.org/doi/10.1126/... Thank you @genome-org-aus.bsky.social ! 👇
GOA - Genome Organisation Australia@genome-org-aus.bsky.social · 2mo agoOnly one week to go until our next GOA seminar! @karissalhansen.bsky.social will present here work on the mechanisms of long-range enhancer-promoter communication. Registration link: unimelb.zoom.us/webinar/regi...
Only one week to go until our next GOA seminar! @karissalhansen.bsky.social will present here work on the mechanisms of long-range enhancer-promoter communication. Registration link: unimelb.zoom.us/webinar/regi...
🚨Preprint Drop🚨 We are very pleased to release our study on DNA methylation dynamics at enhancers during ESC differentiation! This work was led by Marlet Morales-Franco and Priscillia Lhoumaud 🧵(1/13) www.biorxiv.org/content/10.6...
Dual profiling of DNA modifications with enhancer features during the exit of naive pluripotency
Cis-regulatory elements, such as enhancers, play an essential role in coordinating gene expression programs during cellular transitions. As such, substantial efforts have been made to characterize enh...
biorxiv.org
Please join us for the next edition of the GOA monthly seminar series Dr Karissa Hansen Registration link: unimelb.zoom.us/webinar/regi...
We are over the moon! 🎈 Dr. Marieke Oudelaar joins the MPI-IE as a new #MaxPlanck Director, heading the newly established Department of Genome Biology She studies how the 3D folding of DNA controls gene expression – more details below ⬇️ Welcome to #Freiburg, @mariekeoudelaar.bsky.social!
Marieke Oudelaar becomes new Director at MPI-IE in Freiburg
ie-freiburg.mpg.de
📣 Preprint alert! We developed a method to analyze concurrent interactions between multiple chromatin regions at single alleles at sub-nucleosome resolution (multi-way Micro-Capture-C, mwMCC) & used this to study structural synergy within super-enhancers. 1/14 www.biorxiv.org/content/10.6...
Really pleased to see our latest research featured on ABC today 🎉. Our study mapped immune cells in the lungs of young children with CF and found inflammatory pathways linked to lung damage are present in early life, with some persisting despite breakthrough therapies www.abc.net.au/news/health/...
Early lung damage in kids with CF linked with immune cell changes
Australian researchers have mapped how lung damage may begin early in life for children with cystic fibrosis, providing new insights that may help reshape future care.
abc.net.au
Congrats to biomedical animator Dr Drew Berry on his induction as a Fellow of the Royal Society of Victoria, recognising his scientific contributions through captivating animations of the molecular and cellular world within our bodies. www.wehi.edu.au/news/royal-s... @drewberry.bsky.social
Out today - structure of the human HIRA histone chaperone complex bound to nucleosomes. Ever wondered how nucleosomes are assembled in the wake of transcription? It takes a 'hulk of a protein complex'. Work by the amazing Wei Tian weetian558.bsky.social. www.biorxiv.org/content/10.6... 🧵
Why can't we explain enhancer action despite 2 decades of chromosome conformation technologies? 😬 Our new study spearheaded by Leonid Mirny's group points to a flaw in our assumptions, and to a solution from physical principles By @timothyfoldes.bsky.social 💻& @karissalhansen.bsky.social 🧪 🧵👇
Please join us for the next edition of the GOA monthly seminar series Dr Matthew Romero Registration link: unimelb.zoom.us/webinar/regi...
Excited to share the final version of our paper with @ajithvasanthan.bsky.social @petermaccc.bsky.social on the gene we discovered, Dreg1 @elife.bsky.social Here we probe a novel knockout to identity a specific role for Dreg1 in group 2 ILC development elifesciences.org/articles/109...
(1/n) Super excited to share that our preprint is out today in @natsmb.nature.com with a new name "Integrated MINFLUX tracking reveals two distinct chromatin dynamics classes across cell types" and more than 2x more data: www.nature.com/articles/s41... See also MIT News news.mit.edu/2026/how-chr...
Anders Sejr Hansen@andersshansen.bsky.social · last yr.(1/n) Thread @matteomazzocca.bsky.social @domenicnarducci.bsky.social Simon Grosse-Holz @jessematthias.bsky.social preprint Q: how does chromatin move? Using MINFLUX, SPT & SRLCI, we track chromatin dynamics across 7 orders of magnitude in time to provide answers www.biorxiv.org/content/10.1...
Lorne Genome 2027 will be held 14 to 17th February in Lorne Australia. Our invited speakers will include Karen Arndt, Neil Brockdorff, Laura Banaszynski and Fides Zenk.
Almost time for the next edition of the GOA seminar! Join us to hear from A/Prof. R. Babak Faryabi!
GOA - Genome Organisation Australia@genome-org-aus.bsky.social · 4mo agoPlease join us for the next edition of the GOA monthly seminar series A/Prof. R. Babak Faryabi @faryabi.bsky.social! Registration link: unimelb.zoom.us/webinar/regi...
🧬🧬💥💥 I am excited to share a new preprint from our lab “Multi-omic gene regulatory networks informed by 3D chromatin architecture reveal insights into hematopoietic stem cell ageing”. www.biorxiv.org/content/10.6... This is a labour of love by Quinn Stacpoole as part of his PhD.
biorxiv.org
Modeling Dynamics, Cell Type Specificity, and Perturbations in Gene Regulatory Networks - www.annualreviews.org/content/jour...
Modeling Dynamics, Cell Type Specificity, and Perturbations in Gene Regulatory Networks
Gene regulatory networks (GRNs) define the regulatory relationships among molecules such as transcription factors, chromatin remodelers, and target genes. GRNs play a critical role in diverse biologic...
annualreviews.org
Check out our latest paper on the ubiquitination of glycogen in cells and tissues! Congratulations to Marco Jochem (@marcojochem.bsky.social) and Simon Cobbold for leading this study and to collaborators @craigagoodman1.bsky.social, @pgregorevic.bsky.social, Kai Hofmann and Thomas Hermanns.
Marco Jochem@marcojochem.bsky.social · 3mo agoInterested in non-proteinaceous ubiquitination, induced proximity or glycogen? Then you should have a look at our newest article, “Ubiquitination of glycogen and metabolites in cells and tissues”, just published in Nature: www.nature.com/articles/s41...
WEHI researchers have found glycogen can be directly regulated using ubiquitin, in landmark findings published in Nature. The study transforms understanding into glycogen metabolism & could lead to new treatments for diseases caused by abnormal sugar storage. www.wehi.edu.au/news/sweet-d... 🧵1/2
📖 The final version of our paper is out in press Cohesin cofactor dosage sets the rate of loop extrusion, rendering genome folding tunable yet vulnerable to genetic disruption authors.elsevier.com/a/1m%7EU03vV... or www.cell.com/molecular-ce...
Cohesin cofactor dosage sets the rate of loop extrusion, rendering genome folding tunable yet vulnerable to genetic disruption
Shah, Tortora, et al. show that cells can dial the rate of cohesin loop extrusion by balancing the relative dosage of NIPBL and PDS5. Their models provide a quantitative mechanistic basis for the gene...
cell.com
Elphege Nora Lab at UCSF@elphegenoralab.bsky.social · 12mo agoNew preprint with @gfudenberg.bsky.social We find the rate of cohesin loop extrusion in cells is set by NIPBL dosage and tunes many aspects of chromosome folding. This provides a molecular basis for NIPBL haploinsufficiency in humans. 🧵👇 www.biorxiv.org/content/10.1...
Excited to share our latest work in Nature. Applying single-molecule and single-cell DNA sequencing methods, we uncover an extraordinary landscape of somatic mutations in immune checkpoint genes in autoimmune B cells, suggesting that somatic mutations may be key to autoimmunity [1/n] rdcu.be/fdqbr
Polyclonal selection of immune checkpoint mutations in thyroid autoimmunity
Nature - Polyclonal selection of immune checkpoint mutations in thyroid autoimmunity
rdcu.be