Honggui Wu
@Wu_Honggui
Postdoc in Feng Zhang lab @BroadInstitute. Graduated from Sunney Xie Lab at Peking University.
WHY DOES THE EPIGENETIC CLOCK TICK? While money has been poured into developing therapies to reverse the epigenetic clock (@altos_labs 🤑), why the epigenome changes with age at all is unclear. In @NatureAging today, we suggest a potential driver: somatic mutations.
Have you ever wondered how your back formed? The human embryo makes a neural tube (future spinal cord) and somites (trunk muscle/bone) from ~d20. They’re formed at the same time and place, so we used human Trunk-like Structures (hTLS) to investigate their ‘co-development’… (1/7)
Spatial methylome + transcriptome.
Spatial joint profiling of DNA methylome and transcriptome in mammalian tissues biorxiv.org/content/10.110… #biorxiv_genomic
Our scMicro-C paper is out in @NatureGenet! Huge thanks to the reviewers for their valuable insights, to @XieSunney for unwavering support, and to fantastic collaborators @JiankunZhang21 & @tanlongzhi. Thrilled to share this work!
Very excited to share our work on high-resolution single-cell Micro-C, which is on bioRxiv now. Here we reveal that cohesin-mediated loop extrusion participates in transcription with kilobase-resolution single-cell 3D structures. biorxiv.org/content/10.110…
Ironman. Maternal iron deficiency causes male-to-female sex reversal in mouse embryos nature.com/articles/s4158… @Nature
In @nature we describe the use of scalable #proteinengineering & #machinelearning to predict millions of bespoke CRISPR-Cas9 enzymes, offering safer & more genome editing tools. 🧬🖥️ @RachelSilvers11 @CGM_MGH @MGH_RI @MassGeneralNews @harvardmed nature.com/articles/s4158…
🔥🔥🔥OUR NEW PREPRINT: Slowing and reversing aging? Nature does it, here we show how! Age deceleration and reversal gene patterns in dauer diapause. Huge congrats to Kristy Totska, João Barata, Walter Sandt and @Meyer_DH biorxiv.org/content/10.110…
Introducing RAEFISH, our lab's new flagship image-based spatial transcriptomics technology that simultaneously enables single-molecule spatial resolution and whole-genome level coverage of long and short, endogenous and engineered RNA species in cell cultures and intact tissues.
We are excited to report the discovery of TIGRs, a widely-occurring RNA-guided system found in bacteria and their viruses. TIGRs consist of a peculiar repeat region which is transcribed into RNA and processed into multiple guide RNAs to direct TIGR-associated proteins to their…
Sequencing by Expansion (SBX) -- a novel, high-throughput single-molecule sequencing technology biorxiv.org/content/10.110… #biorxiv_genomic
Did you know cancer cells can be electrically active, just like neurons? This electrical activity plays a key role in tumor progression. Excited to share my first postdoc paper at @TheCrick (and first paper from @LiGroup_Crick), published in @Nature! nature.com/articles/s4158…
New #preprint from our lab at @IMBA_Vienna ! How do DNA breaks locate homology sites in the vast space of the human genome? We show how #cohesin guides homology search for faithful repair! Read more 👉 tinyurl.com/DSBcohesin Follow along for key insights! 🧵1/12
.@LanJiangBoston and colleagues developed droplet-based UDA-seq by incorporating a post-indexing step into two-round combinatorial indexing, enhancing throughput for large-scale single-cell analysis. nature.com/articles/s4159…
Congratulations!
After my first public report at the Double Helix 70’s celebration (bit.ly/4iONi3M) on Oct 2023 and a bioRxiv on June 2024, FOOtprinting by dsDNA DeamInasE (FOODIE), the major effort of my CPL/PKU group, delayed by the pandemic, has been yearmarked by today issue of PNAS…
A foundation model for enzyme retrieval and function prediction is released. EnzymeCAGE is trained on ~1M enzyme-reaction pairs via CLIP, and can be used to annotate unseen enzymes or orphan reactions. We open-source it before releasing the manuscript: github.com/GENTEL-lab/Enz…
1/ 🚨New paper on ecDNAs from our lab! We reveal a strategy to engineer extrachromosomal DNA (ecDNA) amplifications in cells & mice. Let's dive in! 🧵👇 nature.com/articles/s4158…
The discovery of 5mC-selective deaminases and their application to ultra-sensitive direct sequencing of methylated sites at base ... biorxiv.org/cgi/content/sh… #biorxiv_genomic