Jia-Xing Yue (岳家兴)

It is great to have @petrovadmitri.bsky.social here at Sun Yat-sen University Cancer Center to give us an highly inspiring talk on “Fitness landscape of tumor suppressor genes in lung cancer ”. Tour de force experiments, mind blowing results, and exciting bench-to-bed perspectives!

First #SMBE meeting for our lab！Definitely a memorable experience. Already looking forward to the next one! @official-smbe.bsky.social #SMBE2025

Complex genetic variation in nearly complete human genomes - Nature Using sequencing and haplotype-resolved assembly of 65 diverse human genomes, complex regions including the major histocompatibility complex and centromeres are analysed.

Two papers in today's issue of @nature.com ‬: 1) we assemble 65 genomes to near completion, including centromeres and the MHC. tinyurl.com/3huhax6w. 2) we sequence 1,019 genomes from the 1kGP with long reads, revealing SVs down to low allele frequencies tinyurl.com/wbx3we9x.

Group photo with all oral speakers.

Prof. Dmitri Petrov delivering his talk.

Super honored to have chance to co-organize the #SMBE2025 Symposium on Experimental Evolution, together with @jingli-0512.bsky.social and Dao-Qiong Zheng. Thank @petrovadmitri.bsky.social for serving as our invited speaker. Also thank all the oral/poster presenters and audience. @OfficialSMBE

📣Our #SMBE 2025 Symposium (No. 3) on Experimental Evolution will be held today (7.22, Tuesday) at 10:30 in Room 4, Building No. 8. An associated poster session will be held at 14:00 (poster number: S3-P01~P16). Welcome to join! let's study evolution in action! 🥳 🎉 @official-smbe.bsky.social

📅 The day is today!

#SMBE2025 in Beijing starts now, as the registration desk opens to all participants.

Join us for five days full of the latest discoveries in molecular biology and evolution 🧬 We hope all attendees enjoy the many opportunities for discussion and networking among our community.

Gene regulatory networks and essential transcription factors for de novo-originated genes Nature Ecology & Evolution - A combination of computational methods applied to single-cell RNA sequencing data and genetic experiments shows that a small number of transcription factors are...

Our latest paper is out: rdcu.be/ev6Ym — one of my favorite projects. It began about 8 years ago when Nobel laureate Torsten Wiesel asked me: what transcription factors regulate new genes? I had no idea then. Now we have some answers.

Welcome to attend our SMBE2025 Symposium on Experimental Evolution. Co-organized by Dao-Qiong Zheng, @‪jingli-0512.bsky.social‬ and myself.

Talks by:

@petrovadmitri.bsky.social

Shuqing Xu
@jingli-0512.bsky.social
@fitz-james-lab.bsky.social
@michael-barnett.bsky.social
Liye Zhang
Anjali Mahilkar
Tatiana Bellagio
@marcofumasoni.bsky.social
Can Liu
Alexander Sastokas

Very excited about this work by @mrazo.bsky.social in collaboration with www.madhavmani.com bsky.app/profile/mraz... I am so lucky to be able to collaborate with such brilliant people! Learned a lot. This is our first foray into ML approaches and I am quite taken with their power 1/n

YouTube video by CSHL Leading Strand CSHL Keynote, Dr. Steven McCarroll, Harvard Medical School + Broad Institute

Keynote talk from Steven McCarroll from last weeks Biology of Genomes conf. My favorite talk of the whole meeting! #bog25 youtu.be/BCRAlmFv7ag?...

📢 3 Postdoc positions available in @evomicslab.bsky.social
targeting on genome instability evolution of both yeast and human genomes. Both computational genomics and experimental genomics backgrounds are welcome! 🧬🧑‍💻🧪 For more information, see evomicslab.org or send me a message!

Uncalled4: a toolkit for nanopore signal alignment, analysis and visualization of DNA and RNA modifications.

www.nature.com/articles/s41...

1/35 New paper out! @jamesTstroud and I dive into why long-term studies are crucial for understanding evolution. They reveal processes impossible to detect in short timescales and capture rare events that transform our understanding of evolutionary dynamics.

www.nature.com/articles/s41...

We are looking for a postdoc in #EvolutionarySystemsBiology.
Exciting science, amazing team, wonderful city!
landrylab.ibis.ulaval.ca/research-opp...
#evolution #synbio #systemsbiology #genomics

Interactive visualization and interpretation of pangenome graphs by linear reference–based coordinate projection and annotation integration An international, peer-reviewed genome sciences journal featuring outstanding original research that offers novel insights into the biology of all organisms

Glad to see the copy-edited version of our VRPG paper formally published in the latest issue of @genomeresearch.bsky.social ! We developed VRPG as a novel visualization framework for intuitively exploring pangenome graphs in a linear-reference-projected context.
genome.cshlp.org/content/35/2...

The new issue of @genomeresearch.bsky.social is now live! Follow the link to new research on homeodomain–DNA cooperative dimerization in developmental defects, nucleic quasi-primes, and more! tinyurl.com/Genome-Res-3...

📢📢📢 The FINAL COUNT DOWN for the extended abstract submission deadline of #SMBE2025! Please submit your abstract by 23:59 (GMT +8) of February 15, 2025 [Saturday]! And shout out again for our symposium on Experimental Evolution ! 🎉🎉🎉 @OfficialSMBE
#LTEE #ExperimentalEvolution

Engineering a genomically recoded organism with one stop codon - Nature Ochre, a strain of Escherichia coli engineered to have a single stop codon, enables reassignment of four codons for non-degenerate functions, such as incorporation of non-standard amino acids into pro...

A very significant step forward for synthetic genomics
www.nature.com/articles/s41...

📢📢📢 #SMBE2025 Abstract Submission EXTENDED to Saturday, February 15, 2025

We also invite you to register at www.smbe2025.org

@SMBEmeetings

📢 #Yeast2025 News!
Registration and abstract submission are NOW OPEN!
Join us at the 32nd ICYGMB
📅 Save the Date: 21-24 July 2025
📍 Location: Paris @sorbonne-universite.fr
🔗 Submit: premc.org/yeast2025/su...
🕒 Register now to take advantage of the Early Bird fee premc.org/yeast2025/re...

The new issue of @genomeresearch.bsky.social is now live! Follow the link to new research on AI in cell-free DNA diagnostics, disease progression insights using single-cell/-nucleus genomics, and more! tinyurl.com/Genome-Res-3...

The last 10-day countdown for abstract submission! Welcome to spread the word and of course welcome to submit the abstract!!! 📢😃⏰

ScRAPdb: an integrated pan-omics database for the Saccharomyces cerevisiae reference assembly panel Abstract. As a unicellular eukaryote, the budding yeast Saccharomyces cerevisiae strikes a unique balance between biological complexity and experimental tr

We did something similar recently on the budding yeast, with lower number of accessions but more aligned multi-omics datasets. Looking forward to more such curated population-scale high-quality genome assemblies resources for future pangenomic studies. Our work: academic.oup.com/nar/article/...

Centromeres evolve progressively through selection at the kinetochore interface During mitosis, stable but dynamic interactions between the centromere DNA and kinetochore complex enable accurate and efficient chromosome segregation. Even though many proteins of the kinetochore ar...

Cool paper on evolutionary constraints and trajectories shaping point centromere evolution in budding yeasts by @helsenjana.bsky.social @gautamdey.bsky.social @gsherloc.bsky.social

www.biorxiv.org/content/10.1...

Have a try at www.evomicslab.org/app/vrpg/

Introducing VRPG, our recent work on the pangenome graph visualization & interpretation @genomeresearch.bsky.social !We posted our initial idea years ago and continuously improved it with many added features. Appreciate the great suggestions from all 3 reviewers. It is so much better now!

📢 2nd-round abstract submission call for the 2025 @OfficialSMBE
annual meeting in #Beijing .
Where: smbe2025.scimeeting.cn/en/web/index...
When: now - 2025/01/30. Welcome for all abstract submissions, especially for our Experimental Evolution Symposium !!!

You can use my webapp to identify similar, overlapping, and duplicate images in PDFs of scientific papers: sholtodavid.pythonanywhere.com