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Jia-Xing Yue (岳家兴) @iamphioxus.bsky.social · Jul 29

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!

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Reposted by Jia-Xing Yue (岳家兴)

Evomics Lab @evomicslab.bsky.social · Jul 25

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

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Reposted by Jia-Xing Yue (岳家兴)

Tobias Marschall @tobiasmar.bsky.social · Jul 23

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.

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.

tinyurl.com

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Jia-Xing Yue (岳家兴) @iamphioxus.bsky.social · Jul 22

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

Prof. Dmitri Petrov delivering his talk.

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Jia-Xing Yue (岳家兴) @iamphioxus.bsky.social · Jul 21

📣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

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Reposted by Jia-Xing Yue (岳家兴)

Society for Molecular Biology and Evolution @official-smbe.bsky.social · Jul 20

📅 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.

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Reposted by Jia-Xing Yue (岳家兴)

Li Zhao @lizhao.bsky.social · Jul 15

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.

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...

rdcu.be

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Jia-Xing Yue (岳家兴) @iamphioxus.bsky.social · Jun 17

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

Society for Molecular Biology and Evolution @official-smbe.bsky.social · Jun 13

#SMBE2025 Symposium 3: Experimental evolution: studying evolution in action

🔗 smbe2025.scimeeting.cn/en/web/program/25070

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Jia-Xing Yue (岳家兴) @iamphioxus.bsky.social · Jun 17

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

Reposted by Jia-Xing Yue (岳家兴)

Dmitri Petrov @petrovadmitri.bsky.social · May 15

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

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Reposted by Jia-Xing Yue (岳家兴)

Mike Schatz @mikeschatz.bsky.social · May 15

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

CSHL Keynote, Dr. Steven McCarroll, Harvard Medical School + Broad Institute

YouTube video by CSHL Leading Strand

youtu.be

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Reposted by Jia-Xing Yue (岳家兴)

Evomics Lab @evomicslab.bsky.social · Apr 28

📢 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!

Evomics Lab – Exploring Omics in the Light of Evolution

evomicslab.org

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Reposted by Jia-Xing Yue (岳家兴)

Nature Methods @natmethods.nature.com · Mar 28

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

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

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Reposted by Jia-Xing Yue (岳家兴)

Will Ratcliff @wcratcliff.bsky.social · Mar 19

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...

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Reposted by Jia-Xing Yue (岳家兴)

Christian Landry @christianlandry.bsky.social · Feb 23

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

Research opportunities | Landry Lab

landrylab.ibis.ulaval.ca

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Reposted by Jia-Xing Yue (岳家兴)

Evomics Lab @evomicslab.bsky.social · Feb 15

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...

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

genome.cshlp.org

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Reposted by Jia-Xing Yue (岳家兴)

Genome Research @genomeresearch.bsky.social · Feb 14

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...

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Jia-Xing Yue (岳家兴) @iamphioxus.bsky.social · Feb 12

📢📢📢 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

Society for Molecular Biology and Evolution @official-smbe.bsky.social · Jan 27

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

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

@SMBEmeetings

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Reposted by Jia-Xing Yue (岳家兴)

Gilles FISCHER @gillesfischer.bsky.social · Feb 6

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

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...

www.nature.com

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Reposted by Jia-Xing Yue (岳家兴)

Society for Molecular Biology and Evolution @official-smbe.bsky.social · Jan 27

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

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

@SMBEmeetings

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Reposted by Jia-Xing Yue (岳家兴)

Gilles FISCHER @gillesfischer.bsky.social · Jan 14

📢 #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...

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Reposted by Jia-Xing Yue (岳家兴)

Genome Research @genomeresearch.bsky.social · Jan 22

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...

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Jia-Xing Yue (岳家兴) @iamphioxus.bsky.social · Jan 21

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

Jia-Xing Yue (岳家兴) @iamphioxus.bsky.social · Jan 10

📢 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 !!!

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Jia-Xing Yue (岳家兴) @iamphioxus.bsky.social · Jan 18

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/...

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

academic.oup.com