Lightnews — Scholar-powered news

Reposted by Nozomu Yachie

Nature Biotechnology @natbiotech.nature.com · Jul 25

Identification of conserved RNA regulatory switches in living cells using RNA secondary structure ensemble mapping and covariation analysis go.nature.com/4lLtIX8

Identification of conserved RNA regulatory switches in living cells using RNA secondary structure ensemble mapping and covariation analysis - Nature Biotechnology

Transcriptome-scale maps of RNA secondary structure ensembles in living cells detect candidate RNA structural switches.

go.nature.com

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Nozomu Yachie @nzmyachie.bsky.social · Jul 10

Photos from a life sciences roundtable on June 4 with BC Premier David Eby @davidebybc.bsky.social at #CanadaPavilion of #Expo2025Osaka. Manu Madhav, Gail Murphy, and I joined from UBC. @sbmeubc.bsky.social

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Nozomu Yachie @nzmyachie.bsky.social · Jun 26

#ISSCR2026 @isscr.org plenary and invited speakers have revealed! Please plan to submit an abstract and join us in Montreal! www.isscr2026.org/speakers

speakers — ISSCR 2026

www.isscr2026.org

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Nozomu Yachie @nzmyachie.bsky.social · Jun 20

CAGT was fun! Thanks @carldeboer.bsky.social @sudpinglay.bsky.social and the de Boer lab for organizing! Folks from Seattle, Oregon, and other places. Great community. Arman gave a usual super talk, and Sanchit and Dayag won poster prizes☺️

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Reposted by Nozomu Yachie

Michael Baym @baym.lol · May 29

The latest work from my lab, Phage Disco, a method
@ellie-rand.bsky.social
developed for targeted discovery of bacteriophages based on the bacterial receptor, defense system, or other component they interact with, is now live in mSystems
journals.asm.org/doi/10.1128/...

Phage DisCo: targeted discovery of bacteriophages by co-culture | mSystems

In this work, we describe a targeted phage discovery method that allows immediate isolation of phages with specific traits. Currently, to find a phage with specific properties, huge libraries of phage...

journals.asm.org

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Nozomu Yachie @nzmyachie.bsky.social · May 26

🏎️⬅️🔥 bme.ubc.ca/back-to-the-...

Back to the Future with the Yachie Lab - UBC - SBME

Yachie Lab unveils a time-reversing system that allows scientists to isolate cell clones destined for important future roles Congratulations to Drs. Nozomu Yachie and Soh Ishiguro on their recent pub...

bme.ubc.ca

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Nozomu Yachie @nzmyachie.bsky.social · May 22

oh no it's you! The person perhaps likes Chrome Hearts?

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Nozomu Yachie @nzmyachie.bsky.social · May 22

Thanks! But hold on, I think I know you, MadScientist, from the Twitter era, but who are you? lol

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Nozomu Yachie @nzmyachie.bsky.social · May 22

Haha thanks - we need to convince CIHR more :)

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Reposted by Nozomu Yachie

Tom Shimizu @thomasshimizu.bsky.social · Mar 9

+Humbled by how beautifully this animated version of this week’s @nature.com cover captures two major themes of our paper – mycorrhizal fungi and the ‘wave nature of life’.

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Nozomu Yachie @nzmyachie.bsky.social · May 22

Thanks Troy! We should do something together!

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Nozomu Yachie @nzmyachie.bsky.social · May 22

Thanks Andy!

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Reposted by Nozomu Yachie

Nature Biotechnology @natbiotech.nature.com · May 21

A multi-kingdom genetic barcoding system for precise clone isolation - @nzmyachie.bsky.social go.nature.com/4ksLOMD

A multi-kingdom genetic barcoding system for precise clone isolation - Nature Biotechnology

A barcoded CRISPR base editing system isolates target clones from complex mammalian, yeast and bacterial populations.

go.nature.com

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Nozomu Yachie @nzmyachie.bsky.social · May 21

CloneSelect published in Nature Biotechnology
@natbiotech.nature.com. This retrospective clone isolation method using CRISPR base editors is a powerful tool in broad biology. A history of Soh in the Yachie lab. www.nature.com/articles/s41...

A multi-kingdom genetic barcoding system for precise clone isolation - Nature Biotechnology

A barcoded CRISPR base editing system isolates target clones from complex mammalian, yeast and bacterial populations.

www.nature.com

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Nozomu Yachie @nzmyachie.bsky.social · May 6

Please plan to join us in Montréal🇨🇦 Excited to co-chair the program committee of #ISSCR2026 with @doetschlab.bsky.social. We have reorganized the concurrent themes. An exciting lineup of invited speakers will be announced soon.

ISSCR @isscr.org · May 6

🔬🍁Save the date! Join the global stem cell community in Montréal, Canada from 8-11 July 2026 for the #ISSCR2026 Annual Meeting. Together, we will explore the full spectrum of stem cell science and regenerative medicine. 👉 isscr2026.org

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Nozomu Yachie @nzmyachie.bsky.social · Apr 5

Spring 2025 in UBC

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Nozomu Yachie @nzmyachie.bsky.social · Mar 11

I’m excited to share that we will be hosting Justin English @sbmeubc.bsky.social this Friday! Many cool synthetic biology and high-throughput screening stories are happening in his lab. His talk will be at the Life Science Institute building LSC 1002 from 11 am. Please come join us!

Nozomu Yachie @nzmyachie.bsky.social · Feb 18

confit.atlas.jp/guide/event/...

The 54th Naito Conference/Call for Posters

The 54th Naito Conference,Call for Posters

confit.atlas.jp

Nozomu Yachie @nzmyachie.bsky.social · Feb 18

Poster submission is open now!👋 We are organizing the 54th Naito Conference on Genome Editing. Gorgeous speakers, including Feng Zhang, Patrick Hsu, @leopoldparts.bsky.social, Silvana Konermann, Mike Bassik, Ailong Ke, Wenning Qin, Henry Kim, Caixia Gao, Pietro Genovese, and Virginijus Siksnys.

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Carl de Boer @carldeboer.bsky.social · Jan 27

Special thanks to @nzmyachie.bsky.social and Brett Kiyota for this great collab! Preprint: www.biorxiv.org/content/10.1...

Detecting and avoiding homology-based data leakage in genome-trained sequence models

Models that predict function from DNA sequence have become critical tools in deciphering the roles of genomic sequences and genetic variation within them. However, traditional approaches for dividing ...

www.biorxiv.org

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Reposted by Nozomu Yachie

Carl de Boer @carldeboer.bsky.social · Jan 27

My research aims to make so much synthetic gene regulatory data that we no longer need to train models on genomic sequences (elaborated on here www.nature.com/articles/s41...), but we still lack the needed synthetic data. hashFrag is the stopgap needed to enable genome-training without leakage.

Hold out the genome: a roadmap to solving the cis-regulatory code - Nature

A roadmap towards solving the cis-regulatory code using a combination of machine learning and massively parallel assays of exogenous DNA is proposed.

www.nature.com

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Reposted by Nozomu Yachie

Carl de Boer @carldeboer.bsky.social · Jan 27

New (and hotly anticipated - at least by me) preprint from my group describing a better way to partition training data for genomic-trained models to solve the long-neglected problem of homology-based data leakage. Thread from first author @muntakimrafi.bsky.social 👇

Abdul Muntakim Rafi @muntakimrafi.bsky.social · Jan 27

0/ Essential reading for anyone training or using sequence-function models trained on genomic sequences! 🚨 In our new preprint, we explore the ways homology within genomes can cause leakage when training sequence-based models and ways to prevent it

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Nozomu Yachie @nzmyachie.bsky.social · Jan 25

Similarly, are we tiny fragments of time and space within the universe, or are we encompassing something else entirely?

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Nozomu Yachie @nzmyachie.bsky.social · Jan 25

We often perceive objects as units defined by the object that encompasses them. A topology question: does the plasma membrane of a cell enclose the cytoplasm and organelles, or does it encompass everything else, including Earth, while excluding the cytoplasmic region as its environment?

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Nozomu Yachie @nzmyachie.bsky.social · Jan 18

More story from @sbmeubc.bsky.social
bme.ubc.ca/dayag-sheykh...

Dayag Sheykhkarimli awarded the H.L. Holmes Award from the National Research Council of Canada - UBC - SBME

Congratulations to SBME postdoctoral researcher Dayag Sheykhkarimli from Dr. Nozomu Yachie’s lab for receiving $100,000 from the H.L Holmes Award by the National Research Council of Canada.

bme.ubc.ca

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