ryan lister

scientist - epigenetics, genomics, synthetic biology @uwanews @PerkinsComms

[Jay Shendure @JShendure]

Thrilled to post thread re: new single-cell lineage of mouse embryo reconstructed w/ DNA Typewriter. One animal, zygote to late organogenesis (E13.5). Tree has 1,340,794 transcriptionally profiled, annotated tips (cells), 1,142,588 dated internal nodes, rooted at zygote
1/n

[Bob Schmitz @Schmitz_Lab]

Excited to share our latest preprint! Congrats to Jie Yao for leading this work and the entire team for a fantastic collaboration. 🌱🧬 Sequence-based modeling of plant epigenomes reveals cell-type-specific cis-regulatory grammar https://t.co/VQ69fwEyfH

[Diep Ganguly @diep_ganguly]

Wonderful work led by Marten to show how rapidly translation can be altered to produce proteins required for light acclimation in plants!
@barry_pogson @mary_in_vivo @bobfurbank
https://t.co/WOl4Gu6i1Y

[Katie Galloway @GallowayLabMIT]

Could the folding of synthetic gene circuits in 3D shape how genes are expressed? Today @ScienceMagazine we report on the role of gene syntax in shaping feedback between transcriptional activity and genome folding for advanced circuit design🧵 (1/n)

[Adil Khan @TheAdelKhan]

Happy to share our new article, just published in @NatureProtocols on designing and testing CRISPRi-based synthetic gene circuits in plants. 🧵

[ryan lister @ry_lister]

ROLE 4: Postdoc (522157) – construct/circuit design, modular assembly & rapid prototyping in transient systems https://t.co/QuiIRW76tz https://t.co/mtrhdBm22H

[ryan lister @ry_lister]

1 WEEK LEFT TO APPLY: We’re hiring 4 roles at UWA Plant Synbio Innovation Centre: Facility Manager + 3 Postdocs (single-cell genomics/screens; molecular tools; construct prototyping) https://t.co/yL2XxY7KpE https://t.co/i2CgRQaGhX https://t.co/UfpwK4jb0P https://t.co/QuiIRW7Ej7

[ryan lister @ry_lister]

ROLE 3: Postdoc (522165) – molecular synbio tech development for programmable plant engineering https://t.co/UfpwK4iDbh https://t.co/cUDOYOqpKS

[ryan lister @ry_lister]

ROLE 4: Postdoc (522157) – construct/circuit design, modular assembly & rapid prototyping in transient systems https://t.co/QuiIRW7Ej7 https://t.co/CNIZkelhoh

[ryan lister @ry_lister]

We’re hiring 4 roles at UWA's Plant Synbio Innovation Centre: Facility Manager + 3 Postdocs (single-cell genomics/screening; molecular tools; construct prototyping). Apply by Jan 20: https://t.co/yL2XxY7KpE https://t.co/i2CgRQaGhX https://t.co/UfpwK4jb0P https://t.co/QuiIRW7Ej7

[ryan lister @ry_lister]

ROLE 3: Postdoc (522165) – molecular synbio tech development for programmable plant engineering https://t.co/UfpwK4jb0P https://t.co/cUDOYOqXAq

[Luciano Martelotto 🛠🧬💻🇦🇺 @LGMartelotto]

Very happy to finally present our work!

“𝘚𝘵𝘢𝘯𝘥𝘢𝘳𝘥𝘪𝘻𝘦𝘥 𝘮𝘦𝘵𝘳𝘪𝘤𝘴 𝘧𝘰𝘳 𝘢𝘴𝘴𝘦𝘴𝘴𝘮𝘦𝘯𝘵 𝘢𝘯𝘥 𝘳𝘦𝘱𝘳𝘰𝘥𝘶𝘤𝘪𝘣𝘪𝘭𝘪𝘵𝘺 𝘰𝘧 𝘪𝘮𝘢𝘨𝘪𝘯𝘨-𝘣𝘢𝘴𝘦𝘥 𝘴𝘱𝘢𝘵𝘪𝘢𝘭 𝘵𝘳𝘢𝘯𝘴𝘤𝘳𝘪𝘱𝘵𝘰𝘮𝘪𝘤𝘴 𝘥𝘢𝘵𝘢𝘴𝘦𝘵𝘴”

Spatial transcriptomics promises deep insight into tissue architecture - but inconsistent data quality across labs and platforms has been a major barrier. A new study from a global consortium addresses this by releasing the Spatial Touchstone (ST): a harmonized, multi-site, multi-platform dataset using six tissue types and two widely imaging used technologies.

We introduce SpatialQM, an open-source quality-control software, and a public repository, Spatial Touchstone Portal (STP), that hosts ~33M cells and ~7B transcripts.

With standardized metrics for sensitivity, reproducibility, signal-to-noise, false discovery rates, and cell-type annotation, this framework gives labs a way to benchmark and compare spatial transcriptomics data reliably.

This effort sets a foundation for more robust, reproducible spatial-omics research — and helps unlock cross-study comparability across institutions and platforms.

I’m incredibly thankful to my amazing collaborators across the globe and an special shout out to my dear friends @DrJasPlummer and @mason_lab and their super amazing teams for literally working they brains out to make this happen.

Felipe, Jiwoon , David, Luke, Maycon, Yutian, Arjumand, Hannah, Kellie, Alex, Lisa, Alicia, Roberto and many more!

@WeillCornell
@StJudeResearch

https://t.co/La6JNPjnVG

[ryan lister @ry_lister]

@LabShih Great work! Congrats!!!

[René Inckemann @rene_inckemann]

Very excited to finally share my PhD paper, about advancing #chloroplast #synbio through high-throughput plastome engineering of #Chlamydomonas.
Huge thanks to the whole team!
https://t.co/uqT72tIS2i