Linus Eng

Pushing the boundaries of spatial genomics. Developer of seqFISH+.

[Cai Lab @LongCai_Lab]

Thrilled to share our @CellCellPress paper with Shosei Yoshida & Ben Simons, led by @ChakraArun:
1) spatial geometry can resolve temporal dynamics
2) Sertoli cells run an intrinsic cycle coupled to germline, suggesting oscillator coupling as a principle of tissue organization

[Arun Chakravorty @ChakraArun]

Our paper is finally out in Cell! Years of work on one of biology's most beautiful tissue clocks, and finding an intrinsic oscillator that helps organize tissue dynamics. From my PhD work at @LongCai_Lab, with Shosei Yoshida and Ben Simons!
🧵(1/10)
https://t.co/fRFxG3rbo2

[Linus Eng @CHLinusEng]

Congratulations Arun! this is very interesting to read!

[Arun Chakravorty @ChakraArun]

Our paper is finally out in Cell! Years of work on one of biology's most beautiful tissue clocks, and finding an intrinsic oscillator that helps organize tissue dynamics. From my PhD work at @LongCai_Lab, with Shosei Yoshida and Ben Simons!
🧵(1/10)
https://t.co/fRFxG3rbo2

[Yodai Takei @yodai_takei]

I'm very excited to share that I've started a new position as a Group Leader at CZ Biohub NY! @biohub

[Linus Eng @CHLinusEng]

@yodai_takei @biohub Congratulations Yodai! this is exciting!

[Linus Eng @CHLinusEng]

Excited to see this out!

[IdoAmitLab @IdoAmitLab]

Beautiful work @garber_manuel and co. Immunology is magical!
https://t.co/GmFx8aeiAz

[Ruben Dries @RnDries]

Very proud to finally publish Giotto Suite after many years of hard work. It's a big milestone for our lab and will be a massive stepping stone for our ongoing projects and ideas. Take a look at https://t.co/OqYpzxaqKy and feel free to share feedback and ideas for improvement.

[Yodai Takei @yodai_takei]

I'm excited to share our new preprint on LagTag, a method that recovers both past and present chromatin states from the same mammalian cells.
https://t.co/GEGQpN0Ff0

[Nature Reviews Genetics @NatureRevGenet]

New online! Spatial multi-omics of nuclear architecture with two-layer seqFISH+ https://t.co/MmPPJMgwTI

[Yodai Takei @yodai_takei]

I'm happy to share a highlight from our recent work!

[Linus Eng @CHLinusEng]

Congratulations Yodai! this is amazing in both the technology advancement as well as discovering novel nuclear biology!

[Yodai Takei @yodai_takei]

Excited to share our new paper out in @Nature revealing cell-type specific nuclear organization and its link to gene regulation using new spatial multi-omics technologies! https://t.co/0LC2GlEpQs

[Linus Eng @CHLinusEng]

Congratulations! Arun! Excellent work! 👍

[Arun Chakravorty @ChakraArun]

Released my preprint! Here, we leverage spatial information to resolve temporal dynamics in male germ cell development! We reveal that Sertoli cells are precisely synchronized with periodic germ cell development and have an innate cyclic program independent of the germ cells!

[Linus Eng @CHLinusEng]

Congratulations! I love how this study showcase spatial technologies such as RNA seqFISH+ can discover novel biology beyond just cell type mapping!

[Cai Lab @LongCai_Lab]

Our new preprint with S.Yoshida and B.Simons! Led by @ChakraArun, we leverage spatial information to resolve temporal dynamics in spermatogenesis!
https://t.co/S5hhzqMi3g

Also check out a complementary preprint by S.Y. and B.S using live imaging! https://t.co/rrbxyFYylk

(1/10)

[Linus Eng @CHLinusEng]

Congratulations Kai!

[Kai Chen @kaichen_1990]

Thrilled to share our latest work on lipid nanoparticle (LNP) delivery of a stable CRISPR-Cas9 ribonucleoprotein (RNP) for in vivo genome editing, now published @NatureBiotech! 🧬

https://t.co/rX2bBKFMka

In this paper, we first engineered robust, efficient, and stable CRISPR-Cas9 genome-editing enzymes, iGeoCas9s, through #directedevolution of Cas9 from Geobacillus stearothermophilus (GeoCas9). We then developed an LNP-based delivery platform that successfully encapsulates and delivers iGeoCas9 RNP to various cell lines, achieving high-efficiency genome editing in vitro, including homology-directed repair (HDR) via codelivery of RNP and ssDNA templates. In the end, we demonstrated that different LNP formulations enabled tissue-specific genome editing in the liver and lungs after single intravenous injections of iGeoCas9 RNP–LNP complexes without triggering detectable immune responses. Overall, our results show that stable Cas9 RNP–LNP complexes can be a robust alternative to mRNA–LNP delivery and expand the therapeutic potential of CRISPR genome editing.

Our previous study @CellCellPress illustrated why our engineered iGeoCas9 exhibits dramatic improvements in its genome editing function. The high protein stability and desired negative charge density are the key to the successful development of the LNP delivery strategy for iGeoCas9 RNPs, which outperforms mRNA+sgRNA codelivery by LNPs for genome editing. We believe this LNP delivery platform can be further extended to other editing tools, such as base editors and prime editors.

Huge thanks to my collaborators @doudna_lab and in the Murthy lab for making this possible! @igisci @berkeleyMCB

[Linus Eng @CHLinusEng]

Check out this great opportunity!

[𝓟𝓮𝓷𝓰 𝓗𝓮 何鵬 @PengHeAtlas]

🚨𝐇𝐞 𝐋𝐚𝐛 job opportunity @UCSF 🚨:
I'm hiring TWO postdocs - an experimentalist and a computational biologist. Join us to use cutting-edge single-cell and spatial technologies to unravel the mysteries of human tissues.
https://t.co/QJqxMmrxGi

[Linus Eng @CHLinusEng]

@kaichen_1990 @CellCellPress Wow! congratulations!

[Linus Eng @CHLinusEng]

@kaichen_1990 @NatureComms @doudna_lab Congratulations!! 🎉🎉🎉

[Linus Eng @CHLinusEng]

@zwniu @arjunrajlab congratulations! can I know how dense can the image be before Piscis fails to detect individual dots, have you guys tested it?

[Linus Eng @CHLinusEng]

This is exciting!

[ElowitzLab @ElowitzLab]

Just posted a preprint on our new spatial genomic recording system, baseMEMOIR.
https://t.co/ef5i8FnIOw
Motivation: Cells divide, differentiate, and migrate to form exquisitely organized tissues. Reconstructing the dynamic histories of individual cells, including their lineage relationships and ancestral states, is essential for understanding how intrinsic and extrinsic signals generate tissues during development and in regenerative medicine.
Engineered genomic recording systems can reconstruct cell lineage histories from endpoint measurements. However, existing methods either require sequencing (disrupting spatial organization) or have been limited in memory size and scalability.
To address this need, @ChadlyDuncan, Kirsten Frieda, and others in the lab created a high memory capacity image-readable recording system termed baseMEMOIR.

[Albert Vilella @AlbertVilella]

In #SpatialBiology news, a preprint on CKD using seqFISH. A little explainer below on Chronic Kidney Disease. https://t.co/P2f07WlAPt