Kyogo Kawaguchi
@kyogok.bsky.social
Chief Scientist RIKEN PRI, Assoc Prof Univ Tokyo Department of Physics, Institute for Physics of Intelligence. Biophysics, noneq statphys. https://noneq-biophys.riken.jp/
Pinned
Kyogo Kawaguchi
@kyogok.bsky.social
· Nov 20
Dear fellow nonequilibrium beings a.k.a. vertebrates on Bluesky, We are a group of (mainly) physicists studying everything interesting in biology. Happy to seek this new platform!
Call for a research scientist position (indefinite-term) in our group. Deadline: October 15
www.riken.jp/en/careers/r...
www.riken.jp/en/careers/r...
Seeking a Research Scientist (Indefinite-term) at Nonequilibrium Physics of Living Matter Laboratory (25-1294)
www.riken.jp
September 8, 2025 at 4:13 AM
Call for a research scientist position (indefinite-term) in our group. Deadline: October 15
www.riken.jp/en/careers/r...
www.riken.jp/en/careers/r...
Exciting new study from Iwasaki lab, led by Kotaro @ktomuro.bsky.social & Yuichi @u1-7no.bsky.social, that I was lucky to be part of! A new method reveals many mRNAs are locally translated. Too much for one tweet—check it out: www.biorxiv.org/content/10.1...
www.biorxiv.org
June 5, 2025 at 12:12 AM
Exciting new study from Iwasaki lab, led by Kotaro @ktomuro.bsky.social & Yuichi @u1-7no.bsky.social, that I was lucky to be part of! A new method reveals many mRNAs are locally translated. Too much for one tweet—check it out: www.biorxiv.org/content/10.1...
Reposted by Kyogo Kawaguchi
We developed APEX-Ribo-Seq, a method to map subcellular translation with spatial resolution.
Using it, we profiled local translation in over 20 conditions!
Using it, we profiled local translation in over 20 conditions!
Sequence grammar and dynamics of subcellular translation revealed by APEX-Ribo-Seq https://www.biorxiv.org/content/10.1101/2025.05.26.656194v1
May 30, 2025 at 5:12 PM
We developed APEX-Ribo-Seq, a method to map subcellular translation with spatial resolution.
Using it, we profiled local translation in over 20 conditions!
Using it, we profiled local translation in over 20 conditions!
Call for RIKEN ECL Team / Unit Leaders. In my (biased) opinion, this is probably the best option if you are seeking an independent position in Japan. I will be happy to chat/answer questions via email. www.riken.jp/en/careers/p...
FY 2025 Call for RIKEN ECL Team / Unit Leaders
www.riken.jp
May 23, 2025 at 10:40 AM
Call for RIKEN ECL Team / Unit Leaders. In my (biased) opinion, this is probably the best option if you are seeking an independent position in Japan. I will be happy to chat/answer questions via email. www.riken.jp/en/careers/p...
This is a bizarre discovery by Kyosuke. He introduces an active binary mixture model and finds bubbles, typically found in very large MIPS simulations, appearing in smaller setups. Then observes that even the mean-field deterministic ver. of the model also produces bubbles.
arxiv.org/abs/2505.08637
arxiv.org/abs/2505.08637
Bubble formation in active binary mixture model
Phase separation, the spontaneous segregation of density, is a ubiquitous phenomenon observed across diverse physical and biological systems. Within a crowd of self-propelled elements, active phase se...
arxiv.org
May 15, 2025 at 12:32 AM
This is a bizarre discovery by Kyosuke. He introduces an active binary mixture model and finds bubbles, typically found in very large MIPS simulations, appearing in smaller setups. Then observes that even the mean-field deterministic ver. of the model also produces bubbles.
arxiv.org/abs/2505.08637
arxiv.org/abs/2505.08637
Congrats to our colleague Takahiro Kanazawa, who graduated with honors from U Tokyo Physics! www.s.u-tokyo.ac.jp/ja/info/10714/
令和6年度 総長賞・学修奨励賞・研究奨励賞 - 東京大学 大学院理学系研究科・理学部
東京大学 大学院理学系研究科・理学部の令和6年度 総長賞・学修奨励賞・研究奨励賞情報です。
www.s.u-tokyo.ac.jp
March 28, 2025 at 11:22 PM
Congrats to our colleague Takahiro Kanazawa, who graduated with honors from U Tokyo Physics! www.s.u-tokyo.ac.jp/ja/info/10714/
RIKEN SPDR fellowship, Register basic information by 5 pm April 3, 2025 (Japan Time). Application deadline 5 pm April 10, 2025 (Japan Time).
Feel free to contact regarding this, or about opportunities in RIKEN and Japan in general.
Feel free to contact regarding this, or about opportunities in RIKEN and Japan in general.
We can host Special Postdoctoral Researchers (SPDR) for FY 2026. This is one of the best postdoc positions you can find in Japan, comparable to departmental or institutional fellowships in the US or Europe. Feel free to reach out if you’re interested!
www.riken.jp/en/careers/p...
www.riken.jp/en/careers/p...
Call for applications for the position of Special Postdoctoral Researcher (SPDR) for FY 2026
www.riken.jp
March 20, 2025 at 1:29 AM
RIKEN SPDR fellowship, Register basic information by 5 pm April 3, 2025 (Japan Time). Application deadline 5 pm April 10, 2025 (Japan Time).
Feel free to contact regarding this, or about opportunities in RIKEN and Japan in general.
Feel free to contact regarding this, or about opportunities in RIKEN and Japan in general.
Reposted by Kyogo Kawaguchi
What is the multiscale structure of chromatin condensates? How does it shape thermodynamic and material properties?
We address this at near-atomistic resolution🔥🔥🔥 using cryoET (Rosen & Villa labs, led by H Zhou), a new multiscale model (K Russell) and cryoET-guided sims (J Huertas & J Maristany)
We address this at near-atomistic resolution🔥🔥🔥 using cryoET (Rosen & Villa labs, led by H Zhou), a new multiscale model (K Russell) and cryoET-guided sims (J Huertas & J Maristany)
January 23, 2025 at 9:32 AM
What is the multiscale structure of chromatin condensates? How does it shape thermodynamic and material properties?
We address this at near-atomistic resolution🔥🔥🔥 using cryoET (Rosen & Villa labs, led by H Zhou), a new multiscale model (K Russell) and cryoET-guided sims (J Huertas & J Maristany)
We address this at near-atomistic resolution🔥🔥🔥 using cryoET (Rosen & Villa labs, led by H Zhou), a new multiscale model (K Russell) and cryoET-guided sims (J Huertas & J Maristany)
Congratulations to Zihui, Sano-san, and the team on this interesting work! They found that +1 topological defects attract neural progenitors—an observation that seems at odds with expectations for an extensile active nematic. www.nature.com/articles/s41...
Integer topological defects offer a methodology to quantify and classify active cell monolayers - Nature Communications
The orientation of elongated cells often rotates once around the center in tissue. Such structures are called +1 topological defects and play some roles in biological development. By inducing various ...
www.nature.com
March 13, 2025 at 4:33 AM
Congratulations to Zihui, Sano-san, and the team on this interesting work! They found that +1 topological defects attract neural progenitors—an observation that seems at odds with expectations for an extensile active nematic. www.nature.com/articles/s41...
Reposted by Kyogo Kawaguchi
My @TEDAI2024 talk is out!
www.ted.com/talks/surya_...
I discuss our work, spanning AI, physics, math & neuroscience, to develop a deeper scientific understanding of intelligence, both to understand biological intelligence and make better artificial intelligence. I focus on 5 gaps:
www.ted.com/talks/surya_...
I discuss our work, spanning AI, physics, math & neuroscience, to develop a deeper scientific understanding of intelligence, both to understand biological intelligence and make better artificial intelligence. I focus on 5 gaps:
Can AI match the human brain?
AI is evolving into a mysterious new form of intelligence — powerful yet flawed, capable of remarkable feats but still far from human-like reasoning and efficiency. To truly understand it and unlock i...
www.ted.com
February 7, 2025 at 6:38 PM
My @TEDAI2024 talk is out!
www.ted.com/talks/surya_...
I discuss our work, spanning AI, physics, math & neuroscience, to develop a deeper scientific understanding of intelligence, both to understand biological intelligence and make better artificial intelligence. I focus on 5 gaps:
www.ted.com/talks/surya_...
I discuss our work, spanning AI, physics, math & neuroscience, to develop a deeper scientific understanding of intelligence, both to understand biological intelligence and make better artificial intelligence. I focus on 5 gaps:
Reposted by Kyogo Kawaguchi
Sequence Composition Dictates Condensate Miscibility https://www.biorxiv.org/content/10.1101/2024.11.29.626135v1
Sequence Composition Dictates Condensate Miscibility https://www.biorxiv.org/content/10.1101/2024.11.29.626135v1
Numerous biomolecular condensates coexist within cells, yet the mechanisms governing their mixing an
www.biorxiv.org
December 1, 2024 at 5:19 AM
Sequence Composition Dictates Condensate Miscibility https://www.biorxiv.org/content/10.1101/2024.11.29.626135v1
I feel like this post is becoming even more relevant for our early-career researcher friends in the US—unless it’s already too late. It doesn’t have to be our lab or RIKEN; if you’re interested in coming to Japan, I’m always happy to chat!
We can host Special Postdoctoral Researchers (SPDR) for FY 2026. This is one of the best postdoc positions you can find in Japan, comparable to departmental or institutional fellowships in the US or Europe. Feel free to reach out if you’re interested!
www.riken.jp/en/careers/p...
www.riken.jp/en/careers/p...
Call for applications for the position of Special Postdoctoral Researcher (SPDR) for FY 2026
www.riken.jp
February 14, 2025 at 9:17 AM
I feel like this post is becoming even more relevant for our early-career researcher friends in the US—unless it’s already too late. It doesn’t have to be our lab or RIKEN; if you’re interested in coming to Japan, I’m always happy to chat!
Reposted by Kyogo Kawaguchi
Another of my favourite 2024 #NatRevMCB covers highlights our Review on #somitogenesis by Yuchuan Miao and Olivier Pourquie.
We were inspired by the rows of forming somites that resemble rows of seat on a train or plane and their patterning by Hox genes!
🔗 go.nature.com/3Vx3psy
We were inspired by the rows of forming somites that resemble rows of seat on a train or plane and their patterning by Hox genes!
🔗 go.nature.com/3Vx3psy
December 10, 2024 at 12:36 PM
Another of my favourite 2024 #NatRevMCB covers highlights our Review on #somitogenesis by Yuchuan Miao and Olivier Pourquie.
We were inspired by the rows of forming somites that resemble rows of seat on a train or plane and their patterning by Hox genes!
🔗 go.nature.com/3Vx3psy
We were inspired by the rows of forming somites that resemble rows of seat on a train or plane and their patterning by Hox genes!
🔗 go.nature.com/3Vx3psy
Happy to see this published! This work was led by Takahiro (a talented undergrad@UTokyo) and Kyosuke (a transdisciplinary theoretician@RIKEN). Dynamical phase transitions can occur even for an equilibrium Brownian motion if the dimension is larger than 4. journals.aps.org/prresearch/a...
Universality in the dynamical phase transitions of Brownian motion
We study the dynamical phase transitions (DPTs) appearing for a single Brownian particle without drift. We first explore how first-order DPTs in large deviations can be found even for a single Brownia...
journals.aps.org
February 6, 2025 at 5:01 AM
Happy to see this published! This work was led by Takahiro (a talented undergrad@UTokyo) and Kyosuke (a transdisciplinary theoretician@RIKEN). Dynamical phase transitions can occur even for an equilibrium Brownian motion if the dimension is larger than 4. journals.aps.org/prresearch/a...
Starting in April 2025, our RIKEN Hakubi Lab will transition to a Chief Scientist Lab, and we plan to move to Wako in 2026. My affiliation with the IPI, Department of Physics at The University of Tokyo, will continue as before.
February 4, 2025 at 2:30 AM
Starting in April 2025, our RIKEN Hakubi Lab will transition to a Chief Scientist Lab, and we plan to move to Wako in 2026. My affiliation with the IPI, Department of Physics at The University of Tokyo, will continue as before.
Reposted by Kyogo Kawaguchi
Latest from the lab!
I've been seeking the ultimate modulator that regulates the tempo of multiple developmental processes simultaneously, and metabolism has been an attractive candidate for such a global tempo modulator.
However, I was wrong. 1/
www.nature.com/articles/s41...
I've been seeking the ultimate modulator that regulates the tempo of multiple developmental processes simultaneously, and metabolism has been an attractive candidate for such a global tempo modulator.
However, I was wrong. 1/
www.nature.com/articles/s41...
Metabolic activities are selective modulators for individual segmentation clock processes - Nature Communications
Metabolism has been considered an attractive candidate as a global modulator of the tempo of multiple developmental processes, including somite segmentation timing. Here they demonstrate that metaboli...
www.nature.com
January 24, 2025 at 6:37 PM
Latest from the lab!
I've been seeking the ultimate modulator that regulates the tempo of multiple developmental processes simultaneously, and metabolism has been an attractive candidate for such a global tempo modulator.
However, I was wrong. 1/
www.nature.com/articles/s41...
I've been seeking the ultimate modulator that regulates the tempo of multiple developmental processes simultaneously, and metabolism has been an attractive candidate for such a global tempo modulator.
However, I was wrong. 1/
www.nature.com/articles/s41...
Reposted by Kyogo Kawaguchi
The sympathetic nervous system may control selective organs, but how this specificity is achieved is unknown. Our new study
@NatureComms www.nature.com/articles/s41... uncovers a parallel labeled-line organization within the lower thoracic spinal cord. 1/
@NatureComms www.nature.com/articles/s41... uncovers a parallel labeled-line organization within the lower thoracic spinal cord. 1/
Parallel labeled-line organization of sympathetic outflow for selective organ regulation in mice - Nature Communications
How individual organs are specifically regulated by the sympathetic neurons at the cellular level remains not fully understood. Here, authors identify two molecularly distinct sympathetic pathways tha...
www.nature.com
December 10, 2024 at 10:55 AM
The sympathetic nervous system may control selective organs, but how this specificity is achieved is unknown. Our new study
@NatureComms www.nature.com/articles/s41... uncovers a parallel labeled-line organization within the lower thoracic spinal cord. 1/
@NatureComms www.nature.com/articles/s41... uncovers a parallel labeled-line organization within the lower thoracic spinal cord. 1/
Reposted by Kyogo Kawaguchi
Thorough study comparing the vertebral formula of more than 388 tetrapod species. The relationship between Hox expression and vertebral identity is not trivial, specially in birds. www.pnas.org/doi/10.1073/...
PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
www.pnas.org
November 21, 2024 at 8:11 AM
Thorough study comparing the vertebral formula of more than 388 tetrapod species. The relationship between Hox expression and vertebral identity is not trivial, specially in birds. www.pnas.org/doi/10.1073/...
Reposted by Kyogo Kawaguchi
We are seeking a motivated postdoc to join our lab! Our research focuses on live-cell imaging/analysis to reveal how chromatin behaves in living cells and how its behavior contributes to cellular functions.
www.nature.com/articles/s41...
www.science.org/doi/10.1126/...
Interested? Please DM me!
www.nature.com/articles/s41...
www.science.org/doi/10.1126/...
Interested? Please DM me!
November 30, 2024 at 12:32 PM
We are seeking a motivated postdoc to join our lab! Our research focuses on live-cell imaging/analysis to reveal how chromatin behaves in living cells and how its behavior contributes to cellular functions.
www.nature.com/articles/s41...
www.science.org/doi/10.1126/...
Interested? Please DM me!
www.nature.com/articles/s41...
www.science.org/doi/10.1126/...
Interested? Please DM me!
And our new preprint! "Gene-scale in vitro reconstitution reveals histone acetylation directly controls chromatin architecture", biorxiv (2024). Led by Yohsuke T Fukai, in collaboration with Kurumizaka lab (U Tokyo) and Umehara lab (RIKEN BDR).
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
November 27, 2024 at 12:08 AM
And our new preprint! "Gene-scale in vitro reconstitution reveals histone acetylation directly controls chromatin architecture", biorxiv (2024). Led by Yohsuke T Fukai, in collaboration with Kurumizaka lab (U Tokyo) and Umehara lab (RIKEN BDR).
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Recent collaboration: "A Percolation Model of Emergence: Analyzing Transformers Trained on a Formal Language", arXiv:2408.12578 (2024). With Ekdeep Lubana, Robert Dick, and Hidenori Tanaka.
arxiv.org/abs/2408.12578
arxiv.org/abs/2408.12578
November 27, 2024 at 12:00 AM
Recent collaboration: "A Percolation Model of Emergence: Analyzing Transformers Trained on a Formal Language", arXiv:2408.12578 (2024). With Ekdeep Lubana, Robert Dick, and Hidenori Tanaka.
arxiv.org/abs/2408.12578
arxiv.org/abs/2408.12578
Recent work from our group: "Activity-induced ferromagnetism in one-dimensional quantum many-body systems", Phys. Rev. Research 6, 023096 (2024). With Kazuaki Takasan and Kyosuke Adachi.
doi.org/10.1103/Phys...
doi.org/10.1103/Phys...
November 26, 2024 at 11:55 PM
Recent work from our group: "Activity-induced ferromagnetism in one-dimensional quantum many-body systems", Phys. Rev. Research 6, 023096 (2024). With Kazuaki Takasan and Kyosuke Adachi.
doi.org/10.1103/Phys...
doi.org/10.1103/Phys...
Recent work from our group: "Dynamical phase transitions in single particle Brownian motion without drift", arXiv:2407.18282 (2014), with Takahiro Kanazawa and Kyosuke Adachi.
arxiv.org/abs/2407.18282
arxiv.org/abs/2407.18282
November 26, 2024 at 11:50 PM
Recent work from our group: "Dynamical phase transitions in single particle Brownian motion without drift", arXiv:2407.18282 (2014), with Takahiro Kanazawa and Kyosuke Adachi.
arxiv.org/abs/2407.18282
arxiv.org/abs/2407.18282
Recent work from our group: "Predicting Heteropolymer Interactions: Demixing and Hypermixing of Disordered Protein Sequences", Physical Review X 14, 4902 (2024), with Kyosuke Adachi.
doi.org/10.1103/Phys...
doi.org/10.1103/Phys...
November 26, 2024 at 11:48 PM
Recent work from our group: "Predicting Heteropolymer Interactions: Demixing and Hypermixing of Disordered Protein Sequences", Physical Review X 14, 4902 (2024), with Kyosuke Adachi.
doi.org/10.1103/Phys...
doi.org/10.1103/Phys...