Institute for Quantitative Biosciences, UTokyo. We study the mechanism of transcriptional regulation in the Drosophila embryo.
Tokyo-to, Japan
Joined September 2019
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How do distal enhancers control transcription dynamics in living cells? Check out our latest work published in @MolecularCell!! We show that the dynamic assembly and disassembly of TF clusters at enhancers are a major source of transcriptional bursting. cell.com/molecular-cell/full…
Takashi Fukaya retweeted
The Nozaki Lab at UMass Amherst is recruiting graduate students! We study chromosome dynamics and meiosis using live-cell imaging. Apply through MCB or Plant Biology. Both programs welcome! Any questions? Feel free to DM me. nozakilab.org/
#Chromosome #Meiosis #Imaging
Takashi Fukaya retweeted
1/12 CTCF has updated its LinkedIn again! Our preprint tracks CTCF's “career” across Bilateria.
From DNA-binding to transcription regulation & genome architecture. Read it: biorxiv.org/content/10.64898…
And back-to-back work from Darío Lupiáñez's group: biorxiv.org/content/10.64898…
vvv
羊土社より出版された理系総合のための生命科学第6版、４章「遺伝子の発現1」を担当しました。セントラルグマの記載について、1957年のCrickによるオリジナルの定義に従い、「配列情報の一方向性」を示すものとして改訂を行いました。
yodosha.co.jp/yodobook/book/…
Takashi Fukaya retweeted
Integration by parts: the multi-layered mechanisms of cis-regulatory control. Check out this review by @jake_cs_ @briscoejames & @joadelas in @molecularcell #ASHG26 hubs.ly/Q04BHsSC0
Takashi Fukaya retweeted
Excited to share a preprint on the structural mechanism of transcriptional activation by human Mediator, studied using integrative structural modeling.
Many thanks to Lacra Bintu @BintuLacra for helpful discussions!
biorxiv.org/content/10.64898…
@generegulation @MED_COMPLEX
Takashi Fukaya retweeted
An excellent story on condensate ageing and amyloid fibril.
For FUS, ageing condensates become glassy and arrested, while amyloid fibres grow mostly in the dilute phase outside them.
Two distinct solid states coexist without directly interconverting.
Fibres are thought to emerge from a dense protein condensate ageing into a glassy state. It is now shown that protein fibres and glassy condensates may result from two competing ageing pathways.
nature.com/articles/s41567-0…
Takashi Fukaya retweeted
Design of synthetic activators for programmable
gene expression
doi.org/10.64898/2026.10.19.…
Takashi Fukaya retweeted
Thrilled to share my freshly "baked" Baker lab paper. We took a bottom-up approach to designing transcriptional regulators. Instead of relying on natural activation domains, we designed compact proteins that recruit specific cofactors. Activators for now, repressors to come!
Takashi Fukaya retweeted
Ever wanted to watch chromosomes fold?
lefsim simulates loop extrusion live in your browser. Add, remove and drag CTCF sites around, watch contact maps emerge, and more.
lefsim.abdenlab.org
Very sad to hear of Nori Satoh’s passing. oist.jp/news-center/news/202…
Takashi Fukaya retweeted
Transcription factor specificity isn’t encoded by DNA motifs alone. Live-cell single-molecule imaging shows that unstructured transcription factor interactions enable emergent specificity.
science.org/doi/10.1126/scie…
Takashi Fukaya retweeted
New Online! Scaling up measurements of the interactions that build condensates dlvr.it/TVv4S9
Takashi Fukaya retweeted
Nifty new paper on supercoiling influence in C. elegans!
"Genome architecture shapes transcriptional responses to topoisomerase depletion in C. elegans." work from Morao et al. link below 👇
Takashi Fukaya retweeted
Intraspecific sequence variation and complete genomes refine the identification of rapidly evolved regions in humans dlvr.it/TVw7SB
Takashi Fukaya retweeted
A bright protein cluster inside a nucleus is not, by itself, evidence for a liquid droplet.
In living fruit-fly embryos, researchers watched Dorsal, a protein that helps regulate the developing body plan. They changed the number of places it could bind on regulatory DNA. More binding sites produced stronger, more persistent local protein accumulations.
A model based on binding, diffusion and cooperation between nearby binding events reproduced key features without requiring proteins to form a separate liquid-like phase.
The result does not rule out droplets elsewhere. It gives a concrete alternative to test: perhaps the DNA binding sites help explain the crowd.
New Science Advances paper:
doi.org/10.1126/sciadv.aeh10…
