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Arata Wakimoto

@arataw.bsky.social
161 followers 512 following 78 posts

Living a life of troubleshooting🫠 🐶Univ. of Washington, JSPS Overseas Postdoc fellow ←🌱Univ. of Tsukuba, Japan. Arata Wakimoto / 脇本 新 JP/EN #StemCells, #DevBio, #EvoDevo Love☕ #Coffee and 👾 #Games

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Reposted by Arata Wakimoto
Yours in negritude, Ryan K. Smith @mewefree.bsky.social · 10/10/2026
Geese are insane: Example #2,987,304
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Arata Wakimoto @arataw.bsky.social · 27/09/2026
Stem Cell & Developmental Biology Early Career Symposium was one of the greatest event I've ever attended. Good scientific input, meeting new people, sharing excitement/failure. I am feeling so lucky that this was held at right across the street I walk everyday!
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Arata Wakimoto @arataw.bsky.social · 25/09/2026
One of the best moments in conferences is to meet someone who reached to the same problem independently🤝
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Arata Wakimoto @arataw.bsky.social · 31/07/2026
www.biorxiv.org/content/10.6... In vivo reconstruction of the cell lineage history of a developing mouse with DNA Typewriter, from zygote to late organogenesis 😍
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Reposted by Arata Wakimoto
the Node @the-node.bsky.social · 19/06/2026
The elephant in the room: impact factor 🐘 @jamesbriscoe.bsky.social and @amjeve.uk openly discuss their views on the impact factor and how the field of developmental biology is perceived through its lens. thenode.biologists.com/the-elephant... #DevBio #AcademicPublishing #ImpactFactor
thenode.biologists.com
The elephant in the room: impact factor - the Node
As new journal impact factors are released this week, it's worth considering what an impact factor really is and whether the academic community should put
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Arata Wakimoto @arataw.bsky.social · 15/06/2026
Xenophagocytosis blockade enhances interspecies chimerism: Cell www.cell.com/cell/fulltex... Great to see this on Cell!
cell.com
Xenophagocytosis blockade enhances interspecies chimerism
Host macrophages limit interspecies chimerism via xenophagocytosis, whereby stressed donor cells expose phosphatidylserine as an “eat-me” signal. Blocking xenophagocytosis successfully enhances donor ...
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Reposted by Arata Wakimoto
Cell - a Cell Press journal @cp-cell.bsky.social · 05/06/2026
Now online! Xenophagocytosis blockade enhances interspecies chimerism
dlvr.it
Xenophagocytosis blockade enhances interspecies chimerism
Host macrophages limit interspecies chimerism via xenophagocytosis, whereby stressed donor cells expose phosphatidylserine as an “eat-me” signal. Blocking xenophagocytosis successfully enhances donor chimerism and enables efficient exogenic organogenesis.
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Arata Wakimoto @arataw.bsky.social · 15/06/2026
Opus4.8 keeps failing to call list_events from Gcal MCP since yesterday. Sonnet4.6, Opus4.6, Opus4.7 can call it. Weird! Might be related to the Fable's issue?
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Arata Wakimoto @arataw.bsky.social · 13/05/2026
This visual timer is by far the best buy of the year for my setup
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Reposted by Arata Wakimoto
Riddhiman Garge @riddhiman.bsky.social · 25/04/2026
1/ Thrilled to share our latest: an exciting collaboration across the @jshendure.bsky.social, @leastarita.bsky.social, @nobuhamazaki.bsky.social and @dschweppe.bsky.social labs! 🧵 below- #SystemsBiology #SCBEM #MultiOmics #Gastruloids www.nature.com/articles/s41...
nature.com
The proteomic landscape and temporal dynamics of human and mouse gastruloid development - Nature Cell Biology
Garge et al. use experimentally matched mass spectrometry and RNA-sequencing to quantify proteins, phosphosites and transcripts across four key stages of human and mouse gastruloid development.
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Arata Wakimoto @arataw.bsky.social · 27/04/2026
Happy to see our new paper on benchmarking RNA/protein dynamics in human and mouse gastruloids in Nature Cell Biology! 🎉 www.nature.com/articles/s41...
nature.com
The proteomic landscape and temporal dynamics of human and mouse gastruloid development - Nature Cell Biology
Garge et al. use experimentally matched mass spectrometry and RNA-sequencing to quantify proteins, phosphosites and transcripts across four key stages of human and mouse gastruloid development.
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Arata Wakimoto @arataw.bsky.social · 31/03/2026
Inhibition of MAFB and PI3K/AKT Signaling for Hereditary FSGS with Multicentric Carpotarsal Osteolysis : Journal of the American Society of Nephrology journals.lww.com/jasn/abstrac...
journals.lww.com
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Arata Wakimoto @arataw.bsky.social · 17/03/2026
0.33g mitigates muscle atrophy while 0.67g preserves muscle function and myofiber type composition in mice during spaceflight - goo.gl/scholar/MGaj1S Congrats for the team!!
goo.gl
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Reposted by Arata Wakimoto
BK. Titanji @boghuma.bsky.social · 25/01/2026
William Foege has died. He was a central architect of smallpox eradication, pioneering surveillance-driven ring vaccination when vaccine supply was limited. That strategy helped eliminate the deadliest human pathogen we’ve ever known. www.nytimes.com/2026/01/24/u...
nytimes.com
William H. Foege, Key Figure in the Eradication of Smallpox, Dies at 89
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Reposted by Arata Wakimoto
Nozomu Yachie @nzmyachie.bsky.social · 26/01/2026
Please 🔁 My group at UBC received an allocation from the school to apply for the Canada Impact+ Training Awards (postdoc). Everything is moving fast but please email me in 48 hours with a CV if you are outside Canada and interested😎 Yachie lab: yachie-lab.org sshrc-crsh.canada.ca/en/funding/o...
sshrc-crsh.canada.ca
Canada Impact+ Research Training Awards
The Canada Impact+ Research Training Awards are a one-time initiative designed to recruit international or returning Canadian students and postdoctoral researchers to Canada. These awards support the recruitment of doctoral students and postdoctoral researchers in priority areas, helping build capacity, strengthen the research ecosystem and enhance Canada’s global competitiveness.
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Arata Wakimoto @arataw.bsky.social · 26/01/2026
It's my honor to be selected as one of the inaugural SeaBridge Fellows!👏 seabridge.uw.edu/2026/01/22/s...
seabridge.uw.edu
SeaBridge Selects Inaugural Cohort of Eight Fellows from UW and Fred Hutch - SeaBridge
The first cohort of postdoctoral researchers has been selected for the SeaBridge Fellowship, a translational research training program affiliated with the Seattle Hub for Synthetic Biology (Seattle Hu...
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Arata Wakimoto @arataw.bsky.social · 07/01/2026
I never knew the title of the original BLAST paper was 'A Greedy Algorithm for Aligning DNA Sequences'. I just came across it and it's too cool!🤯 www.liebertpub.com/doi/10.1089/...
liebertpub.com
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Reposted by Arata Wakimoto
Science in Seattle @scienceinseattle.com · 07/01/2026
The WRF has awarded three-year postdoctoral fellowships to a new cohort of 12 early-career researchers who will pursue innovative, high-impact projects. 📝 See the full list including Drs. Winston Dredge, Nastacia Goodwin, Stefany Cruz, and Nathaniel Ritz: bit.ly/3L0DhEM
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Arata Wakimoto @arataw.bsky.social · 24/12/2025
www.biorxiv.org/content/10.6... Extremely fine tuned. genuinely admiring!
biorxiv.org
Human trunk embryoids with patterned anterior-posterior and dorsal-ventral body axes: utility for understanding human development and disease
Human embryoid models enable mechanistic studies of development and disease. We generated trunk embryoids from human pluripotent stem cells that recapitulate posterior trunk formation at Carnegie stag...
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Arata Wakimoto @arataw.bsky.social · 21/12/2025
Favorite fidget toy
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Reposted by Arata Wakimoto
Naomi Moris @nmoris.bsky.social · 16/12/2025
Lovely little pre-Christmas present to see this out @natcellbio.nature.com! Some 🔥 new results in here since the biorvix incl (1) a new RARE-GFP reporter ✳️🙌, (2) additional NMP quantification 🔢, (3) no neural tube patterning on RA inhibition 🙅 etc. Enjoy! 😍 www.nature.com/articles/s41...
nature.com
Modelling co-development between the somites and neural tube in human trunk-like structures - Nature Cell Biology
Makwana, Tilley et al. generate human stem cell-based trunk-like structures approximating Carnegie stage 13–14 of development. They use them to model and study the development of the thoracic and lumbar trunk.
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Reposted by Arata Wakimoto
derek van vliet @derek.bike · 25/11/2025
when we say we want more streets to be pedestrianized, this is what we mean
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Reposted by Arata Wakimoto
allen institute @alleninstitute.org · 20/10/2025
Congratulations to Karel Svoboda and @jshendure.bsky.social on their election to the National Academy of Medicine (@nam.edu)! Election to the Academy is one of the highest honors in health and medicine. #NAMmtg More on their journeys to this achievement: alleninstitute.org/news/karel-s...
alleninstitute.org
Karel Svoboda and Jay Shendure elected to National Academy of Medicine
The honor recognizes leaders who have demonstrated outstanding achievement and made lasting contributions to the advancement of the medical sciences, health care, and public health
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Arata Wakimoto @arataw.bsky.social · 17/10/2025
www.biorxiv.org/content/10.1... Simplified In Vitro Generation of Human Gastruloids for Modelling Early Development
biorxiv.org
Simplified In Vitro Generation of Human Gastruloids for Modelling Early Development
The purpose of this study was to optimize the efficiency and cost of human gastruloid formation by testing and adjusting individual parameters using as examples two distinct human pluripotent stem cel...
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Arata Wakimoto @arataw.bsky.social · 15/10/2025
Plasmidsaurus's 50$ RNA-seq is just amazing. I won't do qPCRs anymore
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Reposted by Arata Wakimoto
plasmidsaurus @plasmidsaurus.bsky.social · 15/10/2025
🦖 Something HUGE just hatched. Plasmidsaurus now offers RNA sequencing for gene expression analysis: • As fast as 3 day turnaround • $50/sample for academia, $80 for industry • Up to ~10M unique transcript 3’ end reads per sample • Interactive results Explore Plasmidsaurus RNA-Seq today.
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Arata Wakimoto @arataw.bsky.social · 06/10/2025
Happy Mid-Autumn Festival!!🥮🎑🌕 I love mooncakes so much
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Reposted by Arata Wakimoto
Simon Fisher @profsimonfisher.bsky.social · 04/10/2025
Twenty-four years ago today, our paper “A forkhead-domain gene is mutated in a severe speech and language disorder” was published: www.nature.com/articles/350.... A personal thread about the ups & downs of the journey we took to get to that point....1/n 🗣️🧬🧪
Image shows the first two printed pages of the paper “A forkhead-domain gene is mutated in a severe speech and language disorder” by Cecilia Lai and colleagues, published in Nature in 2001 (volume 413, pages 519-523). The abstract reads as follows:
Individuals affected with developmental disorders of speech and language have substantial difficulty acquiring expressive and/or receptive language in the absence of any profound sensory or neurological impairment and despite adequate intelligence and opportunity. Although studies of twins consistently indicate that a significant genetic component is involved, most families segregating speech and language deficits show complex patterns of inheritance, and a gene that predisposes individuals to such disorders has not been identified. We have studied a unique three-generation pedigree, KE, in which a severe speech and language disorder is transmitted as an autosomal-dominant monogenic trait. Our previous work mapped the locus responsible, SPCH1, to a 5.6-cM interval of region 7q31 on chromosome 7. We also identified an unrelated individual, CS, in whom speech and language impairment is associated with a chromosomal translocation involving the SPCH1 interval. Here we show that the gene FOXP2, which encodes a putative transcription factor containing a polyglutamine tract and a forkhead DNA-binding domain, is directly disrupted by the translocation breakpoint in CS. In addition, we identify a point mutation in affected members of the KE family that alters an invariant amino-acid residue in the forkhead domain. Our findings suggest that FOXP2 is involved in the developmental process that culminates in speech and language.
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Reposted by Arata Wakimoto
Raquel Fueyo @fueyoraquel.bsky.social · 01/10/2025
Today in @nature.com, we present our work leveraging functional genomics and human blastoids to uncover a human-specific mechanism in preimplantation development driven by the endogenous retrovirus HERVK. Special thanks to the reviewers whose comments improved our manuscript a lot! rdcu.be/eI3tD
rdcu.be
A human-specific regulatory mechanism revealed in a pre-implantation model
Nature - Genetic manipulation of blastoids reveals the role of recently emerged transposable elements and genes in human development.
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Arata Wakimoto @arataw.bsky.social · 02/10/2025
www.nature.com/articles/s41... Cool paper! Very happy to see my friend's name on it
nature.com
A human-specific regulatory mechanism revealed in a pre-implantation model - Nature
Genetic manipulation of blastoids reveals the role of recently emerged transposable elements and genes in human development.
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Arata Wakimoto @arataw.bsky.social · 27/09/2025
📢📢An amazing work from my lab mates!🙌
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Reposted by Arata Wakimoto
Nobu Hamazaki @nobuhamazaki.bsky.social · 26/09/2025
New paper from my lab and @jshendure.bsky.social lab! Led by the brilliant @zukailiu.bsky.social and @cxqiu.bsky.social. We tackled how anterior and posterior progenitor cells cooperate to self-organize into an embryonic structure (termed AP-gastruloid). (1/n) www.biorxiv.org/content/10.1...
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Arata Wakimoto @arataw.bsky.social · 09/09/2025
Thinking about interspecies differences is always fun. Glad to see this story from my previous lab is out!
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Arata Wakimoto @arataw.bsky.social · 08/09/2025
Sadaki, S., Tsuji, R., Hayashi, T. et al. Large MAF transcription factors reawaken evolutionarily dormant fast-glycolytic type IIb myofibers in human skeletal muscle. Skeletal Muscle 15, 19 (2025). doi.org/10.1186/s133...
doi.org
Large MAF transcription factors reawaken evolutionarily dormant fast-glycolytic type IIb myofibers in human skeletal muscle - Skeletal Muscle
Background Small mammals such as mice rely on type IIb myofibers, which express the fast-contracting myosin heavy chain isoform Myh4, to achieve rapid movements. In contrast, larger mammals, including...
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Arata Wakimoto @arataw.bsky.social · 29/08/2025
Are there any reagents/technique available to quench fluorescent proteins (like mCitrin)? My cell line has a few fluorescent reporters so that they use up channels and I cant stain multiple targets. Appearently they are still very bright after 4% PFA fixation.
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Arata Wakimoto @arataw.bsky.social · 20/08/2025
The generation of viable, structurally integrated human-mouse chimaeras through enhanced hPSCs proliferation bioRxiv 2025.06.24.661270; doi: doi.org/10.1101/2025...
doi.org
The generation of viable, structurally integrated human-mouse chimaeras through enhanced hPSCs proliferation
The generation of human organs in animals through blastocyst complementation offers a promising solution to the shortage of transplantable organs. While human pluripotent stem cells (hPSCs) can contri...
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Reposted by Arata Wakimoto
Society for Developmental Biology @socdevbio.bsky.social · 18/08/2025
🐟 Zebrafish (Danio rerio): Clear as glass, zebrafish embryos let you watch organs form in real time. A powerhouse for studying organogenesis and regeneration, they’re also champions of transgenic expression of fluorescent proteins 🌈 image from Gopi Shah 🧪 #ModelMonday #DevBio
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Arata Wakimoto @arataw.bsky.social · 01/08/2025
Gemini's Gcal integration is not reliable at all... It cant hook up schedules from multiple calendars
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Arata Wakimoto @arataw.bsky.social · 19/07/2025
First time to see empty I-5
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Arata Wakimoto @arataw.bsky.social · 17/07/2025
Comparative single-cell analyses reveal evolutionary repurposing of a conserved gene programme in bat wing development www.nature.com/articles/s41... "Bats are the only mammals capable of self-powered flight" so cool
nature.com
Comparative single-cell analyses reveal evolutionary repurposing of a conserved gene programme in bat wing development - Nature Ecology & Evolution
Single-cell comparison of developing bat and mouse limbs reveals conservation of cell populations and gene expression patterns, and suggests repurposing of genes involved in proximal limb development ...
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Reposted by Arata Wakimoto
Axel Visel @axelvisel.bsky.social · 16/07/2025
No new genes needed to fly - just rewire what you have! 🦇🧬 Great new paper from the labs of @fany-real.bsky.social @stemundi.bsky.social @dariloops.bsky.social doi.org/10.1038/s415... #EvoDevo #SingleCell #BatWings
doi.org
Comparative single-cell analyses reveal evolutionary repurposing of a conserved gene programme in bat wing development - Nature Ecology & Evolution
Single-cell comparison of developing bat and mouse limbs reveals conservation of cell populations and gene expression patterns, and suggests repurposing of genes involved in proximal limb development ...
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Arata Wakimoto @arataw.bsky.social · 07/07/2025
Apparently if you write down 300 random numbers, researchers can identify you with 96.5% accuracy. Cool. www.nature.com/articles/s41...
nature.com
A cognitive fingerprint in human random number generation - Scientific Reports
Scientific Reports - A cognitive fingerprint in human random number generation
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Arata Wakimoto @arataw.bsky.social · 07/07/2025
Most AI tools for research help me find more papers to read but... what I recently need is AI that helps me read fewer papers. Drowning in literature, I need it to suggest to me which 8 of my current 50 papers I can safely skip.
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Arata Wakimoto @arataw.bsky.social · 02/07/2025
This week marks a year since I moved to Seattle! 🏔️ 🌊🏙️ Pivoting from mouse embryo work to a human embryo model, while moving to a new country, has been a real challenge. But I feel more equipped now - looking forward to what year two brings!
A pebble beach on Vashon Island with calm sea
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Arata Wakimoto @arataw.bsky.social · 28/06/2025
Japan's SPRING fellowship shouldn't exclude international PhD students. Diverse research teams create better learning opportunities. Please don't let nationalism divide science. www.change.org/p/%E5%8D%9A%...
change.org
あなたの声がチカラになります
博士課程の学生を国籍で差別しないでください! ― SPRING制度「日本人限定」見直し方針に反対します ―
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Arata Wakimoto @arataw.bsky.social · 05/06/2025
Many papers from Osaka U have caught my eye recently. Genuinely admire them
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Arata Wakimoto @arataw.bsky.social · 05/06/2025
Exciting title👀😮 Maternal iron deficiency causes male-to-female sex reversal in mouse embryos www.nature.com/articles/s41...
nature.com
Maternal iron deficiency causes male-to-female sex reversal in mouse embryos - Nature
Iron-deficient conditions in pregnant mice can cause XY mouse embryos to develop female rather than male genitalia, revealing that iron metabolism has a role in determining male sex in mice.
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Arata Wakimoto @arataw.bsky.social · 04/06/2025
This beautiful video just came across to me - just like the sun☀️ www.hhmi.org/beautifulbio...
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Arata Wakimoto @arataw.bsky.social · 03/06/2025
Good news for Coffee lovers www.nature.com/articles/s41...
nature.com
Coffee consumption is associated with intestinal Lawsonibacter asaccharolyticus abundance and prevalence across multiple cohorts - Nature Microbiology
Coffee consumption is associated with the presence and abundance of a specific member of the human gut microbiome, Lawsonibacter asaccharolyticus, and changes to the plasma metabolome.
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Arata Wakimoto @arataw.bsky.social · 27/05/2025
Just gave a 1-hour+ presentation. Every time I give a talk, I realize I enjoy speaking about what I've learned in front of people. probably more than doing experiments. Like I do experiments to get topics to talk about next time. Does anyone have a similar feeling?
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