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Wataru Kobayashi

@wkobayashi.bsky.social
122 followers 169 following 32 posts

PI at the University of Dundee / Wellcome CDA holder / Pre-implantation development / Genomics / TFs / Chromatin / Biochemistry / Cryo-EM Postdoc: MPIB, IMBA Ph.D: Waseda Univ. Lab website: sites.dundee.ac.uk/wataru-kobayashi…

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Reposted by Wataru Kobayashi
Niakan Lab @niakanlab.bsky.social · 26/06/2026
Congrats to Oliver Bower, @inaharasimov.bsky.social and everyone involved on the publication of our latest findings! www.nature.com/articles/s41...
nature.com
Base editing reveals an essential role for NANOG in human embryogenesis - Nature
Nature - Base editing reveals an essential role for NANOG in human embryogenesis
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Reposted by Wataru Kobayashi
Karolin Luger @nucleosomepolice.bsky.social · 17/06/2026
someone in the lab needs to use the PrepCell and apparently i am the last person to have used it 🙃. Needless to say there is a lot of sceptisism. But i have the receipts! Had to explain about degassing polyacrylamide, and analog recorders! lets see whether we can get this puppy to work.
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Reposted by Wataru Kobayashi
Takaku Lab @takakulab.bsky.social · 07/05/2026
Our new paper is out in Communications Medicine! By analyzing circulating chromatin fragments (cfDNA) from patients with metastatic breast cancer, we captured treatment-associated fragmentomics changes after CDK4/6 inhibitor therapy. Grateful to all collaborators! www.nature.com/articles/s43...
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Wataru Kobayashi @wkobayashi.bsky.social · 01/05/2026
ポスドク募集中です! マウス初期胚における転写因子を介したepigenetic reprogrammingを研究しています。イギリスのダンディー大学で、発生初期のクロマチン研究をしてみませんか? 以下から応募可能です。海外学振の応募も支援します! www.dundee.ac.uk/work-for-us/...
dundee.ac.uk
Postdoctoral Research Assistant
Closing date: Thursday 28 May 2026, 23:59
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Wataru Kobayashi @wkobayashi.bsky.social · 30/04/2026
🚨Pls repost!🚨 I'm looking for a postdoc who will lead the research investigating the mechanisms of epigenetic reprogramming using mouse embryos. Background in chromatin biology and genomics is desirable. The application deadline is 28 May. Please apply here!! www.dundee.ac.uk/work-for-us/...
dundee.ac.uk
Postdoctoral Research Assistant
Closing date: Thursday 28 May 2026, 23:59
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Wataru Kobayashi @wkobayashi.bsky.social · 15/04/2026
My lab website has launched!! sites.dundee.ac.uk/wataru-kobay...
sites.dundee.ac.uk
Wataru Kobayashi Lab
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Wataru Kobayashi @wkobayashi.bsky.social · 11/03/2026
I am excited to have been awarded a Wellcome Trust CDA fellowship. This award allows us to dissect the mechanistic basis for trophectoderm lineage commitment across scales, from atoms to embryos. I will start the recruitment for several positions. Stay tuned! www.dundee.ac.uk/news/wellcom...
dundee.ac.uk
Wellcome Career Development Awards awarded to Dr Wataru Kobayashi
Dr Wataru Kobayashi has been awarded £ 2.16M from the Wellcome Trust to study the earliest step of mammalian development
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Wataru Kobayashi @wkobayashi.bsky.social · 10/03/2026
This is a fascinating historical account of RecA-mediated D-loop formation. I was particularly surprised to learn that Meselson and Radding established the key HR model (Meselson-Radding model) in Scotland! www.pnas.org/doi/full/10....
pnas.org
Charles M. Radding: A love of science and art | PNAS
Charles M. Radding: A love of science and art
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Wataru Kobayashi @wkobayashi.bsky.social · 27/01/2026
NR5A2 overexpression improves SCNT efficiency and enhances ZGA by promoting H3K27ac deposition. Great work! journals.plos.org/plosbiology/...
journals.plos.org
Overexpression of the pioneer transcription factor Nr5a2 promotes the development of mouse somatic cell nuclear transfer embryos
Somatic Cell Nuclear Transfer (SCNT) is an approach that enables the generation of an embryo from a somatic cell, but its efficiency remains low due to epigenetic barriers. This study shows that pione...
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Reposted by Wataru Kobayashi
Alicia Michael @aliciakmichael.bsky.social · 31/12/2025
Happy New Year! Check out 👀our new protocol paper on the analysis of transcription factor-nucleosome interactions! Hope you find it useful 🔬🧬Was a pleasure to write up with you @wkobayashi.bsky.social and Kikuë Tachibana!
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Wataru Kobayashi @wkobayashi.bsky.social · 29/12/2025
Happy to share a protocol for analysis of TF-nucleosome interactions and cryo-EM structure determination in STAR Protocols. I had a great opportunity to describe this protocol with @aliciakmichael.bsky.social. Thank you very much, all! www.sciencedirect.com/science/arti...
sciencedirect.com
Protocol for integrative analysis of transcription factor-nucleosome interactions using SeEN-seq and cryo-EM structure determination
Pioneer transcription factors (TFs) possess the ability to read out DNA motifs embedded within nucleosomes, driving changes in gene expression during …
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Wataru Kobayashi @wkobayashi.bsky.social · 08/12/2025
Excited to announce that our peer-reviewed manuscript is online in the Development journal @dev-journal.bsky.social. The manuscript was much improved through the peer-review process, and I am grateful to the reviewers for their valuable feedback. journals.biologists.com/dev/article/...
journals.biologists.com
Feed-forward loops by NR5A2 ensure robust gene activation during pre-implantation development
Pioneer transcription factors are crucial for regulating zygotic genome activation and cell differentiation during mouse pre-implantation development. However, how pioneer factors function collectivel...
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Reposted by Wataru Kobayashi
Takaku Lab @takakulab.bsky.social · 13/11/2025
Our first cell-free DNA paper is now published! Thank you to all co-authors and collaborators for their contributions.
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Wataru Kobayashi @wkobayashi.bsky.social · 01/09/2025
I'm looking forward to presenting at the Third Scottish Cryo-EM Symposium tomorrow. A nice opportunity to meet cryo-EM folks in Scotland.
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Wataru Kobayashi @wkobayashi.bsky.social · 30/05/2025
This method chapter describes the CUT&Tag approach for profiling transcription factors during murine ZGA. I hope it will be helpful for others studying TF binding profiles in similar contexts. link.springer.com/protocol/10....
link.springer.com
CUT&Tag for Transcription Factor Binding Profiles During Mammalian Zygotic Genome Activation
Zygotic genome activation (ZGA) triggered by transcription factors (TFs) is a critical event to facilitate subsequent embryonic development. However, the paucity of material poses a challenge for mapp...
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Wataru Kobayashi @wkobayashi.bsky.social · 22/04/2025
I’m pleased to announce that I have now officially started my research group at the University of Dundee, UK. My laboratory focus on how transcription factors orchestrate epigenetic reprogramming in mammalian embryos.
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Reposted by Wataru Kobayashi
Geoff Faulkner @faulknerlab.bsky.social · 28/03/2025
Our study with Anjana Rao's lab was just published at NSMB 🥳 Shows how OGT prevents TET proteins from activating retrotransposons, particularly those in heterochromatin. Paper has 6-base and ONT sequencing data from OGT iKO mESCs, and also interesting OGT inhibitor data 👀. rdcu.be/efuho
rdcu.be
OGT prevents DNA demethylation and suppresses the expression of transposable elements in heterochromatin by restraining TET activity genome-wide
Nature Structural & Molecular Biology - Here the authors show that the disruption of OGT expression in mouse embryonic stem cells unleashes TET activity, causing genome-wide decreases in DNA...
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Reposted by Wataru Kobayashi
Takaku Lab @takakulab.bsky.social · 24/03/2025
Our second cell-free DNA manuscript is here! In collaboration with Dr. Takada’s group, we explore how abemaciclib treatment response in metastatic breast cancer can be monitored via circulating chromatin fragments: www.researchsquare.com/article/rs-5...
researchsquare.com
Exploring Mechanism of Action of Abemaciclib in Breast Cancer Through Circulating Chromatin Fragment
Cell free DNA (cfDNA) analysis has a large potential for cancer patient diagnosis. Given the evidence that cfDNA partially preserves chromatin architecture of tumor cells, it potentially allows the de...
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Reposted by Wataru Kobayashi
bioRxiv Developmental Biology @biorxiv-devbio.bsky.social · 20/02/2025
Feed-forward loops by NR5A2 ensure robust gene activation during pre-implantation development www.biorxiv.org/content/10.1101/202…
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Wataru Kobayashi @wkobayashi.bsky.social · 20/02/2025
🚀Excited to share preprint as my last work in the Tachibana lab! Our study shows how the pioneer factor NR5A2 ensures robust gene activation through feed-forward regulatory loops with lineage-determining factors. A quick summary follows (1/n) www.biorxiv.org/content/10.1...
biorxiv.org
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