@R_Pantier

Researcher @IGBMC interested in chromatin and cell fate decisions | Former postdoc in Adrian Bird's lab (University of Edinburgh)

 Strasbourg, France
igbmc.fr/en/recherche/teams/genomic-and-epigenomic-regulation-of-cell-fate
Joined December 2019
  • Tweets33
  • Following438
  • Followers212
5Media
Our study on MeCP2 & heterochromatin is finally published @NatureComms. Great collaboration with researchers @WTcell @roslininstitute @mpi_ie and @VIBLifeSciences. nature.com/articles/s41467-0…
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Raphaël Pantier retweeted
preLights@preLights6 Aug 2025
Genetic gatekeepers of gametogenesis? TET proteins jointly jam germline specification, synergistically steering cells towards somatic fates. Justin Gutkowski's new #preLight talks about the work of @R_Pantier and the team. Have a look! prelights.biologists.com/hig…

TET knockout cells transit between pluripotent states and exhibit precocious germline entry -...

Genetic gatekeepers of gametogenesis? TET proteins jointly jam germline specification, synergistically steering cells towards somatic fates.

prelights.biologists.com
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Just a few days left to apply! Join the RNA Dynamics in Cancer group @CRUK_MI as a Postdoc!
sylvain Delaunay@sylvainDelauna418 Nov 2024
📢 Join the RNA Dynamics in Cancer group at CRUK Manchester as a Postdoctoral Researcher! Dive into impactful work on diet, RNA modification, and cancer progression. Learn more and apply here: cruk.manchester.ac.uk/recrui… (MI/24/58) #CancerResearch #RNA #PostdocOpportunity @CR_UK
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Duncan Sproul@sproul_lab13 Nov 2024
Pleasure to continue our collaboration with @mdrwilson and group and play a small part in this study which is now out in the paper version. Read on to learn more about DNMT3A's interaction with H3K36me2 and H2AK119Ub modified nucleosomes: embopress.org/doi/full/10.10… #epigenetics

The N-terminal region of DNMT3A engages the nucleosome surface to aid chromatin recruitment

EMBO Reports - DNA methyltransferase 3A (DNMT3A) plays a critical role in establishing and maintaining DNA methylation patterns in vertebrates. Here we structurally and biochemically explore the...

link.springer.com
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Anaïs Bardet@a_bardet4 Nov 2024
Analyzing whole genome DNA methylation data? Our new method MethyLasso is out in NAR! It can help you identify regions with low or partial methylation (LMR, UMR, DMV, PMD, PMD) or differentially methylated regions (DMR) and was benchmarked against others doi.org/10.1093/nar/gkae880

MethyLasso: a segmentation approach to analyze DNA methylation patterns and identify differentially...

Abstract. DNA methylation is an epigenetic mark involved in the regulation of gene expression, and patterns of DNA methylation anticorrelate with chromatin

academic.oup.com
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Happy to share two post-doc papers co-authored with the amazing @AnaMonteagudo4 and @teresa_urli. We had amazing collaborators for both projects, even our supervisor @maxvcg joined in on the experimenting! 1: pubmed.ncbi.nlm.nih.gov/3918… 2: rdcu.be/dXXqh
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Darko Barisic@LabBarisic3 Jul 2024
“cBAF generates subnucleosomes that expand OCT4 binding and function beyond DNA motifs at enhancers.” Amazing story by @matthieu_gerard @Marina_Nocente. Congrats to all the authors. nature.com/articles/s41594-0…

cBAF generates subnucleosomes that expand OCT4 binding and function beyond DNA motifs at enhancers

Nature Structural & Molecular Biology - Here, the authors show that the canonical BRG/BRM-associated factor (SWI/SNF) chromatin remodeler generates subnucleosomes containing...

nature.com
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In short, we show that MeCP2 localisation is independent of heterochromatin, and that heterochromatic “condensates” (also known as chromocenters) are not conserved across mammals. For more information, please see our paper, as well as this thread: xitter.cf/R_Pantier/status/16581…
Raphaël Pantier@R_Pantier15 May 2023
Here is our latest work in which we explored the relationship between MeCP2, heterochromatin and DNA methylation using live-cell imaging. This is a collaboration with Tom Burdon @roslininstitute, Thomas Jenuwein @mpi_ie and Claude Libert @VIBLifeSciences. biorxiv.org/content/10.1101/…

MeCP2 binds to methylated DNA independently of phase separation and heterochromatin organisation

Correlative evidence has suggested that DNA methylation promotes the formation of transcriptionally silent heterochromatin. Accordingly, the methyl-CpG binding domain protein MeCP2 is often portrayed...

biorxiv.org
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Raphaël Pantier retweeted
Matthew Lyst@MatthewLyst23 Feb 2024
Research assistant/lab manager position open in Adrian Bird’s lab. Come and join us! elxw.fa.em3.oraclecloud.com/…

Research Assistant/Laboratory Manager

We are looking for a Research Assistant/Laboratory Manager to work in the laboratory of Prof Adrian Bird.

elxw.fa.em3.oraclecloud.com
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Want to visualise ALL AlphaMissense predictions? huggingface.co/spaces/kashya…

AlphaMissense Predictions - a Hugging Face Space by kashyapchhatbar

This app lets you visualize how different protein variants affect protein function using AlphaMissense data. You select a protein by its UniProt ID, and the app shows an interactive heatmap of vari...

huggingface.co
Science Magazine
@ScienceMagazine19 Sep 2023
AlphaMissense, a tool by DeepMind, can help researchers learn more about the effects that missense mutations have on disease, and could help identify previously unknown disease-causing genes, according to a new Science study. Learn more: scim.ag/49l
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Here is our latest work in which we explored the relationship between MeCP2, heterochromatin and DNA methylation using live-cell imaging. This is a collaboration with Tom Burdon @roslininstitute, Thomas Jenuwein @mpi_ie and Claude Libert @VIBLifeSciences. biorxiv.org/content/10.1101/…

MeCP2 binds to methylated DNA independently of phase separation and heterochromatin organisation

Correlative evidence has suggested that DNA methylation promotes the formation of transcriptionally silent heterochromatin. Accordingly, the methyl-CpG binding domain protein MeCP2 is often portrayed...

biorxiv.org
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more replies
MeCP2 localisation to foci in mouse cells depends on the Methyl-CpG-binding domain (MBD) with no features of phase separation (dispensability of IDRs, no concentration buffering). Strikingly, MeCP2 distribution is diffuse in most mammals (14/16 tested species), including human.
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We conclude that MeCP2 follows the methylation pattern of the host genome independently of heterochromatin organisation and phase separation. Large heterochromatic foci observed in mice are therefore atypical, and probably result from abundant satellite DNA in this species.
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See new structural analysis by Watson et al. of SALL4, important for ESC maintenance. They show its interactions with AT-rich DNA and how previously uncharacterised Okihiro patient mutations affect DNA binding. @WTcell @kashyapchhatbar life-science-alliance.org/co…
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Glad to see our latest study @LSAjournal in collaboration with Atlanta Cook (@WTcell). We describe the structure of SALL4 zinc-fingers (ZFC4) with AT-rich DNA and demonstrate that disease-causing mutations disrupt DNA binding. @kashyapchhatbar @bea_kez life-science-alliance.org/co…

Structure of SALL4 zinc finger domain reveals link between AT-rich DNA binding and Okihiro syndrome

Spalt-like 4 (SALL4) maintains vertebrate embryonic stem cell identity and is required for the development of multiple organs, including limbs. Mutations in SALL4 are associated with Okihiro syndro...

life-science-alliance.org
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1/3 We are glad to share our detailed HT-SELEX @STARProtocols paper: star-protocols.cell.com/prot…. We hope this will facilitate the use of this powerful technique to study DNA binding specificity in vitro. @kashyapchhatbar @_grace_alston @WTcell
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2/3 @kashyapchhatbar developed a python package allowing the quantification of all possible k-mers from HT-SELEX data (github.com/kashyapchhatbar/e…). Our bioinformatic workflow allows unbiased characterisation of promiscuous DNA binding (broad specificity): eme-selex.readthedocs.io/en/….
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3/3 Using HT-SELEX, we characterised promiscuous binding of SALL4 zinc-finger 4 (ZFC4) to AT-rich DNA @MolecularCell (doi.org/10.1016/j.molcel.202…). Recently, we characterised the DNA binding potential of Okihiro syndrome causing missense mutations in ZFC4: doi.org/10.1101/2022.06.14.4…
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