Article published in NAR Genomics and Bioinformatics. Please try it out on github.com/vallotlab/IDcl… , and post issues if encoutering any bugs.
Happy to take any feedback !
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Pacome Prompsy
26 posts
Pacome Prompsy
@PPrompsy
Bioinformatician, Data Engineer & Data Analyst at Institut Curie
Bergabung Eylül 2020
112 Mengikuti41 Pengikut
Additionnally, IDclust creates a hierarchy of parents and child cluster, and plots tree-like networks revealing potentially meaningful relationships between clusters.
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Pleased to present IDclust, a tool to automate and ease exploration of single-cell datasets.
IDclust recursively clusters and find differential features between clusters until no more differences are found.
With @MelissaSaichi @gama_search @VallotCeline bit.ly/IDclust
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📝Epigenomic heterogeneity as a source of tumour evolution
Just out in Nature Reviews Cancer - a piece we wrote with @MatLupien and @MartheLaisne, a fantastic team work and such a pleasure to exchange & confront ideas on cancer epigenetics.
👉nature.com/articles/s4156…
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Our team is expanding, we are looking for a new collaborator - Computational Scientist (IR) - to join us at @institut_curie @CNRSbiologie @Unit3244_ICurie . Exciting single cell cancer datasets to analyse and a great opportunity for a permanent position. Postdoc, PhD or IR apply
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Our paper with @jeanphi_vert and @VallotCeline on how best to analyse single-cell histone modifications is finally out on Genome Biology:
genomebiology.biomedcentral.com/articles/10.11…
See this thread for a presentation of the paper twitter.com/gama_search/st…
Felix Raimundo 🧬🇪🇺/acc@gama_search
"Best practices for single-cell histone modification analysis" w/ @VallotCeline @jeanphi_vert and @PPrompsy. We identify how to analyze scCUT&Tag, from matrix construction, QC, #cells, up to dimension reduction. paper: biorxiv.org/content/10.110… code: github.com/vallotlab/benc…
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MAYA algorithm for scRNA is out in @NatureComms - it detects common expression programs across tumor cells from various cancer patients @onebiosciences @institut_curie
Nature Communications@NatureComms
@VallotCeline group at @institut_curie introduce MAYA, a computational method that can detect and score multiple modes of activation for each pathway, improving the granularity of pathway analysis for single-cell datasets nature.com/articles/s4146…
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"Best practices for single-cell histone modification analysis" w/ @VallotCeline @jeanphi_vert and @PPrompsy.
We identify how to analyze scCUT&Tag, from matrix construction, QC, #cells, up to dimension reduction.
paper: biorxiv.org/content/10.110…
code: github.com/vallotlab/benc…
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#Recrutement
Le Centre de recherche de l'Institut Curie recrute un #DataAnalyst/ingénieur de recherche (H/F) pour l'étude de données multi-omiques #singlecell, au sein du laboratoire de @VallotCeline.
➡️Pour postuler : curie.fr/offre-emploi/d…
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Interested about epigenomics, want to learn how to analyze epigenomes at single-cell resolution? Join us!!
Institut Curie@institut_curie
#Recrutement Le Centre de recherche de l'Institut Curie recrute un #DataAnalyst/ingénieur de recherche (H/F) pour l'étude de données multi-omiques #singlecell, au sein du laboratoire de @VallotCeline. ➡️Pour postuler : curie.fr/offre-emploi/d…
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The Morillon's group is recruting a 3 years post-doc to reveal what you never dare to ask on cancer dark transcriptome invading the immune response cells, with our fantastic collaborators C. Théry lab and prof C. Le Tourneau. @institut_curie and @Institut_cancer
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Today there's a revised version of the MulTI-Tag manuscript out on bioRxiv--dig in here for a brief summary of some new improvements/data and general thoughts on multifactorial chromatin profiling in single cells 1/14 biorxiv.org/content/10.110…
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1/5 Our manuscript on early breast tumorigenesis is out on biorxiv biorxiv.org/cgi/content/sh…, @institut_curie @INSB_CNRS, impactful work led by @CamilleLandrag3 and @MelissaSaichi, great collaboration with @HeleneSalmon
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Merci la @lamethodeFC @NatachaTriou @NicoMartinFC pour cette mise en lumière de nos travaux sur le rôle des modifications épigénétiques dans la réponse à la chimiothérapie @institut_curie @INSB_CNRS
La Science, CQFD@ScienceCQFD
[#Podcast] Et pour (ré)écouter le #JournalDesSciences du jour > Résistance aux traitements anti-cancer : des mécanismes épigénétiques bit.ly/3KzmmDy par @NatachaTriou via @franceculture !
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Our study on the role of repressive histone mark H3K27me3 in determining cell fate upon chemotherapy treatment is out! Congrats to Justine Marsolier, @PPrompsy and all authors and collaborators E.Marangoni @Perielab1 @institut_curie @INSB_CNRS
Nature Genetics@NatureGenet
Out now! H3K27me3 conditions chemotolerance in triple-negative breast cancer (Marsolier et al.) go.nature.com/3LVNSeR
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Together with @MathildeJDura & @DeborahBourchis on the upcoming issue of Nature Genetics, all the way from spermatogenesis to cancer @institut_curie @INSB_CNRS
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Out now! H3K27me3 conditions chemotolerance in triple-negative breast cancer (Marsolier et al.) go.nature.com/3LVNSeR
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@CamilleLandrag3 @VallotCeline Thank you Camille ! 😀👍 Congrats to everyone :)
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So happy to see this nice story finally published ! 😁 Congratulations to Justine Marsolier, @PPrompsy and @VallotCeline for this beautiful work 👏
Nature Genetics@NatureGenet
Out now! H3K27me3 conditions chemotolerance in triple-negative breast cancer (Marsolier et al.) go.nature.com/3LVNSeR
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We are looking for a talented postdoc to work on the evolution of epigenomes in the early steps of breast tumorigenesis in vivo #epigenetics #singlecell #cancerresearch - ERC-funded project, apply at bit.ly/3tgOkLD
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