Lightnews — Scholar-powered news

Pradeepa Madapura @pradeepmadapura.bsky.social · 4d

A really useful; thank you, Lucas Farnung lab, for making this tool. We will be using it right away!

Reposted by Pradeepa Madapura

Lucas Farnung @lucas.farnunglab.com · 4d

We have added additional functionalities including a collapsible protein pane and zoom scrolling. domaindesigner.farnunglab.com

Lucas Farnung @lucas.farnunglab.com · 9d

New week, new tool: Find our Protein Domain Designer tool to generate publication-ready protein domain diagrams here: domaindesigner.farnunglab.com

Protein Domain Designer tool for the generation of publication-ready protein domain diagrams

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Reposted by Pradeepa Madapura

Mikhail Spivakov @mspivakov.bsky.social · 5d

Many enhancers that drive tissue-specific gene expression are already connected to gene promoters in human pluripotent cells.

In a new preprint, we share some clues about when, how, and why this happens!

www.biorxiv.org/content/10.1...

Poising and connectivity of emergent human developmental enhancers in the transition from naive to primed pluripotency

In primed human pluripotent stem cells (hPSCs) resembling post-implantation epiblast, numerous lineage-specific enhancers assume the poised chromatin state, co-marked by H3K4me1 and Polycomb-associate...

www.biorxiv.org

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Pradeepa Madapura @pradeepmadapura.bsky.social · 8d

Congratulations Martha and @scaffidilab.bsky.social

Reposted by Pradeepa Madapura

Scaffidi Lab @scaffidilab.bsky.social · 8d

Histone acetylation - not always about transcriptional activation: H4K16ac safeguards the genome replication program by repressing premature replication of heterochromatin. Well done Marta Milan! tinyurl.com/yuy9m8t3

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Pradeepa Madapura @pradeepmadapura.bsky.social · 12d

Link for the paper academic.oup.com/nar/article/...

Mammalian H4K16ac regulates the spatiotemporal order of genome replication rather than gene expression

Abstract. Histone acetylation is widely assumed to directly instruct gene activation. Among acetylated residues, H4K16ac is one of the most abundant modifi

academic.oup.com

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Pradeepa Madapura @pradeepmadapura.bsky.social · 12d

Another interesting link between H4K16ac & transposons, genome stability. Congratulations to the Scaffidi lab; we are pleased to contribute to this work.

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Reposted by Pradeepa Madapura

Dan Bose @danbose.bsky.social · 21d

Looking forward to catching up with everyone at the @biochemsoc.bsky.social #transcription and #chromatin UK #TCUK meeting today in sunny Manchester! #BiochemEvent 🧬🔬☔️ www.eventsforce.net/biochemsoc/f...

www.eventsforce.net

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Pradeepa Madapura @pradeepmadapura.bsky.social · 29d

Handsup 🙌, who is coming to @blizardinstitute.bsky.social to attend the @illingworth-lab.bsky.social seminar this Friday on "polycomb repression in development and disease"? Also, who is joining online for this @qmulepigenetics.bsky.social seminar.

QMUL Centre for Epigenetics @qmulepigenetics.bsky.social · Aug 15

Our next guest speaker webinar is happening on Friday, September 12th at 15:30 GMT. Robert Illingworth will give a talk on 'Passive Yet Essential, Polycomb Repression in Development and Disease’.
To join, please follow this link: qmul.ac.uk/epigenetics/...

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Pradeepa Madapura @pradeepmadapura.bsky.social · Sep 9

Agree, but we have a deadline on the first week of January and the first week of September, immediately following major school holidays! Not ideal for parents with young kids. It allows us to be flexible, but we will still have self-imposed deadlines. e.g. contracts of trainees ending etc.

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Pradeepa Madapura @pradeepmadapura.bsky.social · Sep 8

Great news, no more grant deadlines 😀 MRC applicant-led funding – UKRI share.google/lP742F01GmuK...

Simplifying access to MRC applicant-led funding

We’re introducing a new flexible research grant and removing closing dates from our board funding opportunities.

share.google

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Pradeepa Madapura @pradeepmadapura.bsky.social · Sep 4

Amazing news, congratulations Charlene

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Reposted by Pradeepa Madapura

Marina Lusic @marinalusic.bsky.social · Aug 20

Our work "Aquarius helicase facilitates HIV-1 integration into R-loop enriched genomic regions" is out @natmicrobiol.nature.com, showing HIV-1 integration into R-loop genomic regions upon their resolution by cellular splicing helicase Aquarius (AQR) of the Intron Binding Complex (IBC)🧵.

scheme of integration into R-loops mediated by AQR helicase

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Pradeepa Madapura @pradeepmadapura.bsky.social · Aug 21

Congratulations Marco and team

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Reposted by Pradeepa Madapura

Marco Trizzino @marcotrizzino.bsky.social · Aug 20

This preprint is now a published peer-reviewed paper! Thanks to all the co-authors involved, to the funders and to @reviewcommons.org and @embopress.org @emboreports.org for a smooth editorial process! Excited to see this in press! www.embopress.org/doi/full/10....

@imperiallifesci.bsky.social

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Reposted by Pradeepa Madapura

QMUL Centre for Epigenetics @qmulepigenetics.bsky.social · Aug 15

Our next guest speaker webinar is happening on Friday, September 12th at 15:30 GMT. Robert Illingworth will give a talk on 'Passive Yet Essential, Polycomb Repression in Development and Disease’.
To join, please follow this link: qmul.ac.uk/epigenetics/...

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Pradeepa Madapura @pradeepmadapura.bsky.social · Aug 8

While it is a good indicator of enhancer activity at most enhancers, it is time to move beyond relying solely on the H3K27ac mark to predict enhancer activity.

Pradeepa Madapura @pradeepmadapura.bsky.social · Aug 8

Multiple TF-coactivators regulate enhancer/promoter activity. Right?
But how can just one histone modification (H3K27ac) distinguish an enhancer from a non-enhancer?
While still a valuable indicator, it is just one component of a complex feature.

Stefan Schoenfelder @stefanschoenfelder.bsky.social · Aug 8

“Our findings suggest the existence of tens of thousands of enhancers that remain undiscovered by currently available chromatin data, underscoring the continued need for expanding resources for enhancer discovery.”
Great paper and very important finding - many congrats Axel & team! 👏👏

Axel Visel @axelvisel.bsky.social · Aug 8

Enhancers are "just DNA" - finding all of them in the genome is hard.

www.nature.com/articles/s41...

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Reposted by Pradeepa Madapura

Stefan Schoenfelder @stefanschoenfelder.bsky.social · Jul 22

🚨 New paper alert 🚨
I am excited to share our new work on epigenetic enhancer priming in early mammalian development
genomebiology.biomedcentral.com/articles/10....
Fantastic collaboration with Wolf Reik’s team, with key contributions from many others, led by the excellent Chris Todd.
Short 🧵

Epigenetic priming of mammalian embryonic enhancer elements coordinates developmental gene networks - Genome Biology

Background Embryonic development requires the accurate spatiotemporal execution of cell lineage-specific gene expression programs, which are controlled by transcriptional enhancers. Developmental enha...

genomebiology.biomedcentral.com

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Pradeepa Madapura @pradeepmadapura.bsky.social · Jul 12

Fantastic work Rob and team

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Reposted by Pradeepa Madapura

Rob Illingworth @illingworth-lab.bsky.social · Jul 12

Excited to share our hot-off-the-press @biorxivpreprint.bsky.social
that explores how PRC1-mediated H2AK119ub deposition safeguards lineage fidelity during forebrain development. Fantastic work by @lucyadoyle.bsky.social and our colleagues & collaborators. 🥳🧬🧠🔬
www.biorxiv.org/content/10.1...

H2AK119ub Safeguards Against Ectopic Transcription Factor Mediated Gene Activation in the Developing Forebrain

The PRC1 complex regulates developmental gene expression in mammals by ubiquitinating histones (H2AK119ub) and nucleating repressive chromatin interactions. Human genetic data and functional experimen...

www.biorxiv.org

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Pradeepa Madapura @pradeepmadapura.bsky.social · Jul 10

I hope to see many chromatin and transcription enthusiasts at this annual event, this time in Manchester.
Please register as soon as possible and submit abstracts for oral presentations and posters.

Biochemical Society @biochemsoc.bsky.social · Jun 26

Taking place on 17-19 September 2025, Transcription and Chromatin UK will showcase cutting-edge research and is a ‘mustattend’ for anyone within the transcription and epigenetics community🧪. Register now: www.eventsforce.net/biochemsoc/2...

Transcription and Chromatin UK
Manchester, UK
17-19 September 2025
Earlybird deadline: 17 July 2025

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Pradeepa Madapura @pradeepmadapura.bsky.social · Jul 7

Congratulations Yaser

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Pradeepa Madapura @pradeepmadapura.bsky.social · Jun 26

Registration for Transcription and Chromatin UK is OPEN! Taking place from September 17 to 19, 2025, this conference will showcase cutting-edge research and is a ‘must-attend’ event for the UK transcription and chromatin community & both at home and abroad.
Pl register ow.ly/7QQb50W9Alo & share

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Pradeepa Madapura @pradeepmadapura.bsky.social · Jun 19

Great to catch up with Oslo chromatin community

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