New preprint from @anadopico.bsky.social (who I have had the great pleasure of supervising with Tom Milne) and our fantastic collaborators in the @davieslab.bsky.social
www.biorxiv.org/content/10.6...
#genomics #GeneRegulation #chromatin
Ana shows that degradation of the histone chaperone FACT causes nucleosome loss at active gene promoters and spreading of chromatin binding factors into gene bodies. New ultra-long promoter-promoter interactions also form, including this mammoth one between Sox2 and Tiparp that spans nearly 30 Mb!
Rob Beagrie
Rob Beagrie
Although cohesin-sensitive, long-range enhancer activation is equivalent in nature to proximal activation. Cooperativity can arise from different levels of activation inputs operating on a non-linear response function. @eliasfriman.bsky.social @uoe-igc.bsky.social
www.biorxiv.org/content/10.6...
Very pleased to say that the paper version of our study examining the role of de novo DNMTs in cancer-associated hypomethylation is now out in @plos.org Genetics 🎉:
doi.org/10.1371/jour...
You can read more on the previous thread but here is a summary of the main updates! #epigenetics 🧵 1/9
This is a common reply to concerns about GenAI research as if it were just another computational tool that saves us times from tedious tasks and whose accuracy can be rigorously quantified.
It is not.
GenAI research poses at least 2 serious problems... /n
Duncan Sproul
New pre-print alert 🚨 Interested in what @ikafetzo.bsky.social learned about DNA hypomethylation in cancer from investigating surprising gains DNA methylation in DNMT1 KO cells? Read all about it here: www.biorxiv.org/content/10.1...
For a quick summary see this 🧵 1/8 #epigenetics
“It is not acceptable to recruit a variety of students into the laboratory, subject them to a variety of stress tests and abuses, and then keep the students who thrive under abuse and get rid of the students who aren't able to thrive in the lab. That's straight-up exploitation.”
👏👏👏
Loss of DNA methylation is a hallmark of cancer that is proposed to promote carcinogenesis through gene expression alterations, retrotransposon activation and induction of genomic instability. Cancer-...
www.biorxiv.org
Wendy Bickmore
Duncan Sproul
New preprint from the lab! We dig into the regulatory roles of TEs in the mouse placenta, with some surprising findings. Led by the awesome @smamante.bsky.social. Particular kudos to him for navigating the many twists and turns of the project.
You know those labs that keep harming students, again and again? Some reflections on why it's so hard to stop this from happening and where our responsibilities lie.
scienceforeveryone.science/bad-mentors-... 🧪
www.biorxiv.org
This is probably my favorite paper of 2025. Beautiful work by @elphegenoralab.bsky.social and @karissalhansen.bsky.social that should be on the top of the reading list for everyone with even a slight interest in gene expression!
I keep coming back to Kevin Bryan's point: "I get the desire for artisanal, hand-crafted research, with the matrices hand-inverted. But our job is to move the frontier of knowledge, not self-actualization."
I personally don't care if something is done by humans or AI, I want it to be accurate.
