maybe a Dpnl digest prior to RT in the protocol?

I do find it interesting trying to explain to people that historians deal in arguments, not in facts. History isn’t a catalogue of dates and names, but what happened around those things, and how we now and those who were alive at the time perceived and responded to those events.

I‘ve been having a similar hunch as @triggerloop.bsky.social, but not a good way to test it.
a model could be that CTCF constrains replication domains to some degree (thereby helping with DSBs and HDR) and gene regulatory roles evolved on top of that.
multilayered molecular fxn = muddled results

I have done both and I‘m not surprised at all.also, it turns nothing on its head

Contacts between boundaries should be rare and unless there’s a CRE directly next to it, there‘s no reason to assume that TAD boundaries influence the activity within the domain

looking fwd to read the full MS though!

Together, these approaches create a uniquely powerful platform for exploring how transcription factors interpret the genome.”

📰 Read the full story: www.med.uio.no/ncmbm/englis...

Congrats to the entire JASPAR community for driving this resource forward to shape the future of regulatory genomics!

i’m intrigued - sounds like a niche arms race that I want to follow.

if the user would in the end just do it themselves….*sigh*

Thanks! Obvsly, I have many thoughts on that. I think enhancer-reporters tell you a lot about what expr. the enhancer might be driving, but that could be quite different from what it does endogenously.
And pairing the same enhancer with different core promoters in vivo - could be another story 😉