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Reposted by Apratim (Appy) Mukherjee

Mir Lab @mirlab.bsky.social · 07/06/2026

1/🧵 Can transcription factor condensate formation be explained without phase separation? Our new preprint introduces SPARK, a simulation tool that reproduces condensate behavior (clustering, fusion, FRAP) from diffusion & binding kinetics alone. Movie: 60 sec FRAP sim www.biorxiv.org/content/10.6...

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Apratim (Appy) Mukherjee @mukherja.bsky.social · 20/03/2026

Excited that our work on RNAPII clusters during development is finally in print today! Thanks to everyone who worked incredibly hard on this project and the community for their engaging (and fun!) discussion during each iteration. Please see the post below for details!

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Reposted by Apratim (Appy) Mukherjee

Anders Sejr Hansen @andersshansen.bsky.social · 11/02/2026

Come on join us! We are searching for the next technical associate to join our lab ~Summer 2026. This could be a great position for someone who is graduating this spring and is looking for 2 more years of research experience before starting their PhD: careers.peopleclick.com/careerscp/cl...

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Reposted by Apratim (Appy) Mukherjee

Wendy Bickmore @wbickmor.bsky.social · 16/01/2026

Delighted to have a contribution in this issue together with @eliasfriman.bsky.social

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Apratim (Appy) Mukherjee @mukherja.bsky.social · 18/09/2025

(1/3) Excited to post our updated pre-print! We show RNAPII clusters are simply collections of polymerase molecules stably engaged at single genes & cluster intensity is strongly correlated with txn output during Drosophila embryogenesis. www.biorxiv.org/content/10.1...

biorxiv.org

A single cluster of RNA Polymerase II molecules is stably associated with active genes

In eukaryotic nuclei, transcription is associated with the clustering of RNA Polymerase II (RNAPII) molecules. The mechanisms underlying cluster formation, their interactions with genes, and their imp...

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Reposted by Apratim (Appy) Mukherjee

Mir Lab @mirlab.bsky.social · 09/04/2025

1/n: Excited to share our new preprint. We find that Dorsal transcription factor hubs exhibit gene-specific biophysical properties that tune transcriptional output. Read here: www.biorxiv.org/content/10.1.... Project was led by amazing graduate student Samantha Fallacaro (not on bsky)

biorxiv.org

Transcription factor hubs exhibit gene-specific properties that tune expression

The spatial and temporal control of gene expression relies on transcription factors binding to and occupying their target sites. Transcription factor hubs - localized, high-concentration microenvironm...

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Reposted by Apratim (Appy) Mukherjee

Mir Lab @mirlab.bsky.social · 12/02/2025

1/n Excited to share our new preprint! Using live imaging in Drosophila embryos, we show that RNA Pol II clusters switch from sites of initiation to elongation during zygotic genome activation and that they are stably associated with an active gene: www.biorxiv.org/content/10.1...

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