Blog Archives

New preprint

5/27/2019

We just posted a new preprint "Promoters adopt distinct dynamic manifestations depending on transcription factor context".
Find it here: https://www.biorxiv.org/content/10.1101/650762v2
In this work with Christoph Zechner, we study how promoters responds to different patterns of dynamic transcription factor input in budding yeast. Surprisingly, we find that promoters can exhibit qualitatively distinct scaling behaviors depending on TF input. We refer to this observation as context dependent "manifestations".

We are now part of the CSB program

5/17/2019

The lab has just joined MIT's Computational and Systems Biology PhD Program (CSB). Anders' CSB faculty page can be found here. We are excited to be part of the Computational and Systems Biology Initiative and PhD program and look forward to welcoming our first CSB rotation students.

New preprint: Resolving the 3D landscape of transcription-linked mammalian chromatin folding

5/17/2019

New preprint from Stanley Hsieh. Using Micro-C to generate 3D contact maps of mouse embryonic stem cells, we see a whole new level of genome organization below the levels of TADs.
This includes enhancer-enhancer, promoter-promoter and enhancer-promoter interactions and stripes/flames. We also find a new type of small domains. We call these microTADs.
Moreover, it seems like besides CTCF/Cohesin, these microTADs are often demarcated by the transcriptional machinery.
Read the full story here on BioRxiv.

And see also a back-to-back preprint from Oliver Rando's lab with the Mirny and Dekker labs on BioRxiv.