Gilbert Han

No one deserves to be treated like this.

EpiAgent: Foundation model for single-cell epigenomic data https://www.biorxiv.org/content/10.1101/2024.12.19.629312v1

I'm writing up a brief history of the tidyverse? What do you want to know about it? #rstats

The promised GitHub repository is live: github.com/cxli233/Colo...

I recently developed an R package called linkSet, designed to handle promoter-enhancer interactions. I've just published a blog post shows how it can help process HiC and PC-HiC datasets. I would greatly appreciate any feedback from those who try it out.. gilberthan1011.github.io/blog/2024/wh...

I am happy to share the link to video and pdf of 2nd lecture at College de France on biological information. I present & discuss general properties of Biological Codes (genetic, transcriptional, signalling and adhesion codes) dealing with balance btw diversity and specificity.

tinyurl.com/5dv39v4v

One enhancer can activate two endogenous genes simultaneously and across a TAD Boundary. Check out our new preprint.
www.biorxiv.org/content/10.1...

Briscoe Lab Developmental Dynamics of Tissue Formation

A stimulating workshop on the subject of Waddington Landscapes in Lyon last week, prompted me to compose some thoughts on dynamical landscapes, gene regulatory networks, and single cell transcriptomics

briscoelab.org/morphogenalia/

A nice complement to @lpachter.bsky.social 's lab preprint www.biorxiv.org/content/10.1...

Hi Everyone! 👋 Allow me to introduce myself. I'm Kate. I'm a postdoc studying early mammalian development, mechanics, and reproductive aging. Check out one of my favorite developmental stages in a mouse embryo in this video:

A photo of Francis Crick's Astonishing Hypothesis, complete with post-it notes

For so many, there was a book - often read ~20yo - that had a very big influence on their next steps. Do you have a book story like that? Do tell!

My book was Crick's "Astonishing Hypothesis". I got to feature my 30yo tattered copy in a recent photo shoot.

www.thetransmitter.org/summer-readi...

Extensive binding of uncharacterized human transcription factors to genomic dark matter Most of the human genome is thought to be non-functional, and includes large segments often referred to as “dark matter” DNA. The genome also encodes hundreds of putative and poorly characterized tran...

(1/8) 🚀 Excited to share our findings on a large-scale ChIP-seq assay for 166 previously uncharacterized human transcription factors (TFs) and their roles in both regulatory regions, and more strikingly, the “dark matter” genome. 🌌 doi.org/10.1101/2024....

Here is the link to video of introduction course @cdf1530 on biological information. A historical perspective on evolution of representations of the genome, highlighting contributions of von Neumann, Jacob&Monod, Waddington, Alberch etc.
Video (french)+pdf (english):

tinyurl.com/y4k44cd4

I've created a navigation website featuring the Bioinfomatics Bluesky packages I'm interested in, along with other resources. Please let me know if there's anything I should add. You can check it out here.
gilberthan1011.github.io/nav/#/?page=...