GenomeTDCC

Genomics & single-cell researchers—expand your toolkit. 👨‍🔬Learn how Paired-Damage-seq links DNA damage with transcriptomics in our webinar with Epigenome Technologies.

Register Here: 👉 https://app.livestorm.co/epicypher/single-cell-dna-damage-analysis-reveals-selective-genome-vulnerability

Nucleosome context regulates chromatin reader preference Abstract. Chromatin is more than a simple genome packaging system but rather locally distinguished by histone post-translational modifications (PTMs) that

Captify: A new platform to study chromatin readers in the nucleosome context 🧪💻🧬
Recently published in Nucleic Acids Research @narjournal.bsky.social, the folks at @epicypher.bsky.social discuss development & integration of these easily adoptable biochemical and genomic tools
doi.org/10.1093/nar/...

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Congratulations on the recent publication from @jshendure.bsky.social, @troymcdiarmid.bsky.social, @uwgenome.bsky.social and colleagues!
👇
www.nature.com/articles/s41...

Super excited about first Shendure/Baker Lab collaboration & preprint on a multiplex sequencing-based strategy for screening de novo proteome editors in mammalian cells. Kudos to the brilliant Chase Suiter (not here) & @greenahn.bsky.social on the work! Preprint here:
www.biorxiv.org/content/10.1...

Sequencing-free whole-genome spatial transcriptomics at single-molecule resolution RAEFISH delivers whole-transcriptome (>20,000 genes) imaging at single-molecule resolution in cells and tissues and enables direct gRNA detection for high-content, image-based CRISPR screens.

👀 Read all the details - recently published in @cellpress.bsky.social
www.cell.com/cell/fulltex...

Sequencing-free whole-genome spatial transcriptomics at single-molecule resolution YouTube video by GenomeTDCC

New highlight video! 🧪🧬💻
RAEFISH from Steven Wang at Yale unlocks whole-transcriptome imaging at single-molecule resolution. See 20,000+ RNAs light up in cells and tissues. Plus get direct gRNA detection in high-content CRISPR screens. Spatial biology just leveled up

www.youtube.com/watch?v=P2j6...

DNA Bendability Regulates Transcription Factor Binding to Nucleosomes (PIONEAR-seq) YouTube video by GenomeTDCC

New video! Discover how transcription factors find their way through tightly packed DNA. 🧪🧬💻👩‍🔬

www.youtube.com/watch?v=gOta...

Luca Mariani & Martha Bulyk introduce PIONEAR-seq, revealing how DNA flexibility shapes gene regulation.

Recently published in @natsmb.nature.com

SO many great talks from leading scientists who develop and use various genomic technologies. 🧪🧬💻👩‍🔬

Genome architecture, RNA regulation + modification identification, nanopores, DNA writing, statistics, sequencing!

It's all there on the GenomeTDCC YouTube channel!
www.youtube.com/playlist?lis...

Non-profits wade in where for-profit life science investment fears to tread - Nature Biotechnology For decades, and in the exceptional instance of the Institut Pasteur for over a century, non-profit organizations have augmented R&D to advance scientific understanding and develop affordable and ...

Non-profits wade in where for-profit life science investment fears to tread nature.com/articles/s41...
rdcu.be/eyzXy

PADIT-seq: Protein affinity to DNA by in vitro transcription and RNA sequencing YouTube video by GenomeTDCC

Don't miss hearing from Shubham Khetan and Martha Bulyk in this publication highlight video where they discuss their work developing PADIT-seq. 🧪
youtu.be/45hdZ6R9fX4

PADIT-seq: Protein affinity to DNA by in vitro transcription and RNA sequencing YouTube video by GenomeTDCC

Martha Bulyk & Shubham Khetan just dropped a @nature.com paper redefining how we think about transcription factor binding, noncoding variants, and disease.
PADIT-seq, reveals that multiple overlapping binding sites drive TF occupancy and gene expression 🧪🧬💻👩‍🔬

Highlight 📽️https://youtu.be/45hdZ6R9fX4

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Technology Development for Genome Analysis - Rob Mitra, PhD YouTube video by GenomeTDCC

What if doing something poorly could lead to something great?
Rob Mitra, @washugenetics.bsky.social, dives into the evolution of genome tech, short-read sequencing, and how his lab is fighting rising drug costs with innovation. 🧪🧬💻 #STS

📺 Watch the keynote: youtu.be/C8U5WDA9ri4
#genomics #Biotech

Sequencing a DNA analog composed of artificial bases YouTube video by GenomeTDCC

What if DNA didn’t use ACGT, but had PZSB instead? UW and FfAME researchers describe how they were able to sequence a synthetic DNA molecule made from 4 artificial bases in @natcomms.nature.com 🧪🧬🖥️

Check out the publication highlight on “ALIEN DNA” 👇
www.youtube.com/watch?v=S6tE...

Peeking Behind the Curtain: Technologies to Unveil RNA Modification Landscape - Kristin Koutmou, PhD YouTube video by GenomeTDCC

RNA isn’t just a messenger. It’s a modified masterpiece! 🧪
Over 10,000 sites in mRNA are chemically tagged, and we’re only beginning to understand why.

Kristin Koutmou @umich.edu explores the tools that reveal this hidden layer of gene regulation. Must-watch! 🎥👇
www.youtube.com/watch?v=s5Bt...
👩‍🔬🧬🖥️

Nanopore Sequencing Beyond ACGT - Andrew Laszlo, PhD YouTube video by GenomeTDCC

DNA beyond ACGT? But how do you sequence? 🧬 🖥️
youtu.be/GN6_Hc9tYow
Andrew Laszlo explains how #nanopore sequencing reads modified and synthetic bases like Z, P, B, and S by measuring ion current shifts instead of chemical pairing.

This technology could reshape synthetic biology and epigenetics. 🧪

Decoding the Centra Dogma with Single Molecule Sequencing - Winston Timp, Ph.D. YouTube video by GenomeTDCC

Winston Timp @timp0.bsky.social explains how single-molecule seq is transforming our understanding of gene regulation and epigenetic complexity 🧪🖥️🧬

www.youtube.com/watch?v=fj1_...

Direct detection of 5mC and 5hmC, supports cell-type deconvolution, and reveals tissue-specific regulatory features

From Typewriters to Code Editors: The History and Future of DNA Writing Tools - Sasha Levy, PhD YouTube video by GenomeTDCC

DNA has become programmable. 🧬🖥️
Sasha Levy (BacStitch DNA) discusses how #DNA engineering has evolved from basic cut-and-paste to programmable systems. Learn how enzymatic synthesis and in vivo assembly are shaping the future of synthetic biology 🧪 #STS
youtu.be/kSAm-2FbNus

Making Genomics More Reliable with Statistics - Jingyi Jessica Li, PhD YouTube video by GenomeTDCC

Jingyi Jessica Li @jsb-ucla.bsky.social (@fredhutch.bsky.social) (formerly @ UCLA) explains how statistics can make genomics more reliable
From RNAseq to single-cell data, she shows how permutation testing reveals flaws in popular methods and can help make better decisions 🧪🖥️🧬👩‍🔬
youtu.be/t2pxOsJ9mgE

Sequencing a DNA analog composed of artificial bases - Nature Communications The ability to sequence oligonucleotides which consist entirely of artificial bases will facilitate their ongoing development and use. Here authors demonstrate de novo nanopore sequencing of DNA oligo...

Not that kind of Alien!👽
De novo #nanopore sequencing of ALIEN (ALternative Isoinformational ENgineered) #DNA. Direct, label-free, single-molecule sequencing. @natcomms.nature.com
www.nature.com/articles/s41...

Funded in part by an NHGRI Opportunity Fund (genometdcc.org/opportunity-...)
🧪🧬🖥️ #STS

RNAs are not naked - Gene Yeo, PhD, MBA YouTube video by GenomeTDCC

RNA is never naked 🧪🖥️🧬
Gene Yeo @ucsandiego.bsky.social reveals how RNA-binding proteins (RBPs) shape gene expression, drive disease, and can unlock new therapies. From splicing to synthetic RBPs, this talk is packed with insights
youtu.be/AnhbGp-pA-w
#RNA #AcademicSky
@sanfordstemcell.bsky.social

📢Job Opening! 🧪🖥️🧬👩‍🔬
Ready to hire qualified candidates to map #RNA modifications in human transcriptomes using #nanopore direct sequencing.
Dr. Ya-Ming Hou at Thomas Jefferson University
houlaboratory.com/research

#HigherEd #EDUSky #AcademicSky #STS

The Many Lives of mRNA YouTube video by GenomeTDCC

Happy #RNADay!
What happens to RNA after transcription?
@stirlingchurchman.bsky.social tracks RNA flow through the cell, revealing key insights into gene regulation, nuclear degradation & RNA kinetics. A fascinating look into #RNA biology! 🧪🧬🖥️👩‍🔬
youtu.be/XAKMASk_fc4

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A Brief History of Contemporary 3D Genomics Technologies YouTube video by GenomeTDCC

How does 6ft of #DNA fit inside a cell only 10 microns wide?

@sstevenwang.bsky.social provides a brief history of contemporary 3D #genomics technologies. Learn how spatial organization of DNA plays a vital role in gene regulation, development, and disease. 🧬🖥️🧪 #STS
www.youtube.com/watch?v=gXCO...

Many proteins bind RNA, yet we still don’t know what RNAs most bind because methods map one RBP at a time. In @cp-cell.bsky.social, with the Jovanovic lab, we describe SPIDR – a method for mapping the RNA binding sites of dozens of RBPs in a single experiment. www.sciencedirect.com/science/arti...

Genomic Technologies Open Science Day on June 9. The event will be held at the Eric. P. Newman Education Center at Washington University in St. Louis and broadcast live online. Registration is free at https://www.jax.org/scienceday25/

📅 June 9 - Genomic Technologies Open Science Day at @washu.bsky.social and online
www.jax.org/scienceday25

Register for Free by:
May 30: In-Person
June 8: Virtual

Learn how emerging tech is used to manipulate RNA & DNA, study genome function and structure, and navigate multi-omic analysis 🧪👩‍🔬🧬🖥️

Light blue graphic with dark blue text reads, "June 9, 2025 | Washington University, St. Louis, MO & Virtual | Genomic Technologies Open Science Day" with logos for The Jackson Laboratory, Genome TDCC and the National Human Genome Institute.

🔬 Excited about the future of genomic tech?

Join NHGRI & @genometdcc.bsky.social's hybrid forum to explore how new tools and technologies are used, as well as the potential opportunities and challenges ahead.

📅 Open to grad students, postdocs & researchers!

Register: www.jax.org/education-an...

HAPPY DNA DAY! 🧬🧪
Genomics research has provided humanity with a transformative understand of life at the molecular level leading to a wide range of benefits in medical advancements, synthetic biology, biotechnology, infectious disease, agriculture, and evolution.
We are connected by ATGC

Schematic of the fluorescence-based tethering assay as described in the recently published Nature paper by Joseph Lobel and Nick Ingolia, "Deciphering disordered regions controling mRNA decay in high-throughput".

From @nickingolia.bsky.social at @ucberkeleyofficial.bsky.social 🧪🧬🖥️
Disordered protein regions hold powerful sway over gene expression, as this new large-scale study reveals how they regulate mRNA stability and translation without a fixed structure. Published in @nature.com
doi.org/10.1038/s415...