Cell biologist studying retina and gene regulation using #organoids and #machinelearning
PhD Student in the MCB program at the University of Washington/Seattle Children’s Research Institute
He/Him | Views/posts are my own
Artem Yashchenko
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Today marks 4th anniversary of Russia's invasion of Ukraine. Russia is responsible for over 200,000 war crimes, killing over 15,000 civilians and displacing millions. My heart breaks for every Ukrainian. I continue attending rallies and donating hoping one day Ukraine will be free and safe.
Now online! Single-cell mapping of regulatory DNA-protein interactions
How do pleiotropic TFs generate organized diversity in developing tissues? @spinalorga.bsky.social shows that PAX3 & PAX7 organize #SpinalCord by acting as both repressors & pioneer activators, regulated by #morphogens to ensure precise neural subtype specification @plosbiology.org 🧪 plos.io/4qumsla
Absolutely thrilled 💣 to share our preprint 🖨️: "Mapping active cis-regulatory elements from transcription initiation events”.
www.biorxiv.org/content/10.6...
We introduce nucCAGE and PRIME to identify active cis-regulatory elements (CREs) and disease-associated, non-coding variants.
Yes! Another exciting #ARVO annual conference begins!
Join Meklit Bekele, Jimmy Liu & me (&others)at booth 9032 to learn more about applying for funding i#glaucoma, #agerelatedmaculardegeneration, (and #Alzheimersdisease). No citizenship limitations & we have funded in 28 countries (and counting).
ChromSMF preprint is out!🚀
tinyurl.com/ChromSMF
We often piece together chromatin regulation layer by layer from separate assays. But this can be limiting!
In @arnaudkr.bsky.social's lab, we developed a method to directly study multiple layers on the same DNA molecule! 🧬
What does this unlock? ⬇️
The main project of my PhD 🧬🔬 is out: we developed single-cell lentiMPRA, a lentivirus-based method to measure enhancer activity and transcriptomes at single-cell resolution. We then applied sc-lentiMPRA to fully synthetic enhancers 🧩...
🔗 doi.org/10.64898/202...
Artem Yashchenko
Cell - a Cell Press journal
Europe is stepping up, helping Ukraine for the right moral reasons and helping their mutual economies.
New study led by Ning Shen w/ @phruzycki.bsky.social: a genome-wide in vivo CRISPR screen in a retinitis pigmentosa mouse model identifies genes whose loss accelerates photoreceptor death. Overexpressing two, UFD1 and UXT, preserves photoreceptors, retinal function, and vision. 🧵
Cracking the code of the non-coding genome via allele-specific genomics?
Can we link non-coding elements—like lncRNAs and enhancers—to their protein-coding target genes, and in doing so, connect overlapping non-coding disease variants to their protein-coding counterparts?
