Eugene Valkov
@eugenevalkov.bsky.social
mRNA regulation & decay | biochemistry | structural biology | molecular biology | cancer
All views are personal.
Google Scholar: tinyurl.com/EuValScholar
ORCID: 0000-0002-3721-1739
All views are personal.
Google Scholar: tinyurl.com/EuValScholar
ORCID: 0000-0002-3721-1739
Pinned
We are looking for a postdoc to work on mechanisms of #RNA decay in cancer using #cryoEM with #nanobodies and #minibinders! Please RT
Reposted by Eugene Valkov
AlphaFold protein interaction modeling tutorial and workshop thenode.biologists.com/https-www-yo...
AlphaFold protein interaction modeling tutorial and workshop - the Node
This video is the culmination of several years attempting to: (1) Figure out best practices for modeling protein-protein interactions; (2) Understand the This video is the culmination of several years...
thenode.biologists.com
January 18, 2026 at 4:36 PM
AlphaFold protein interaction modeling tutorial and workshop thenode.biologists.com/https-www-yo...
I have a set of 5M designed proteins against one target. What is the best way computationally to identify clusters and assess the diversity of target epitopes on this scale? I wrote a little script that performs contact-set Jaccard-similarity clustering but I wonder if Foldeseek is a better solution
January 18, 2026 at 4:26 PM
I have a set of 5M designed proteins against one target. What is the best way computationally to identify clusters and assess the diversity of target epitopes on this scale? I wrote a little script that performs contact-set Jaccard-similarity clustering but I wonder if Foldeseek is a better solution
Reposted by Eugene Valkov
The ChimeraX DAQplugin computes DAQ scores showing the agreement between atomic models and cryoEM maps. Available from ChimeraX menu Tools / More Tools. cxtoolshed.rbvi.ucsf.edu/apps/chimera...
January 16, 2026 at 9:50 PM
The ChimeraX DAQplugin computes DAQ scores showing the agreement between atomic models and cryoEM maps. Available from ChimeraX menu Tools / More Tools. cxtoolshed.rbvi.ucsf.edu/apps/chimera...
Reposted by Eugene Valkov
How to discovery new regulators of cell migration using a high-throughout assay?
Make use of our new label-free deep learning-based automated tracking assay DeepBIT.
To appear in Science Advances.
Read about DeepBIT here: www.biorxiv.org/content/10.1...
Make use of our new label-free deep learning-based automated tracking assay DeepBIT.
To appear in Science Advances.
Read about DeepBIT here: www.biorxiv.org/content/10.1...
January 18, 2026 at 2:54 PM
How to discovery new regulators of cell migration using a high-throughout assay?
Make use of our new label-free deep learning-based automated tracking assay DeepBIT.
To appear in Science Advances.
Read about DeepBIT here: www.biorxiv.org/content/10.1...
Make use of our new label-free deep learning-based automated tracking assay DeepBIT.
To appear in Science Advances.
Read about DeepBIT here: www.biorxiv.org/content/10.1...
We are looking for a postdoc to work on mechanisms of #RNA decay in cancer using #cryoEM with #nanobodies and #minibinders! Please RT
January 18, 2026 at 2:30 PM
We are looking for a postdoc to work on mechanisms of #RNA decay in cancer using #cryoEM with #nanobodies and #minibinders! Please RT
Reposted by Eugene Valkov
We are thrilled to share our latest work uncovering the mechanistic basis of target-directed microRNA degradation (TDMD). This work was driven by @jakobfarnung.bsky.social and @elenaslo.bsky.social in a fantastic collaboration with Brenda Schulman's lab. tinyurl.com/E3TDMD (1/5)
January 6, 2026 at 3:16 PM
We are thrilled to share our latest work uncovering the mechanistic basis of target-directed microRNA degradation (TDMD). This work was driven by @jakobfarnung.bsky.social and @elenaslo.bsky.social in a fantastic collaboration with Brenda Schulman's lab. tinyurl.com/E3TDMD (1/5)
Reposted by Eugene Valkov
Check our latest collaboration with the Kleaveland Lab (kleavelandlab.org), led by Joanna Stefano and Lara Elcavage: academic.oup.com/nar/article/... (1/2)
January 14, 2026 at 9:11 PM
Check our latest collaboration with the Kleaveland Lab (kleavelandlab.org), led by Joanna Stefano and Lara Elcavage: academic.oup.com/nar/article/... (1/2)
Reposted by Eugene Valkov
New preprint from the lab 🎉: γ-tubulin is a novel target of the tubulin autoregulation pathway! Previously thought to exclusively target α- and β-tubulin mRNAs, we show that the TTC5–SCAPER–CNOT11 axis also degrades γ-tubulin mRNA, expanding the scope of this fundamental regulatory mechanism.
January 10, 2026 at 11:17 AM
New preprint from the lab 🎉: γ-tubulin is a novel target of the tubulin autoregulation pathway! Previously thought to exclusively target α- and β-tubulin mRNAs, we show that the TTC5–SCAPER–CNOT11 axis also degrades γ-tubulin mRNA, expanding the scope of this fundamental regulatory mechanism.
Reposted by Eugene Valkov
Super proud of Joe - he's done fantastic work in the Ingolia lab. His paper last summer was a tour de force dissecting real functional constraints on disordered protein regions. A yeast paper, with just two authors, in Nature!
Congratulations to MCB postdoc Joseph Lobel (Ingolia Lab) on receiving the 2026 RNA Society Scaringe Young Scientist Award! 👏🎉 @rnasociety.bsky.social @nickingolia.bsky.social
mcb.berkeley.edu/news-and-eve...
mcb.berkeley.edu/news-and-eve...
January 7, 2026 at 2:13 AM
Super proud of Joe - he's done fantastic work in the Ingolia lab. His paper last summer was a tour de force dissecting real functional constraints on disordered protein regions. A yeast paper, with just two authors, in Nature!
That’s terrifying
Here’s a thought. Later this year or next you will have students who were not yet alive when Python 3.0 was released.
January 7, 2026 at 2:14 AM
That’s terrifying
Gold is for the mistress – silver for the maid" –
Copper for the craftsman cunning at his trade!"
"Good!" said the Baron, sitting in his hall,
But Iron – Cold Iron – is master of them all." Kipling, 1910.
Copper for the craftsman cunning at his trade!"
"Good!" said the Baron, sitting in his hall,
But Iron – Cold Iron – is master of them all." Kipling, 1910.
January 3, 2026 at 5:20 PM
Gold is for the mistress – silver for the maid" –
Copper for the craftsman cunning at his trade!"
"Good!" said the Baron, sitting in his hall,
But Iron – Cold Iron – is master of them all." Kipling, 1910.
Copper for the craftsman cunning at his trade!"
"Good!" said the Baron, sitting in his hall,
But Iron – Cold Iron – is master of them all." Kipling, 1910.
Reposted by Eugene Valkov
Check out the latest paper from the Gonatopoulos-Pournatzis lab using CRASP-seq, an RNA-coupled #CRISPR screening platform, to uncover novel #splicing regulators.
Online Now: RNA-coupled CRISPR screens reveal ZNF207 as a regulator of LMNA aberrant splicing in progeria Online now:
RNA-coupled CRISPR screens reveal ZNF207 as a regulator of LMNA aberrant splicing in progeria
This study introduces CRASP-seq, an RNA-coupled CRISPR screening platform designed to systematically identify regulatory factors and domains of alternative pre-mRNA splicing. Using this technology, ZNF207 is identified as a bona fide splicing regulator through its interaction with U1 snRNP components. ZNF207 modulates aberrant LMNA splicing, a critical event linked to progeria.
dlvr.it
December 31, 2025 at 7:12 PM
Reposted by Eugene Valkov
AI based framework for RNA modif detection using nanopore #RNAbiology
SWARM: A Single-Molecule Workflow for High-Precision Profiling of RNA Modifications
Nanopore direct RNA sequencing promises to decode the epitranscriptome by detecting multiple modifications on individual RNA molecules, but its potential for biological discovery is hampered by high f...
www.biorxiv.org
December 21, 2025 at 1:22 PM
AI based framework for RNA modif detection using nanopore #RNAbiology
Reposted by Eugene Valkov
🔥 THIS IS HUGE!
Horizon is the world’s science programme, hosted by the EU. It just got bigger.
Other non-European countries associated to the programme (ie paying in) include Korea, New Zealand, Canada.
Horizon is the world’s science programme, hosted by the EU. It just got bigger.
Other non-European countries associated to the programme (ie paying in) include Korea, New Zealand, Canada.
December 22, 2025 at 4:26 PM
🔥 THIS IS HUGE!
Horizon is the world’s science programme, hosted by the EU. It just got bigger.
Other non-European countries associated to the programme (ie paying in) include Korea, New Zealand, Canada.
Horizon is the world’s science programme, hosted by the EU. It just got bigger.
Other non-European countries associated to the programme (ie paying in) include Korea, New Zealand, Canada.
#1 movie when you were ten is how your 2026 going to go
December 20, 2025 at 2:40 PM
#1 movie when you were ten is how your 2026 going to go
Reposted by Eugene Valkov
very unusual - a tRNA regulated anion channel
December 18, 2025 at 5:26 PM
very unusual - a tRNA regulated anion channel
Reposted by Eugene Valkov
My "News & views" was published today @natmethods.nature.com
Thanks @ritastrack.bsky.social for the invitation to write it and Allison Doerr for the editing after Rita left...
www.nature.com/articles/s41...
Thanks @ritastrack.bsky.social for the invitation to write it and Allison Doerr for the editing after Rita left...
www.nature.com/articles/s41...
Targeted RNA-binding protein degradation to improve mRNA live imaging in animal cells - Nature Methods
The gold standard system for mRNA imaging in live cells just got upgraded by being degraded. This development improves signal-to-noise ratios and may lead to a better understanding of mRNA transport a...
www.nature.com
December 17, 2025 at 11:13 AM
My "News & views" was published today @natmethods.nature.com
Thanks @ritastrack.bsky.social for the invitation to write it and Allison Doerr for the editing after Rita left...
www.nature.com/articles/s41...
Thanks @ritastrack.bsky.social for the invitation to write it and Allison Doerr for the editing after Rita left...
www.nature.com/articles/s41...
Reposted by Eugene Valkov
A mechanism for controlling mRNA localization to neuronal projections:
Daniel Dominguez, Matthew Taliaferro @jmtali.bsky.social and collaborators implicated ALS-linked TDP-43 as inhibitor of mRNA accumulation in neurites, possibly by promoting their decay
link.springer.com/article/10.1...
Daniel Dominguez, Matthew Taliaferro @jmtali.bsky.social and collaborators implicated ALS-linked TDP-43 as inhibitor of mRNA accumulation in neurites, possibly by promoting their decay
link.springer.com/article/10.1...
TDP-43 directly inhibits mRNA accumulation in neurites through modulation of mRNA stability - The EMBO Journal
The subcellular localization of many mRNAs to neuronal projections allows neurons to efficiently and rapidly react to spatially restricted external cues. However, for most of these RNAs, the mechanism...
link.springer.com
December 15, 2025 at 1:00 PM
A mechanism for controlling mRNA localization to neuronal projections:
Daniel Dominguez, Matthew Taliaferro @jmtali.bsky.social and collaborators implicated ALS-linked TDP-43 as inhibitor of mRNA accumulation in neurites, possibly by promoting their decay
link.springer.com/article/10.1...
Daniel Dominguez, Matthew Taliaferro @jmtali.bsky.social and collaborators implicated ALS-linked TDP-43 as inhibitor of mRNA accumulation in neurites, possibly by promoting their decay
link.springer.com/article/10.1...
Reposted by Eugene Valkov
Download our large database of funding opportunities for early-career faculty and researchers
Download it here: research.jhu.edu/rdt/funding-...
433 funding opportunities.
Download it here: research.jhu.edu/rdt/funding-...
433 funding opportunities.
December 14, 2025 at 4:22 PM
Download our large database of funding opportunities for early-career faculty and researchers
Download it here: research.jhu.edu/rdt/funding-...
433 funding opportunities.
Download it here: research.jhu.edu/rdt/funding-...
433 funding opportunities.
Reposted by Eugene Valkov
Download our large database of postdoc fellowships in all fields of research.
Database freely available to all; 281 fellowships.
Download here: research.jhu.edu/rdt/funding-...
Database freely available to all; 281 fellowships.
Download here: research.jhu.edu/rdt/funding-...
December 13, 2025 at 1:38 PM
Download our large database of postdoc fellowships in all fields of research.
Database freely available to all; 281 fellowships.
Download here: research.jhu.edu/rdt/funding-...
Database freely available to all; 281 fellowships.
Download here: research.jhu.edu/rdt/funding-...
Reposted by Eugene Valkov
When your PI presents your work
December 15, 2025 at 12:00 PM
When your PI presents your work
One has to assume that 2025 was also also a tough year for this raccoon
Look, you break into a liquor store, knock shit all over the place, go on a bender, and pass out on the bathroom floor ... it's probably not your first time.
Drunk raccoon found in liquor store is a repeat offender, officials say
Virginia animal protection officials say the furry bandit is suspected in break-ins at a martial arts studio and Department of Motor Vehicles office.
www.washingtonpost.com
December 14, 2025 at 11:33 PM
One has to assume that 2025 was also also a tough year for this raccoon
My talk from the latest RNA Collaborative Seminar Series is now available on YouTube. The second talk in the session was given by Rachel Braun (Sara Cherry’s lab) on TTP and its role in regulating antiviral immunity. youtu.be/2Aj-xbi3dPI #RNAsky #RNAbiology
December 10: NCI RNA Biology Initiative & Penn Institute for RNA Innovation
YouTube video by RNA Collaborative Seminar Series
youtu.be
December 12, 2025 at 5:59 PM
My talk from the latest RNA Collaborative Seminar Series is now available on YouTube. The second talk in the session was given by Rachel Braun (Sara Cherry’s lab) on TTP and its role in regulating antiviral immunity. youtu.be/2Aj-xbi3dPI #RNAsky #RNAbiology
Reposted by Eugene Valkov
Postdoc opportunity with Michel Goedert and myself to work on #cryoEM/#cryoET structures of #amyloids. Feel free to email me with any questions you might have.
mrc.tal.net/vx/mobile-0/...
mrc.tal.net/vx/mobile-0/...
Postdoctoral Scientist - Neurobiology - Dr Michel Goedert - LMB 2752 - Medical Research Council
Location: Cambridge. Vacancy: Postdoctoral Scientist - Neurobiology - Dr Michel Goedert - LMB 2752. Closing Date: 04/01/2026, 23:55
mrc.tal.net
December 10, 2025 at 2:28 PM
Postdoc opportunity with Michel Goedert and myself to work on #cryoEM/#cryoET structures of #amyloids. Feel free to email me with any questions you might have.
mrc.tal.net/vx/mobile-0/...
mrc.tal.net/vx/mobile-0/...