Peter Campbell Clarke
@meneton.bsky.social
Theoretical Physics, RNA, Condensates, Evolutionary Biology, Machine Learning, and Ancient History.
Cambridge, UK
Cambridge, UK
Reposted by Peter Campbell Clarke
Patrick's paper is finally out, a label-free method to measure the composition of multicomponent biomolecular condensates!
September 3, 2025 at 11:53 AM
Patrick's paper is finally out, a label-free method to measure the composition of multicomponent biomolecular condensates!
Can active matter at room temperature sustain quantum coherence?
February 15, 2025 at 5:37 PM
Can active matter at room temperature sustain quantum coherence?
Reposted by Peter Campbell Clarke
This is a textbook example (condensates are only just reaching textbooks!) of why condensates matter, and how they tend to work. Here these liquid-like blobs create a microenvironment in the nucleus of cancer cells within which chromatin sustains a conformation accessible to transcription...
Nature research paper: Targeting FOXM1 condensates reduces breast tumour growth and metastasis
https://go.nature.com/4g7BNC8
https://go.nature.com/4g7BNC8
Targeting FOXM1 condensates reduces breast tumour growth and metastasis - Nature
The transcription factor FOXM1 forms functional condensates, the formation of which can be targeted with a specific peptide to suppress breast cancer growth and metastasis.
go.nature.com
January 16, 2025 at 9:06 PM
This is a textbook example (condensates are only just reaching textbooks!) of why condensates matter, and how they tend to work. Here these liquid-like blobs create a microenvironment in the nucleus of cancer cells within which chromatin sustains a conformation accessible to transcription...
Reposted by Peter Campbell Clarke
Our postdoc Julien Cicero just sent me this beautiful image of IPSC derived motor neurons and I had to share 😍😍😍
January 11, 2025 at 4:17 AM
Our postdoc Julien Cicero just sent me this beautiful image of IPSC derived motor neurons and I had to share 😍😍😍
Reposted by Peter Campbell Clarke
🚨 I am super happy to announce that our analysis of how the structure of protein-RNA interfaces evolves is now published (early access) at @plos.bsky.social Computational Biology:
doi.org/10.1371/jour...
🧬🧶
doi.org/10.1371/jour...
🧬🧶
December 3, 2024 at 10:03 PM
🚨 I am super happy to announce that our analysis of how the structure of protein-RNA interfaces evolves is now published (early access) at @plos.bsky.social Computational Biology:
doi.org/10.1371/jour...
🧬🧶
doi.org/10.1371/jour...
🧬🧶
Reposted by Peter Campbell Clarke
Look at this crazy thing www.nature.com/articles/s41...
Near-identical macromolecules spontaneously partition into concentric circles - Nature
A particular liquid–liquid phase separation at a solid–liquid interface led to the unexpected partitioning of highly similar polymeric molecules into concentric circles.
www.nature.com
December 4, 2024 at 9:43 PM
Look at this crazy thing www.nature.com/articles/s41...
Reposted by Peter Campbell Clarke
Sixth (and last) episode of our "Nature of Intelligence" podcast is out!
This time I'm in the hot seat -- Abha interviews me about "AI's changing seasons" and lots of other AI-related stuff.
www.santafe.edu/culture/podc...
This time I'm in the hot seat -- Abha interviews me about "AI's changing seasons" and lots of other AI-related stuff.
www.santafe.edu/culture/podc...
sfiscience
www.santafe.edu
December 4, 2024 at 10:07 PM
Sixth (and last) episode of our "Nature of Intelligence" podcast is out!
This time I'm in the hot seat -- Abha interviews me about "AI's changing seasons" and lots of other AI-related stuff.
www.santafe.edu/culture/podc...
This time I'm in the hot seat -- Abha interviews me about "AI's changing seasons" and lots of other AI-related stuff.
www.santafe.edu/culture/podc...
Reposted by Peter Campbell Clarke
To fertilize, sperm must locate and recognize an egg. How? The structure of each sperm cell encodes a latent representation of this task. We use fertilization as a simple model process to study the nature of latent encoding. #ComplexSystems #ReproRocks
youtu.be/c1aoQ4aILIw?...
youtu.be/c1aoQ4aILIw?...
Human Sperm Differential Interference Contrast (DIC)
YouTube video by ECU CAS LAB
youtu.be
December 4, 2024 at 11:09 AM
To fertilize, sperm must locate and recognize an egg. How? The structure of each sperm cell encodes a latent representation of this task. We use fertilization as a simple model process to study the nature of latent encoding. #ComplexSystems #ReproRocks
youtu.be/c1aoQ4aILIw?...
youtu.be/c1aoQ4aILIw?...
Reposted by Peter Campbell Clarke
Oarfish 0.6.5 is out github.com/COMBINE-lab/...! V0.6.4 added optional output of (optionally compressed) per-read assignment probabilities. V0.6.5 cleans up that output a bit, bumps to the newest minimap2-rs crate (thanks @josephguhlin.bsky.social) & now accepts uBAM as input in raw read mode!
GitHub - COMBINE-lab/oarfish: long read RNA-seq quantification
long read RNA-seq quantification. Contribute to COMBINE-lab/oarfish development by creating an account on GitHub.
github.com
November 28, 2024 at 11:53 AM
Oarfish 0.6.5 is out github.com/COMBINE-lab/...! V0.6.4 added optional output of (optionally compressed) per-read assignment probabilities. V0.6.5 cleans up that output a bit, bumps to the newest minimap2-rs crate (thanks @josephguhlin.bsky.social) & now accepts uBAM as input in raw read mode!
Reposted by Peter Campbell Clarke
Consistently a number of events that were believed to be through DNA damage are through ribosome signaling triggered by damaged RNA. An amazing new area
sunburn is from ribosomes stalled by UV damage to RNA? super cool www.sciencedirect.com/science/arti...
The ribotoxic stress response drives acute inflammation, cell death, and epidermal thickening in UV-irradiated skin in vivo
Solar UVB light causes damage to the outermost layer of skin. This insult induces rapid local responses, such as dermal inflammation, keratinocyte cel…
www.sciencedirect.com
November 27, 2024 at 5:24 AM
Consistently a number of events that were believed to be through DNA damage are through ribosome signaling triggered by damaged RNA. An amazing new area
Reposted by Peter Campbell Clarke
Our fantastic collaboration with the lab of Nils Blüthgen @molsysbio.bsky.social has been published:
www.embopress.org/doi/full/10....
#RNASky #RNAbiology @mdc-berlin.bsky.social
www.embopress.org/doi/full/10....
#RNASky #RNAbiology @mdc-berlin.bsky.social
Subcellular mRNA kinetic modeling reveals nuclear retention as rate-limiting | Molecular Systems Biology
imageimageTranscriptome-wide measurement of subcellular mRNA dynamics in mouse ES cells reveals that nuclear retention is the rate-limiting step in the life-cycle of most mRNAs and provides a resource for understanding spatiotemporal gene ...
www.embopress.org
November 21, 2024 at 10:45 AM
Our fantastic collaboration with the lab of Nils Blüthgen @molsysbio.bsky.social has been published:
www.embopress.org/doi/full/10....
#RNASky #RNAbiology @mdc-berlin.bsky.social
www.embopress.org/doi/full/10....
#RNASky #RNAbiology @mdc-berlin.bsky.social
Reposted by Peter Campbell Clarke
🧪#RNA #RNASky
Really cool article from earlier this year. Ribozyme polymerase replicating another ribozyme with high fidelity. More ammunition for the RNA World?
www.pnas.org/doi/10.1073/...
Really cool article from earlier this year. Ribozyme polymerase replicating another ribozyme with high fidelity. More ammunition for the RNA World?
www.pnas.org/doi/10.1073/...
RNA-catalyzed evolution of catalytic RNA | PNAS
An RNA polymerase ribozyme that was obtained by directed evolution can propagate a
functional RNA through repeated rounds of replication and select...
www.pnas.org
November 21, 2024 at 1:40 PM
🧪#RNA #RNASky
Really cool article from earlier this year. Ribozyme polymerase replicating another ribozyme with high fidelity. More ammunition for the RNA World?
www.pnas.org/doi/10.1073/...
Really cool article from earlier this year. Ribozyme polymerase replicating another ribozyme with high fidelity. More ammunition for the RNA World?
www.pnas.org/doi/10.1073/...
Reposted by Peter Campbell Clarke
Reposted by Peter Campbell Clarke
RhoFold+, nucleotide language model for accurate 3d structure prediction of RNA, from the Wyss institute: www.nature.com/articles/s41...
Accurate RNA 3D structure prediction using a language model-based deep learning approach - Nature Methods
RhoFold+ is an end-to-end language model-based deep learning method to predict RNA three-dimensional structures of single-chain RNAs from sequences.
www.nature.com
November 22, 2024 at 7:26 AM
RhoFold+, nucleotide language model for accurate 3d structure prediction of RNA, from the Wyss institute: www.nature.com/articles/s41...
Reposted by Peter Campbell Clarke
Awesome new work from Sam Butcher's lab--including a 1 angstrom structure of a new pUG RNA!
Self-assembly and condensation of intermolecular poly(UG) RNA quadruplexes academic.oup.com/nar/article/...
Self-assembly and condensation of intermolecular poly(UG) RNA quadruplexes academic.oup.com/nar/article/...
Self-assembly and condensation of intermolecular poly(UG) RNA quadruplexes
Abstract. Poly(UG) or ‘pUG’ dinucleotide repeats are highly abundant sequences in eukaryotic RNAs. In Caenorhabditis elegans, pUGs are added to RNA 3′ ends
academic.oup.com
November 25, 2024 at 5:41 PM
Awesome new work from Sam Butcher's lab--including a 1 angstrom structure of a new pUG RNA!
Self-assembly and condensation of intermolecular poly(UG) RNA quadruplexes academic.oup.com/nar/article/...
Self-assembly and condensation of intermolecular poly(UG) RNA quadruplexes academic.oup.com/nar/article/...
Reposted by Peter Campbell Clarke
Theodor W. Hänsch, from his Nobel lecture in 2005 (www.nobelprize.org/prizes/physi...
Curiosity-driven research vs goal-oriented research
Curiosity-driven research vs goal-oriented research
November 26, 2024 at 1:18 PM
Theodor W. Hänsch, from his Nobel lecture in 2005 (www.nobelprize.org/prizes/physi...
Curiosity-driven research vs goal-oriented research
Curiosity-driven research vs goal-oriented research
Reposted by Peter Campbell Clarke
I am excited to share this animation of the budding yeast inner kinetochore. Created for David Barford's lab @mrclmb.bsky.social
This DNA-binding protein complex acts as an anchor for the spindles that pull chromosomes apart during mitosis.
www.science.org/doi/10.1126/...
#blender #animation #b3d
This DNA-binding protein complex acts as an anchor for the spindles that pull chromosomes apart during mitosis.
www.science.org/doi/10.1126/...
#blender #animation #b3d
November 25, 2024 at 10:30 AM
I am excited to share this animation of the budding yeast inner kinetochore. Created for David Barford's lab @mrclmb.bsky.social
This DNA-binding protein complex acts as an anchor for the spindles that pull chromosomes apart during mitosis.
www.science.org/doi/10.1126/...
#blender #animation #b3d
This DNA-binding protein complex acts as an anchor for the spindles that pull chromosomes apart during mitosis.
www.science.org/doi/10.1126/...
#blender #animation #b3d