A reef made with white thread/crochet.

White Coral Reef crochet by Anna Franklin, British textile artist/ embroiderist 💚

The Institute of Neurophysiopathology (INP) welcomes tenured researchers/lecturers, and junior researchers seeking a permanent position in France to lead or strengthen its research programs The Institute of Neurophysiopathology (INP) welcomes tenured researchers/lecturers, and junior researchers seeking a permanent position in France to lead or strengthen its research programs RESEARCHER...

Looking for a place to start your lab, or a join an existing team as a permanent researcher? My Institute, the INP in Marseille, has multiple open positions: associate professor, lecturer, group leader. Check more here, happy to answer questions by email or DMs! euraxess.ec.europa.eu/jobs/304107

EastBio - Identification of target genes for control of economically important plant pathogens using large foundation models (LFMs) at The James Hutton Institute on FindAPhD.com PhD Project - EastBio - Identification of target genes for control of economically important plant pathogens using large foundation models (LFMs) at The James Hutton Institute, listed on FindAPhD.com

Two PhD Opportunities in developing AI for better crops
🌱 Project 1: tinyurl.com/37xp5a7u
📅 Deadline: 17/01/2025
🌾 Project 2: tinyurl.com/3dffpvxn
📅 Deadline: 19/01/2025
Questions? Email: Runxuan.zhang@hutton.ac.uk.
#PhD #AI #ComputationalBiology #PlantScience #betterbarley

RNA control of reverse transcription in a diversity-generating retroelement
www.nature.com/articles/s41...

a man is standing in front of a sphere with the words science written on it . ALT: a man is standing in front of a sphere with the words science written on it .

Starting to read a backlog of papers from the past two weeks after dinner. Barely slept the other night. Crazy how reading papers stimulates you.

An automated framework for exploring and learning potential-energy surfaces Machine learning has become ubiquitous in materials modelling and now routinely enables large-scale atomistic simulations with quantum-mechanical accuracy. However, developing machine-learned interato...

Meet autoplex – our approach to automated ML potential fitting, built jointly with @molecularxtal.bsky.social & team in Berlin! In this preprint, we focus on exploring structures and training potential models "from scratch" with the help of automated workflows: arxiv.org/abs/2412.16736

Our collaboration with the Germain Lab is now out in its final form!

HHMI Names the 2024 Hanna Gray Fellows | HHMI The cohort includes early career scientists working in research areas ranging from treatment-resistant cancers to how animals evolved to live on land. The HHMI Hanna H. Gray Fellows Program provides e...

The list
www.hhmi.org/news/hhmi-na...

Congratulations to these fellows
Bring on the spirits of science 🔭
www.hhmi.org/news/hhmi-op...

Grateful for having contributed to this work by the Isabelle Baconguis group, who solved eleven (!) new structures of hASIC1a to show that open states require linear transmembrane helices, while desensitized states display a dazzling structural diversity
www.biorxiv.org/content/10.1...
#ionchannels

Sir2 is required for the quiescence-specific condensed three-dimensional chromatin structure of rDNA Quiescence in Saccharomyces cerevisiae is a reversible G0 crucial for long-term survival under nutrient-deprived conditions. During quiescence, the genome is hypoacetylated and chromatin undergoes sig...

a short and sweet paper in which we use 3D STED and Micro-C analysis to show dramatic changes in large 3D chromatin structures in quiescence. www.biorxiv.org/content/10.1...

The human RAD52 complex undergoes phase separation and facilitates bundling and end-to-end tethering of RAD51 presynaptic filaments Human RAD52 is a prime target for synthetical lethality approaches to treat cancers with deficiency in homologous recombination. Among multiple cellular roles of RAD52, its functions in homologous rec...

www.biorxiv.org/content/10.1...

A paper published in 1963.

2-4 emissions per day for 10 days, sperm count didn't return to normal levels for over 5 months.

a cartoon drawing of a banana with arms and legs waving ALT: a cartoon drawing of a banana with arms and legs waving

When a banana hears it is worth 6 million $

When you have been working hard in an academic setting and someone sells a banana for 6.2 millions.

Suggest a weekend reading list for a biophysicist.
Could your paper spam as well 😅

A profile picture of Douglas Prasher from Martin Chalfie's Nobel Lecture

Do you know who Douglas Prasher is? Many don't, even though he is the person who cloned the original #GFP gene in the late 1980s. In my short history of plant light #microscopy I also cover a bit of his story - & why he is relatively unknown today, despite the importance of his work. See this 🧵👇

Rad52 sorts and stacks Rad51 at the DNA junction to promote homologous recombination Homologous recombination (HR) repairs double-stranded DNA breaks (DSBs). The DSBs are resected to yield single-stranded DNA (ssDNA) that are coated by Replication Protein A (RPA). Rad51 is a recombina...

www.biorxiv.org/content/10.1...

Mechanism of single-stranded DNA annealing by RAD52–RPA complex - Nature Single-stranded DNA annealing is driven by RAD52 open rings in association with RPA.

www.nature.com/articles/s41...

Bioart: a cool freeware alternative to Biorender bioart.niaid.nih.gov from the NIH

NetSci: A Library for High Performance Biomolecular Simulation Network Analysis Computation We present the NetSci program–an open-source scientific software package designed for estimating mutual information (MI) between data sets using GPU acceleration and a k-nearest-neighbor algorithm. This approach significantly enhances calculation speed, achieving improvements of several orders of magnitude over traditional CPU-based methods, with data set size limits dictated only by available hardware. To validate NetSci, we accurately compute MI for an analytically verifiable two-dimensional Gaussian distribution and replicate the generalized correlation (GC) analysis previously conducted on the B1 domain of protein G. We also apply NetSci to molecular dynamics simulations of the Sarcoendoplasmic Reticulum Calcium-ATPase (SERCA) pump, exploring the allosteric mechanisms and pathways influenced by ATP and 2′-deoxy-ATP (dATP) binding. Our analysis reveals distinct allosteric effects induced by ATP compared to dATP, with predicted information pathways from the bound nucleotide to the calcium-binding domain differing based on the nucleotide involved. NetSci proves to be a valuable tool for estimating MI and GC in various data sets and is particularly effective for analyzing intraprotein communication and information transfer.

🚨Announcing NetSci: a super fast tool to compute correlated motion in biomolecules

pubs.acs.org/doi/10.1021/...

@pabloarantes.bsky.social & team also made it into a Colab notebook:
colab.research.google.com/drive/1GGJKr...

Give it a try & send feedback!

Design of facilitated dissociation enables control over cytokine signaling duration Protein design has focused primarily on the design of ground states, ensuring they are sufficiently low energy to be highly populated. Designing the kinetics and dynamics of a system requires, in addi...

For dynamics enthusiasts. De-novo design towards dynamics from Baker lab

www.biorxiv.org/content/10.1...

Glycogen 🔵 and the enzymes that synthesize it:

Glycogenin 🟠
Glycogen synthase 🟢

Glycogen is a sugar that animal cells produce as an energy reserve. The branches provide a greater number of terminal glucose molecules that can be quickly released during exercise.

#blender #animation #b3d #science

Mind your tag in single-molecule measurements

@CellRepMethods Preview by Raquel Merino Urteaga and Taekjip Ha

www.sciencedirect.com/science/arti...

First attempt in a (loosely defined) Single-Molecule Biophysics starter pack. Please share and (self-) nominate. go.bsky.app/CteFZM5

FANCD2–FANCI surveys DNA and recognizes double- to single-stranded junctions - Nature FANCD2–FANCI is a sliding clamp that diffuses on double-stranded DNA but stalls when it reaches a single-stranded gap, providing a unified molecular mechanism that reconciles the roles of FANCD2–...

Great example on how a simple optical tweezers assay can be used to enhance the structural understanding.
www.nature.com/articles/s41...

Determination of single-molecule loading rate during mechanotransduction in cell adhesion Single-molecular tension sensors reveal cellular force loading rate during mechanotransduction.

TGT calibration with optical tweezers.
www.science.org/doi/abs/10.1...