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HarmonyGNN boosts graph AI accuracy on four tough benchmarks by up to 9.6%

Researchers have demonstrated a new training technique that significantly improves the accuracy of graph neural networks (GNNs)—AI systems used in applications from drug discovery to weather forecasting. GNNs are AI systems designed to perform tasks where the input data is presented in the form of graphs. Graphs, in this context, refer largely to data structures where data points (called nodes) are connected by lines (called edges). The edges indicate some sort of relationship between the nodes. Edges can be used to connect nodes that are similar (called homophily)—but can also connect nodes that are dissimilar (called heterophily).

For example, in a graph of a neural system there would be edges between nodes representing two neurons that enhance each other, but there would also be edges between nodes that suppress each other.

Because graphs can be used to represent everything from social networks to molecular structure, GNNS are able to capture complex relationships better than many other types of AI systems.

Minimally Invasive Ablation Can Treat Small Kidney Tumors

Among patients with T1a renal cell carcinoma (T1a RCC), ablation and surgical resection showed comparable risks for tumor progression. However, ablation was associated with higher rates of local recurrence but fewer complications and shorter hospital stays than resection or nephrectomy.

“Follow-up data revealed that most local recurrences in patients who underwent ablation were successfully treated with additional ablation or surgery,” the authors wrote.

“[T]his study suggests ablation as a less invasive alternative to surgery for patients with T1a RCC, resulting in a similar high level of oncologic control,” they added.

This study was led by Johanne Ahrenfeldt, PhD, MScEng, Aarhus University Hospital, Denmark. It was published online in Radiology.

Quantum computers are coming to break our codes faster than anyone expected

Online data is generally pretty secure. Assuming everyone is careful with passwords and other protections, you can think of it as being locked in a vault so strong that even all the world’s supercomputers, working together for 10,000 years, could not crack it.

But last month, Google and others released results suggesting a new kind of computer—a quantum computer—might be able to open the vault with significantly less resources than previously thought.

The changes are coming on two fronts. On one, tech giants such as IBM and Google are racing to build ever-larger quantum computers: IBM hopes to achieve a genuine advantage over classical computers in some special cases this year, and an even more powerful “fault-tolerant” system by 2029.

APOE4, the Alzheimer’s risk gene, silently undermines bone quality in women

Scientists at the Buck Institute for Research on Aging, along with collaborators at UC San Francisco, have discovered that APOE4, the most common genetic risk factor for Alzheimer’s disease, causes bone quality deficits specifically in female mice, through a mechanism that is invisible to standard imaging and can emerge as early as midlife. The findings, published in Advanced Science, reveal an unexpected biological link between Alzheimer’s risk and skeletal health, and identify a new molecular pathway that could one day inform earlier diagnosis of cognitive decline or guide treatment for bone quality loss in women who carry the APOE4 gene.

“What makes this finding so striking is that bone quality is being compromised at a molecular level that a standard bone scan simply will not catch,” says Buck professor Birgit Schilling, Ph.D., a senior author of the study. “APOE4 is quietly disrupting the very cells responsible for keeping bone strong, and it is doing this specifically in females, which mirrors what we see with Alzheimer’s disease risk.”

Physicians have long observed that people with Alzheimer’s disease suffer bone fractures at higher rates, and that a diagnosis of osteoporosis in women is actually the earliest known predictor of Alzheimer’s. But the underlying mechanism connecting brain and bone health has remained elusive.

In Active Solids, Connectivity Is as Important as Activity

A robotic metamaterial shows that the odd mechanics of active solids depend on how the active constituents connect across the system.

Active materials, composed of microscopic constituents that continuously inject motional energy into the system, can exhibit odd mechanical responses, such as stretching vertically when sheared horizontally. Such properties can be used to make materials that can spontaneously crawl or roll over a difficult terrain [1]. One might naively think that these desirable odd responses could be increased by making the components more active. Jack Binysh of the University of Amsterdam and his colleagues now find that this doesn’t always work [2]. The researchers show that in active solids a collective response only emerges when system-spanning connective networks are formed among the individual constituents of the system. Without such networks, the effects of microscopic activity remain confined locally and the macroscopic response disappears.

An active solid is, fundamentally, an elastic lattice made up of self-driving constituents. Examples include robotic lattices composed of motorized units [1, 2], magnetic colloidal crystals [3], and chiral living embryos [4]. The active solids that Binysh and his colleagues examined are examples of nonreciprocal active solids, meaning that the interactions between elements are directional. Interactions may become directional when individual constituents process information about their neighbors. Such nonreciprocal interactions arise in a wide range of settings. In robotic metamaterials, local control loops impose directional responses on adjacent mechanical units [1]. And in living chiral collectives, hydrodynamic flows allow rotating embryos to exchange momentum with the surrounding media [4].

New ‘molecular handle’ uses common amino acid to build complex medicines

In a new study published in Nature Communications, a team of chemists has unveiled a radically simple way to attach a highly sought-after “molecular handle,” known as the dichloromethyl group, onto complex compounds. Instead of relying on the aggressive, heavy-metal or radiation-heavy techniques of the past, the team used a common, naturally occurring amino acid called proline to gently choreograph the assembly.

“Rather than forcing these molecules into conventional reactivity modes or circumventing their electronic ambivalence, we harnessed their electronic ambivalence as a design principle,” says Prof. Dmitry Tsvelikhovsky, who led the research team at the Institute for Drug Research at the Hebrew University, alongside Elihay Kuniavsky and Dvora R. Levy.

Cracking a 16-year proton mystery as ultra-precise hydrogen measurements confirm a smaller-than-expected core

The simplicity of a hydrogen atom makes it an ideal model for studying atomic structure and interactions. Yet, despite the fact that its simplest form consists of only one proton and one electron, physicists have had a hard time pinning down the exact charge radius of the proton. But a new study, published in the journal Physical Review Letters, outlines a method of measurement that helps to resolve some past discrepancies.

In the quest to better understand one of the universe’s most important building blocks, several research teams have focused on measuring the proton’s charge radius—a measure of the spatial distribution of electric charge from a proton—using hydrogen spectroscopy. Some research teams did these experiments with normal hydrogen atoms and some with a form of hydrogen called muonic hydrogen. Muonic hydrogen is an exotic hydrogen atom consisting of a negatively charged muon bound to a proton, instead of an electron bound to a proton.

Theoretically, the protons in both regular and muonic hydrogen should have the same proton charge radius. However, some experimental results have shown disagreements regarding the rather precise measurements of muonic hydrogen’s charge radius, which gave a smaller value. This discrepancy is referred to as the “proton radius puzzle,” and it has plagued physicists since 2010, when the first results from a highly precise muonic hydrogen spectroscopy experiment came out.

Compact CRISPR system unlocks targeted in-body gene editing, with up to 90% efficiency

A research team has discovered an enhanced CRISPR gene-editing system that could enable targeted delivery inside the human body—a key step toward broader clinical use. Researchers identified a naturally occurring enzyme, Al3Cas12f, that is small enough to fit into adeno-associated virus vectors, a leading targeted delivery method for gene therapies. They then engineered an enhanced version that dramatically improved gene-editing performance in human cells.

The advance addresses a major limitation in CRISPR technology. Commonly used gene-editing proteins are too large for targeted delivery systems, restricting clinical applications to cells modified outside the body, such as blood and bone marrow.

“Smart delivery of gene editing systems is a powerful notion with broad clinical implications, and this basic science finding takes us a significant step toward that future,” said Erica Brown, Ph.D., acting director of NIH’s National Institute of General Medical Sciences (NIGMS).

Protein clusters reshape cell movement and may help cells build amino acids faster

Cells can be thought of as cities, with factories, a transport system, and lots of building activity. An international team led by scientists at the University of Groningen studied cells growing under different conditions and measured the speed of molecule transport. They found that some conditions led to changes in the mobility inside the cells, caused by the clustering of proteins that produce the building materials for growth. It could be that clustering enables the proteins to produce those building blocks more efficiently. The research is published in the journal Molecular Cell.

The research started with a seemingly simple question. How much movement is there within a cell? “We provided bacteria with different nutrients and this resulted in different growth rates,” explains Matthias Heinemann, Professor of Molecular Systems Biology. Movement was measured by inserting tiny (40 nanometers) fluorescent particles in the cells that could be tracked under the microscope. “To our surprise, we found that particle movement under different conditions could vary by a factor of three.”

The scientific literature could not explain this observation. By analyzing the cell content, the scientists found a correlation between movement of the fluorescent particles and the number of proteins that are involved in the production of amino acids. “More of these proteins meant less movement inside the cell,” says Heinemann. “This led us to the question of why this happens. Our hypothesis was that these proteins form clusters that act as obstacles to movement inside the cells.”

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