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Open-source software tracks wrist bone motion in 3D and 4D CT scans

9 September 2026 at 18:20

In a development that could reshape how scientists study the mechanics of human movement, a team of biomedical engineers and computer scientists has unveiled an open-source software tool capable of tracking the tiny, intricate bones of the wrist as they glide and rotate during motion. The new tool, called Hierarchical 3D Registration, or 3DH, is a module within the SlicerAutoscoperM extension of the widely used 3DSlicer computing environment. Described in a study published in BioMedical Engineering OnLine, the software was validated against previously established methods using both sequential three-dimensional computed tomography, or 3DCT, scans of living participants performing thumb tasks and dynamic four-dimensional CT, or 4DCT, images of cadaveric wrists moving through flexion and extension. The results demonstrate that the open-source approach can match the accuracy of independent, previously published methodologies while offering researchers everywhere a free and reproducible path to quantifying skeletal kinematics.

The wrist has long been one of the most challenging joints for biomechanists to study. It contains eight small carpal bones, including the scaphoid and lunate, along with the radius of the forearm and the metacarpal bones of the hand, all articulating in a tightly packed arrangement that allows the remarkable range of motion humans rely on every day. Understanding how these bones move relative to one another, a field of study known as arthrokinematics, is essential for unraveling the causes of wrist instability, osteoarthritis, ligament injuries and the long-term outcomes of surgical repairs. Yet measuring those movements in living, moving joints has historically required either invasive techniques, labor-intensive manual analysis or proprietary software that few laboratories can access or verify.

Quantitative tracking of skeletal structures in vivo, with both efficiency and high temporal resolution, matters to a wide range of questions in biomechanical research, and the authors of the new study argue that the field has been held back by a shortage of accessible, semi-automated registration tools. Image registration, the computational process of aligning one three-dimensional image volume to another, lies at the heart of motion tracking from CT data. When a bone moves between two scans, its position and orientation change, and a registration algorithm must find the transformation that best overlays the bone’s image from one time point onto the next. Done well, this yields precise measurements of rotation and translation. Done poorly or inconsistently, it introduces errors that can swamp the small movements of carpal bones, which may shift by only a few millimeters and a few degrees during normal function.

The new 3DH module addresses this problem with a hierarchical strategy for registering bones across sequences of image volumes. The researchers presented and evaluated the software using two distinct classes of data drawn from previous studies. The first consisted of sequential 3DCT datasets of human participants performing various thumb tasks, in which the radius, the first metacarpal and the trapezium were the target bones. The second consisted of dynamic 4DCT datasets capturing simulated flexion-extension motion in cadaveric wrists, providing time-resolved, three-dimensional image volumes of the scaphoid and lunate in motion. By testing the tool on both static sequential scans and true dynamic imaging, the team was able to demonstrate that 3DH is not limited to a single imaging paradigm but can serve as a unified tracking solution across modalities.

To determine whether the new open-source tool could be trusted, the investigators compared the arthrokinematics computed with 3DH against values that had been previously calculated using independent approaches for the same 3DCT and 4DCT datasets. The statistical framework for this comparison was the Bland-Altman analysis, a standard method for assessing agreement between two measurement techniques. Rather than simply correlating the two sets of results, Bland-Altman analysis quantifies the mean bias, the systematic difference between methods, and the 95 percent limits of agreement, the range within which most individual differences between the methods are expected to fall. This approach is particularly well suited to method-comparison studies because it reveals whether a new technique introduces systematic error and how widely individual measurements might deviate from those of the established gold standard.

The performance figures reported in the study are striking. For the 3DCT data, in which the radius, first metacarpal and trapezium were tracked, the mean bias for the helical angle, a single-axis description of three-dimensional rotation, was just minus 0.06 degrees, with 95 percent limits of agreement ranging between minus 1.87 degrees and 1.74 degrees. Translation measurements fared nearly as well: the mean bias was 0.12 millimeters, with limits of agreement spanning from minus 2.23 millimeters to 2.00 millimeters. In practical terms, the open-source tool reproduced the rotational and translational measurements of the earlier methods to within roughly two degrees and two millimeters at the extremes, differences small enough to preserve the biological signal in most wrist kinematics experiments.

The dynamic 4DCT results told a similar story for the carpal bones. Tracking the scaphoid and lunate through simulated flexion-extension, 3DH produced mean biases of the Euler angle rotations, which decompose three-dimensional rotation into three orthogonal components, of less than 0.77 degrees about any direction. The widest 95 percent limits of agreement ranged between minus 7.11 degrees and 8.65 degrees. For translations, mean biases were less than 0.5 millimeters in any direction, with the widest limits of agreement ranging between minus 2.36 millimeters and 1.43 millimeters. The wider limits of agreement for rotations in the dynamic data likely reflect the added challenges of time-resolved imaging, including motion blur and the smaller, more complexly shaped carpal bones, but the near-zero mean biases indicate that the tool does not systematically drift away from established values.

Crucially, all target bones were successfully tracked in both the 3DCT and 4DCT datasets, meaning the hierarchical registration algorithm converged on correct solutions in every case tested. This robustness matters because registration algorithms can occasionally fail, locking onto incorrect alignments or diverging entirely, and such failures typically demand time-consuming manual intervention. A semi-automated tool that reliably succeeds across diverse bones, motion tasks and imaging protocols removes a significant bottleneck. Manual bone tracking in CT volume sequences can take hours per bone per trial, and the labor multiplies rapidly in studies involving multiple participants, multiple bones and dozens of motion cycles. By automating this process within a validated framework, 3DH promises to accelerate the pace at which wrist biomechanics data can be collected and analyzed.

The choice to build the module inside 3DSlicer, and specifically within the SlicerAutoscoperM extension, is a deliberate strategic decision with implications well beyond the wrist. 3DSlicer is a free, open-source platform for medical image computing and visualization with a large international user base spanning research, clinical and educational communities. By embedding 3DH in this ecosystem, the developers have made the tool immediately available to any laboratory already working with 3DSlicer, complete with the platform’s established infrastructure for loading DICOM data, segmenting anatomical structures and visualizing results. The authors note that the ability to track bones from both 3DCT and 4DCT data sources, with agreement to prior methodologies, demonstrates that the 3DH approach is a capable tool that could promote collaboration and consistency of results through open-source software.

Consistency is a quietly urgent issue in biomechanics. When different laboratories use different proprietary tools with undisclosed algorithms, it becomes difficult to distinguish true biological differences between study populations from mere methodological discrepancies. Open-source registration changes that calculus: the code can be inspected, verified, extended and reused, and results from different institutions become directly comparable because they are produced by identical algorithms. This transparency also lowers the barrier to entry for research groups in settings that cannot afford commercial licenses, potentially broadening the global community capable of conducting rigorous skeletal kinematics research.

The study itself emerged from a collaboration spanning several institutions. The team included Joseph J. Crisco, Amy M. Morton and John D. Holtgrewe of the Department of Orthopedics at The Warren Alpert Medical School of Brown University and Rhode Island Hospital; Cesar Lopez, Andrew Thoreson and Kristin D. Zhao of the Assistive and Restorative Technology Laboratory and the Department of Physical Medicine and Rehabilitation at the Mayo Clinic in Rochester, Minnesota; and Jean-Christophe Fillion-Robin and Beatriz Paniagua of Kitware Inc. in Clifton Park, New York. The involvement of Kitware, a company known for its leadership in open-source scientific computing, underscores the blend of academic rigor and software engineering expertise required to produce a research tool robust enough for widespread distribution. Funding was provided by the National Institute of Arthritis and Musculoskeletal and Skin Diseases of the National Institutes of Health under award numbers AR059185, AR078924 and AR071338.

The implications of this work extend naturally to the future of musculoskeletal imaging. As newer CT technologies, including photon-counting detector systems, deliver ever-finer spatial resolution and as dynamic 4DCT becomes more widely available, the volume of image data available for kinematic analysis will grow dramatically. Tools like 3DH, which are fast, semi-automated and validated across modalities, will be essential for converting that imaging bounty into quantitative biomechanical knowledge. For patients with wrist disorders, the downstream promise is equally tangible: better measurements of how carpal bones actually move in living joints can inform more accurate diagnoses, improved surgical planning, more realistic computational models of joint loading and ultimately better-designed treatments for conditions ranging from scapholunate instability to thumb-base arthritis. With the tool now openly available in the 3DSlicer environment, researchers around the world can begin putting it to work.

Subject of Research: Open-source kinematic tracking of the small bones of the wrist in sequential 3DCT and dynamic 4DCT images using Hierarchical 3D Registration

Article Title: Kinematic tracking of the small bones of the wrist in sequential 3DCT and dynamic 4DCT volume images using open-source Hierarchical 3D Registration, a module within SlicerAutoscoperM

Article References: Crisco, J. J., Morton, A. M., Lopez, C., Thoreson, A., Zhao, K. D., Holtgrewe, J. D., Fillion-Robin, J.-C., & Paniagua, B. (2026). Kinematic tracking of the small bones of the wrist in sequential 3DCT and dynamic 4DCT volume images using open-source Hierarchical 3D Registration, a module within SlicerAutoscoperM. BioMedical Engineering OnLine. https://doi.org/10.1186/s12938-026-01601-x

Image Credits: AI Generated

DOI: 10.1186/s12938-026-01601-x

Keywords: Computed tomography, 3DCT, 4DCT, Bone tracking, 3DH, 3DSlicer, Image registration, Wrist kinematics, Arthrokinematics, Open-source software, SlicerAutoscoperM, Bland-Altman analysis

Denisovans in southwestern China reveal their ancient subsistence strategies

9 September 2026 at 18:03

The Denisovans, the enigmatic archaic human relatives first identified from a finger bone and a handful of teeth in a Siberian cave, have long been known almost exclusively through their DNA. Now, a landmark study published in Nature has pulled back the curtain on how these ancient hominins actually lived — what they ate, how they hunted, what tools they made, and the environments they braved — through an extraordinary assemblage of fossils and artefacts from Bianfu Cave in Yunnan Province, southwestern China. The findings paint the most detailed portrait to date of Denisovan biology, behaviour and ecology in eastern Asia, and suggest that these vanished people left a deep genetic and cultural imprint on later populations across Southeast Asia and Oceania.

The research team, led by Qingfeng Ruan, Hua Li and Song Xing and their colleagues, conducted a comprehensive analysis of hominin fossils and the associated archaeological remains recovered from Bianfu Cave. The hominin fossils themselves date to roughly 167,000 to 134,000 years ago, placing them firmly in the Middle Pleistocene. But the cultural sequence preserved in the cave’s sediments is far longer, stretching from approximately 190,000 years ago to about 70,000 years ago. That span — some 120,000 years of continuous or near-continuous occupation — makes Bianfu Cave one of the longest cultural records that can most parsimoniously be attributed to Denisovans anywhere in the world.

The Denisovan identity of the fossils was established through two independent and technically demanding lines of evidence. The first involved analysis of the enamel–dentine junction, the internal boundary between the enamel cap and the underlying dentine of the teeth. This three-dimensional morphological interface acts something like a fingerprint of evolutionary relationships, revealing diagnostic traits of the tooth’s internal architecture that are invisible from the outside but characteristic of particular hominin lineages. The second line of evidence came from palaeoproteomics, the recovery and identification of ancient proteins preserved within fossilized tissues. Because proteins are far more abundant and durable than DNA, they can survive in warm, humid environments like those of southern China, where genetic material degrades rapidly. Sequencing these ancient proteins allowed the researchers to place the Bianfu hominins on the Denisovan branch of the human family tree with confidence.

The fossil collection itself is remarkable. It includes four teeth that substantially expand the known range of dental variation within the Denisovan lineage — a critical contribution, since Denisovans were previously represented by a very small number of dental specimens, making it difficult to gauge how variable their teeth could be. The new fossils also include two cranial fragments and a radius, a forearm bone, providing rare glimpses of Denisovan skull and postcranial anatomy that were previously almost entirely unknown. Together, these remains transform Denisovans from a genome and a scatter of isolated teeth into a population with recognizable skeletal biology.

Beyond the fossils, the archaeological record from Bianfu Cave offers something equally precious: a window into Denisovan daily life. The researchers reconstructed the ancient environment using faunal remains and pollen preserved in the cave deposits. These records indicate that across Marine Isotope Stages 6 through 4 — a period encompassing major glacial–interglacial climatic swings between roughly 190,000 and 57,000 years ago — the landscape around the cave was dominated by coniferous forest or a mosaic of forest and steppe. This was a cool, variable environment that Denisovans exploited successfully across tens of thousands of years, demonstrating a resilience to climatic change that adds to growing evidence of their adaptability, from the high altitudes of the Tibetan Plateau to the subtropical latitudes of mainland Southeast Asia.

The subsistence evidence is particularly striking. Analysis of the animal bones from the cave shows that its inhabitants practised specialized hunting focused on medium- to large-bodied prey. This was not opportunistic scavenging but a sustained, targeted hunting strategy — one that would have required knowledge of animal behaviour, coordinated effort and effective weaponry. Specialized big-game hunting of this kind has often been associated with modern humans and late Neanderthals in western Eurasia, so finding it in a Denisovan context more than 150,000 years ago dramatically narrows the perceived behavioural gap between these archaic lineages and our own species.

Yet the technological strategy documented at Bianfu Cave is, at first glance, surprisingly simple. The stone tool assemblage is characterized by expedient core reduction and tool production — that is, the inhabitants struck flakes from cores as needed, used them, and discarded them, rather than investing in carefully shaped, curated tools that were carried, maintained and resharpened over time. Alongside this, the Denisovans of Bianfu Cave made pervasive use of unmodified bones, employing skeletal elements of their prey directly as tools without altering them beforehand.

Taken together, the researchers interpret this pattern as an adaptive system that prioritized the exploitation of what they call object affordance — the inherent functional possibilities already present in a raw material or object — over intensive tool manufacture. A suitably shaped bone fragment could serve as a hammer, a digging implement or a scraping tool with little or no modification; a sharp flake struck from a convenient core could cut and butcher without further refinement. In the rich, resource-diverse environments of subtropical southwestern China, where raw materials and animal resources were plentiful, such a flexible, low-investment strategy may have been not a sign of simplicity but a highly efficient way of life. It suggests that Denisovans measured success not by the sophistication of their toolkit but by how skilfully they read and exploited the opportunities their landscape provided.

This behavioural portrait gains added significance when set against the wider geography of Denisovan presence. Over the past decade and a half, Denisovans have been documented across a staggering range: from the original genomic discoveries in the Altai Mountains of Siberia, first reported in 2010, to the mandible from the Tibetan Plateau described in 2019, Denisovan DNA recovered from sediments at Baishiya Karst Cave in 2020, a molar from the Annamite Chain of northern Laos announced in 2022, a male Denisovan mandible from Pleistocene Taiwan reported in 2025, and proteomic identification of the 146,000-year-old Harbin cranium, also in 2025. Bianfu Cave now anchors this story firmly in southwestern China, a region long suspected to have been a Denisovan heartland and a critical corridor for hominin movements between mainland Asia and Southeast Asia.

The study’s authors argue that the region’s Denisovans point to a substantial genetic and cultural legacy in later human populations. Modern populations in Southeast Asia and Oceania carry the highest known proportions of Denisovan ancestry anywhere in the world — a legacy of interbreeding that occurred as modern humans moved through and beyond island Southeast Asia. The new evidence from Bianfu Cave suggests that the ways of life practised by Denisovans in this region — their hunting strategies, their flexible technological approaches, their hard-won knowledge of tropical and subtropical environments — may have been part of the inheritance, alongside their genes, that helped later human populations thrive as they spread across the diverse and challenging landscapes of Asia and the Pacific.

For palaeoanthropologists, the significance of the Bianfu Cave discoveries is difficult to overstate. Denisovans have been the least anatomically documented of all known hominin groups — a lineage defined first by DNA and only slowly fleshed out with fragmentary fossils. The new teeth, cranial fragments and radius from Yunnan, combined with an unmatched 120,000-year archaeological sequence, mean that researchers can finally study Denisovans not just as a genome or a set of molecular signatures but as a living, adapting population: hunters of large game, makers and users of expedient tools, and inhabitants of conifer forests that swung between glacial cold and interglacial warmth. As analysis of the Bianfu material continues, it promises to reshape our understanding of how archaic humans lived in eastern Asia and how deeply their story is woven into our own.

Subject of Research: Denisovan fossils and archaeological remains from Bianfu Cave, Yunnan Province, southwestern China, revealing Denisovan biology, technology, subsistence strategies and palaeoecology

Article Title: Denisovans from southwestern China and their subsistence strategies

Article References: Ruan, Q., Li, H., Xing, S., Zhao, K., Liu, J., Zanolli, C., Doyon, L., Delpiano, D., Peresani, M., d’Errico, F., Demeter, F., Hublin, J.-J., Xiao, P., Wang, Y., Jia, Z., Yang, Q., Fu, Q., Sun, Q., Zhao, Y., … Chen, F. (2026). Denisovans from southwestern China and their subsistence strategies. Nature. https://doi.org/10.1038/s41586-026-10997-4

Image Credits: AI Generated

DOI: 10.1038/s41586-026-10997-4

Keywords: Denisovans, Bianfu Cave, Yunnan, palaeoproteomics, enamel–dentine junction, Middle Pleistocene, subsistence strategies, expedient tool use, object affordance, specialized hunting, Marine Isotope Stages, Southeast Asia ancestry

Cardiac Breakthrough Could Offer Lifesaving Treatment to More Patients

8 September 2026 at 22:34
Healthy Human Heart AnatomyA major trial found that implantable cardioverter-defibrillators may benefit some patients younger than 70 with mild-to-moderate heart dysfunction and cardiac scarring. A more than decade-long randomized trial suggests that implantable cardioverter-defibrillators may benefit some patients who have heart scarring and only mild-to-moderate loss of heart function, a group that currently falls outside standard treatment guidelines. [...]

GOG brings back "big box" PC games, one printable template at a time

8 September 2026 at 22:23

Those who remember PC gaming in the days before Steam may have fond memories of the "big box" packaging that made those games stand out as shelf eye candy and sought-after in-home collectibles. Today, PC gaming platform GOG is hoping to reignite some of the nostalgia for those days by adding downloadable 3D models and printable, foldable high-res packaging scans for a handful of PC games on the platform.

Thus far, the "Printable Big Box" collection on GOG is limited to just five games: Armikrog, Descent, Hitman: Codename 47, Myst, and Star Trek: 25th Anniversary. Players browsing those games on the GOG store will now see "3D Boxes" listed among the included "Goodies" before purchase. Owners of those games on GOG can download a ZIP file containing a version of the box art as an animated 3D object file (in an easy-to-open GLB format) and a "flat printable template" in PDF, SVG, and Adobe Illustrator formats. Those downloads allow for what GOG calls "a proper papercraft project for anyone who misses shelves full of PC game boxes."

The 3D model animates to show the front flap opening. Credit: GOG

"Physical media doesn’t survive the way software can—boxes get lost, crushed, thrown out," GOG writes in today's announcement. "Scanning them, and letting you print your own, is preservation in a different shape: the same mission that keeps these games running on modern PCs, applied to the objects they used to come in."

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Depression in Later Life May Be an Early Warning Sign of Alzheimer’s

8 September 2026 at 21:24
Brain Depression Neuroscience Two SidesDepression in later life may be an early warning from the brain, appearing years before Alzheimer’s begins to affect memory and thinking A new study in JNeurosci found that faster accumulation of tau, a protein closely tied to Alzheimer’s, was associated with worsening depressive symptoms in older adults who remained cognitively healthy. Teodora Markova of [...]

Aging doesn't look the same for everyone at the molecular level — it's 'individualized and context-dependent'

4 September 2026 at 16:13

People who are the exact same chronological age can undergo very different molecular changes as they grow older, a new study finds.

"Molecular aging is dynamic and unique to each person," said study co-author Julia El-Sayed Moustafa, a computational genomics researcher at King's College London. Even if you and your friend were born the same day, the activity of some of your genes might ramp up while the same genes in your friend dial down. The same is true for metabolites, which are small molecules produced during the body's chemical processes essential for health.

Genetics, environmental exposures and daily biological rhythms may help to explain some of those differences, the researchers say.

The findings, published Thursday (Sept. 3) in the journal Science, may complicate efforts to capture aging with a single metric. For example, "biological age" scores estimate the body's true cellular and physical health, judging how much "older" it is than your chronological age. Scientists have developed "aging clocks" that use molecular markers, such as chemical tags on DNA, to estimate biological age.

But this new study suggests that "biological aging is less like a fixed score and more like a changing set of molecular trajectories," said Raghav Sehgal, an associate research scientist at the Yale School of Medicine who was not involved in the new research. "No single number can fully capture the many systems that age at different rates," he told Live Science in an email.

More than a snapshot

In the study, researchers followed 335 women ages 32 to 80 from the long-running TwinsUK cohort for eight years. The cohort includes identical and fraternal twin pairs, along with detailed health and biological data gathered to investigate how genetics and environment can influence health.

Each woman had at least three clinic visits between 2009 and 2017, with a median of six years between their first and last visits. At each visit, researchers took blood samples and measured gene activity and levels of metabolites.

"Most aging studies take only a 'snapshot,' comparing different people at one point in time," El-Sayed Moustafa said. "In this study, we have multiple measurements, so we can see how gene activity and metabolite levels change over time within the same person."

Two women with curly hair smile at the camera.

The study pulled data from the TwinsUK cohort, which in total includes over 15,000 identical and fraternal twins from across the U.K. (This is a stock image.) (Image credit: MesquitaFMS via Getty Images)

Of more than 16,000 genes and 915 metabolites analyzed, 5,061 genes and 181 metabolites changed significantly over time. Of those genes, the vast majority — 5,036 — showed a consistent increase or decrease across the group. The same was true of 45 metabolites.

Many of these genes were involved in pathways linked to immune function, metabolism and age-related conditions, including heart disease and neurodegenerative disorders.

That said, "even when most people's genes or metabolites moved in one direction, we still found groups moving the opposite way," said study co-author Kerrin Small, a professor of genomics at King's College London. So even if, on average, certain genes' activity trended in the same direction, there were individuals who broke from the pattern.

Among 136 metabolites, for example, the levels changed from person to person. A metabolite that increased in one woman could fall in another, while some showed little change over time. One consistent pattern was that each woman's overall metabolite profile also became less similar to her earlier profile.

What might shape those changes?

Several factors appeared to shape these molecular changes. Identical twins tended to have more similar gene-expression patterns than fraternal twins did, suggesting that genetics plays a strong role. Different immune cell types also showed distinct patterns of gene activity with age, suggesting age-related changes in the immune system are not uniform.

The molecular signals also varied with the time of day and season in which the blood samples were collected. About a quarter of the genes and metabolites showed seasonal shifts, including changes linked to energy production and immune activity, while up to 40% of the metabolites varied with the body's 24-hour internal clock.

The researchers also found an unexpected decline in blood levels of per- and polyfluoroalkyl substances (PFAS), including PFOA and PFOS. Often called "forever chemicals," PFAS are synthetic compounds used in a variety of products, such as nonstick cookware and food packaging. Their decline in the study was likely due to restrictions on their use in the U.K., the study authors suspect. Blood levels of PFAS were also associated with changes in some genes and metabolites, although the study could not show that the chemicals themselves caused those changes.

The team found more than 100,000 associations between genes and metabolites, suggesting that changes in certain genes go hand-in-hand with changes in specific metabolites. This highlights how interconnected the body’s biological processes are and how complex aging really is.

"I would not call aging unpredictable, but it is certainly more individualized and context-dependent," Sehgal said. Understanding these individual trajectories could one day help researchers distinguish healthy aging from molecular changes linked to disease, but that application is still a long way off.

The study was observational, included only women and relied solely on blood samples, so larger and more diverse studies are still needed to see whether these patterns hold in broader populations. The researchers now plan to track molecular changes over about 15 years, up from eight in the current study. In the future, Sehgal suggested, aging assessments could combine broad, biological-age scores with more personalized measures of immune, metabolic, brain and cardiovascular aging.

MacVoices #26197: Road to Macstock – Pat Fauquet

By: Chuck
30 June 2026 at 13:52
Pat Fauquet is the next stop onThe Road to Macstock is a conversation about her session, “Pills, Processes, and Procedures,” explaining how Apple devices can help manage medications, appointments, research, and communication with doctors. Drawing from years of health challenges and tech experience, she highlights the Apple Watch, iPhone, iPad, and Mac as practical tools for personal advocacy, caregiving, and preparedness. This might be the most important session this year. 

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MacVoices #26168: Road to Macstock – Mike T. Rose

By: Chuck
4 June 2026 at 16:36
The Road to Macstock takes a serious turn as Mike T. Rose previews his workshop on becoming a digital caretaker for family members and loved ones. Mike discusses scams targeting older adults, password sharing, remote support, Apple Passwords, financial preparedness, and the need to balance protection, respect, independence, and trust when helping others manage their digital lives. 

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ONE Microscopy Advances High-Resolution Imaging for Scientific Discovery

11 August 2026 at 13:54

Expansion microscopy has spent the past decade changing the rules of super-resolution imaging. Instead of relying solely on increasingly sophisticated optics, the technique physically enlarges biological specimens so that molecules separated by nanometers become easier to distinguish with ordinary fluorescence microscopes. Now, researchers have introduced a method designed to push that concept toward one of the most difficult goals in microscopy: seeing the shapes of individual proteins directly.

The approach, described by Ahmed H. Shaib, Mahmoud M. Alawieh and Stefan O. Rizzoli in Nature Protocols, combines one-step nanoscale expansion microscopy with fluctuation-based super-resolution analysis. The resulting workflow, called ONE microscopy, is intended to make molecular-scale imaging more accessible to laboratories that do not have access to cryo-electron microscopes or specialized high-end optical systems.

Traditional light microscopy is limited by diffraction, a physical effect that causes light from two nearby objects to blur together when they are too close. Even modern super-resolution methods can require complex instruments, intense labeling strategies or extensive computational processing. Expansion microscopy takes a different route. Researchers anchor biological molecules within a swellable polymer network and then expand the material, increasing the physical distance between fluorescent labels.

The expansion step does not automatically reveal every molecular detail. A protein’s structure can still be represented by only a small number of fluorescent signals, and conventional images may contain noise, background fluorescence and motion-related fluctuations. ONE microscopy addresses these limitations by analyzing changes in fluorescence intensity over time. These fluctuations contain information about the presence, position and behavior of labeled molecules that may not be obvious in a single frame.

In practical terms, the method links chemical preparation, physical enlargement and computational analysis into a single workflow. Samples are embedded in a polymer gel, labeled to identify the proteins of interest and then expanded. After expansion, researchers acquire image sequences using conventional fluorescence equipment. Specialized software analyzes the temporal variation in the recorded signals, extracting spatial information beyond what a standard diffraction-limited image would provide.

This combination is significant because it shifts the focus from simply locating a protein to examining its overall shape. For many biological questions, knowing that a protein is present is not enough. Its size, orientation and structural organization can determine how it interacts with membranes, vesicles, organelles or neighboring proteins. Directly observing those features could help researchers investigate molecular machines in their native cellular environments rather than relying exclusively on purified samples or averaged structural models.

The protocol is designed to work across a broad range of biological materials, including purified proteins, cultured cells and tissues. That flexibility could make the technique useful for researchers studying protein organization at multiple scales. A purified protein might provide a controlled test of shape reconstruction, while cells and tissues could reveal how the same protein is arranged amid the crowded and complex environment of living biology.

A major part of the reported advance is the accompanying software package. Fluctuation-based imaging can be powerful, but its usefulness depends on reliable data processing, and computational analysis has often been a barrier for non-specialist users. The authors present the software as stable and user-friendly, with the goal of making the analysis more efficient, reproducible and practical for laboratories using standard fluorescence microscopes.

ONE microscopy does not replace cryo-electron microscopy, which remains capable of resolving structures at atomic or near-atomic scales under appropriate conditions. Nor does it eliminate the challenges associated with labeling, gel chemistry, image quality and sample preparation. Expansion can introduce distortions, and successful imaging depends on preserving the relationship between the fluorescent labels and the underlying structures. Nevertheless, the method offers a complementary strategy: rather than averaging thousands or millions of molecules, it aims to examine individual protein shapes through expanded, fluorescence-labeled specimens.

The researchers describe the workflow as a practical framework for protein imaging on conventional equipment. By combining physical separation of fluorophores with information extracted from fluorescence fluctuations, the method brings nanoscale structural analysis closer to routine biological imaging. Its broader impact may come not from replacing existing forms of super-resolution, but from making a previously specialized capability more reproducible and attainable for laboratories investigating how individual proteins operate inside cells and tissues.

Subject of Research: One-step nanoscale expansion microscopy for visualizing individual protein shapes using conventional fluorescence microscopes.

Article Title: ONE microscopy.

Article References: Shaib, A.H., Alawieh, M.M. & Rizzoli, S.O. ONE microscopy. Nature Protocols (2026). https://doi.org/10.1038/s41596-026-01399-x

Image Credits: AI Generated

DOI: https://doi.org/10.1038/s41596-026-01399-x

Keywords: expansion microscopy, ExM, nanoscale imaging, super-resolution microscopy, fluctuation-based analysis, protein structure, fluorescence microscopy, single-protein imaging, cryo-electron microscopy, biological imaging

Biomedical Imaging Foundation Models: Separating Hype from Reality

11 August 2026 at 13:48

Foundation models are promising to become the “universal translators” of biomedical data—but a new perspective argues that medicine should resist treating them as all-knowing digital doctors. In a review published in Nature Biomedical Engineering, researchers describe how large, adaptable artificial intelligence systems are reshaping biomedical imaging while warning that impressive benchmark scores can conceal serious weaknesses in clinical environments. Their central message is direct: foundation models are most likely to improve healthcare by augmenting specialists, not replacing them.

Foundation models are designed to learn broad representations from enormous and diverse datasets before being adapted to specific tasks. In biomedical imaging, those data may include magnetic resonance imaging, computed tomography, X-rays, ultrasound, digital pathology slides and ophthalmic images. The same underlying model could theoretically identify tumors, segment organs, estimate disease risk, retrieve similar cases and generate clinical reports. The vision becomes even broader when imaging is combined with pathology, electronic health records and genomic information, creating a composite system intended to analyze a patient across multiple biological scales.

That ambition reflects a major change from traditional medical AI. Earlier systems were generally built for one narrowly defined task, such as detecting pneumonia on chest radiographs or outlining a brain lesion on MRI scans. Foundation models instead attempt to create a reusable backbone that can be transferred across diseases, hospitals and imaging technologies. Technically, they learn statistical patterns in high-dimensional data, often through self-supervised training in which the system predicts missing, transformed or associated information. Afterward, developers fine-tune or prompt the model for particular clinical applications.

But biomedical imaging is not a single, uniform world. Images differ according to scanner manufacturer, acquisition protocol, patient population, disease prevalence and local clinical practice. A model trained primarily on data from large academic hospitals may perform very differently in community clinics, rural settings or countries with limited equipment. This problem, known as domain shift, can occur even when images appear visually similar. Small changes in image quality, contrast, hardware or patient demographics may alter the statistical distribution learned by the model and undermine its predictions.

The authors introduce a framework called real-world evaluation and assessment of foundation models, or REAL-FM, to examine whether these systems are ready for practical use. Rather than focusing only on accuracy scores, REAL-FM considers several dimensions at once, including the quality and representativeness of training data, technical readiness, clinical value, integration into existing workflows and responsible artificial intelligence. The framework is intended to help clinicians interpret claims about new models and to push developers toward evaluations that resemble actual medical practice.

One of the sharpest distinctions in the perspective is between pattern recognition and causal reasoning. Foundation models can become extraordinarily skilled at recognizing visual associations—for example, linking a particular texture or anatomical feature with a diagnosis present in their training data. Yet association is not the same as understanding why a disease occurs, how it will progress or whether a treatment will benefit an individual patient. A model may identify a correlation that is valid in one hospital but reflects a hidden confounder, such as a scanner type, reporting convention or patient-selection pattern, rather than a biological signal.

This limitation becomes especially dangerous when models are moved beyond simplified benchmarks. Many benchmark datasets provide carefully curated images, clear labels and narrowly defined tasks. Clinical care is messier: scans can be incomplete, diagnoses can be uncertain, records may contain contradictory information and several conditions may coexist. The perspective highlights a lack of verified generalization across such conditions, along with a shortage of prospective, outcome-based validation. In a prospective study, an AI system would be evaluated while care is actually being delivered, with researchers measuring whether it improves diagnostic accuracy, treatment decisions, patient outcomes or workflow efficiency.

Data scarcity is another obstacle. The largest foundation models require vast quantities of data, but medical information is difficult to collect, standardize and share. Patient records are fragmented across institutions, imaging data may lack reliable annotations and rare diseases are inherently underrepresented. Privacy regulations and governance requirements further complicate the creation of centralized datasets. As a result, a model may appear broadly capable while remaining poorly tested in the populations and clinical circumstances where errors could have the greatest consequences.

The researchers argue that human oversight therefore remains indispensable. In practical terms, foundation models may be most useful as clinical assistants that prioritize images for review, highlight suspicious regions, summarize longitudinal records or offer a second opinion that specialists can interrogate. Safe deployment will require transparent reporting of uncertainty, monitoring for performance drift, mechanisms for correcting errors and clear accountability when recommendations influence care. The future envisioned by the authors is not a single monolithic medical oracle, but a coordinated ecosystem of specialized AI systems, each evaluated for a defined clinical role and connected to expert-led workflows.

The perspective arrives as the biomedical AI field races toward increasingly general-purpose systems. Its warning is not that foundation models lack value, but that technical scale alone cannot establish clinical reliability. Before these models can be trusted with consequential decisions, they must demonstrate robustness across domains, usefulness in real workflows, safety under unexpected conditions and measurable benefits for patients. The proposed REAL-FM framework offers a way to separate viral demonstrations from durable medical progress—by asking not only what a model can recognize, but where it works, why it works and whether it makes care better.

Subject of Research: Foundation models and their real-world evaluation in biomedical imaging and clinical medicine.

Article Title: Foundation models in biomedical imaging: turning hype into reality

Article References: Muneer, A., Zhang, K., Hamdi, I. et al. Foundation models in biomedical imaging: turning hype into reality. Nature Biomedical Engineering 10, 1557–1575 (2026). https://doi.org/10.1038/s41551-026-01762-z

Image Credits: AI Generated

DOI: 10.1038/s41551-026-01762-z

Keywords: foundation models, biomedical imaging, medical artificial intelligence, clinical AI, multimodal AI, domain shift, causal reasoning, clinical validation, responsible AI, REAL-FM

Schizophrenia’s Brain Damage May Start in One Key Region

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Webb Found a Hidden Planet in Beta Pictoris By Reading Its Atmosphere

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Scientists Say Eating Less Protein May Help You Live Longer

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Gmail is killing off one of its best features —and now I can't use it as my favorite email hub

8 August 2026 at 20:00

If you're of a certain age, you'll remember the frisson of excitement around the launch of Gmail back in 2004. The idea of getting 1GB of storage space completely free of charge seemed wild — and all of your messages could be got at in a simple web browser tab.

As someone who had become accustomed to deleting emails to save space, and painstakingly moving over message archives manually every time I got a computer upgrade, this sounded fantastic. So did being able to get at my emails from any device I wanted, instantly (that seems less appealing these days, somehow).

Something else Gmail has done really well down the years is act as a hub for other email accounts, letting you import and send messages from other accounts inside the Gmail interface — with all the benefits of powerful search, filtering, and spam flagging tools. Now though, most of that functionality is going away.

These are features that I've relied on for decades inside Gmail, and it's going to make my email experience much more frustrating and fragmented.

What's changing

Gmail app listing

Gmail is focusing on Google emails now (Image credit: Ascannio / Shutterstock)

Charting the gradual dismantling of these features inside Gmail is tricky, because the updates have largely come through emails to users and updates to support documentation — there aren't really any official blog post announcements to point to (it's not surprising Google wants to keep all of this quiet).

The most recent news is that the ability to send emails from other accounts through Gmail is going away, and will be switched off completely from January 2027. If you currently send your Outlook or Yahoo messages through Gmail, as I do, you're going to have to find another solution from the start of next year.

A couple of other features are also being killed off in January 2027 as well, though these changes are ones we've known about for a while. You'll no longer be able to import messages from other accounts via the old POP protocol — something I've relied on for years to get emails from all of my various accounts into the same place — and you won't be able to use the Gmailify feature that essentially adds a few Gmail features (like spam protection) to your third-party accounts.

As someone who primarily uses Gmail on the web, and has several email accounts feeding into it, these are significant changes — and I'm not the only one upset about them. My current setup means I can have separate emails for work, app sign-ups, newsletters, and so on, and keep them all in Gmail for searching, filtering, and labeling, and it's been a simple and reliable setup.

Now I'm going to have to go back to jumping between three or four different email apps to check everything. Different rules, different storage limits, different interfaces. It's an annoying set of changes, which Google hasn't really explained — presumably the idea is to keep users focused on Gmail, and to cut costs.

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Adding accounts in Gmail

You can still access other accounts in Gmail on mobile (Image credit: Google)

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This might cost you too: It's a paid-for extra for Yahoo Mail for example. That's particularly galling for me, because Yahoo is one of the accounts I feed into Gmail. I rely on it for newsletters, tickets, store accounts, general admin, and the like, and now I'm not going to be able to get at any of that inside Gmail.

Another option is to set up a desktop email client on Windows or macOS, which feels very old school. Gmail still supports the IMAP standard, and so do most other modern email services: all of your email will be together in one place, but you're only going to be able to access everything in one place from whatever desktop computer you set this up on.

Lastly, you can still add third-party accounts inside the Gmail app for Android or iOS. However, while this will let you view all your emails in one unified inbox, it won't actually move anything over to Gmail — if you open up the web app, your other accounts and all the messages inside them won't be there.

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Europe's free satellite service just made it easier to track wildfires

7 August 2026 at 22:48

The wildfires afflicting communities across the world can now be tracked more easily by anyone using Europe’s free and open satellite imagery service—all thanks to a wildfire visualization script originating from nearly a decade ago.

The Copernicus Browser provides free access to the latest satellite imagery taken by the European Space Agency’s Sentinel satellites for the European Union’s Earth observation program. The three satellites of the Sentinel-2 mission have proven especially useful for wildfire monitoring by providing multi-spectral imaging at resolutions as granular as 10 meters in visible light and near-infrared bands—and the Copernicus Browser previously offered 10 default visualization layers using different combinations of spectral bands.

Now Copernicus Browser has also added a straightforward “wildfires” visualization layer for Sentinel-2 imagery that went live on August 4. Anyone clicking on this layer while looking at a wildfire location can see active fires in white or yellow, burning vegetation in red, and burned landscapes in dark brown or black.

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© European Union | Copernicus Sentinel-2

Europe's free satellite service just made it easier to track wildfires

7 August 2026 at 22:48

The wildfires afflicting communities across the world can now be tracked more easily by anyone using Europe’s free and open satellite imagery service—all thanks to a wildfire visualization script originating from nearly a decade ago.

The Copernicus Browser provides free access to the latest satellite imagery taken by the European Space Agency’s Sentinel satellites for the European Union’s Earth observation program. The three satellites of the Sentinel-2 mission have proven especially useful for wildfire monitoring by providing multi-spectral imaging at resolutions as granular as 10 meters in visible light and near-infrared bands—and the Copernicus Browser previously offered 10 default visualization layers using different combinations of spectral bands.

Now Copernicus Browser has also added a straightforward “wildfires” visualization layer for Sentinel-2 imagery that went live on August 4. Anyone clicking on this layer while looking at a wildfire location can see active fires in white or yellow, burning vegetation in red, and burned landscapes in dark brown or black.

Read full article

Comments

© European Union | Copernicus Sentinel-2

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