A comprehensive list of TADs, differential TADs, TADs changed near known myogenic genes, loops, and differential loops is provided in Table S4.
Category: biotech/medical
Traces of bacteria inside brain tumors may affect tumor behavior
Researchers at The University of Texas MD Anderson Cancer Center have uncovered unexpected traces of bacteria within brain tumors. This discovery offers new insights into the environment in which brain tumors grow and sets the stage for future studies seeking to improve treatment outcomes.
Published today in Nature Medicine, the data revealed that bacterial genetic and cellular elements were present inside brain tumor cells and across the tumor microenvironment. These bacterial components appeared biologically active, potentially influencing tumor behavior and progression in patients with gliomas and brain metastases.
The multi-institutional study was led by Golnaz Morad, D.D.S, Ph.D., postdoctoral research fellow in Surgical Oncology, and Jennifer Wargo, M.D., professor of Surgical Oncology and Genomic Medicine and core member of the James P. Allison Institute—working in close collaboration with MD Anderson’s Platform for Innovative Microbiome and Translational Research (PRIME-TR).
How the human brain anticipates and regulates the body’s needs
They also used a recently validated map of deep brain areas. This in vivo atlas, Brainstem Navigator, maps the regions involved in regulating the autonomic, immune and endocrine systems.
The authors analytic approach was guided by decades of basic research that has identified two main brain pathways in mammals: one set of pathways (allostatic) that sends signals from the brain to control the body’s organs, and the other set (interoceptive) that sends signals from the body to the brain, informing it about what’s happening inside us.
The findings replicated and expanded on their previous 3 Tesla work, confirming nearly all the direct connections identified in non-human mammals: 100% of those between cortical areas and 96% of those linking subcortical areas to both cortical and other subcortical areas. As expected, the authors found two-way connections between the brain areas that help manage the body’s needs (like the anterior cingulate cortex) and the areas that sense what’s happening inside the body (like the posterior insula). This means these regions communicate back and forth, helping the brain predict and regulate what the body needs.
Mounting evidence suggests that one of the brain’s central roles is to anticipate and meet the body’s energy needs. The findings place the monitoring and regulation of the body’s needs at the functional core of the human brain, showing the close connection between mental and physical health.
Previous studies in both animal models and humans have pointed to the existence of a distributed system in the brain that helps it anticipate and prepare for the body’s energy needs — a process called allostasis — as well as monitor the sensory conditions inside the body, known as interoception.
In an earlier study using 3 Tesla fMRI, the team mapped a network supporting allostasis and interoception in the human brain, but the comparatively limited spatial resolution and sensitivity of the 3 Tesla technology made it difficult to fully capture the system’s smaller structures in the brainstem, which are known to play a key role in these processes.
Unique resin allows 3D-printing method to add and subtract
Additive manufacturing, or 3D printing, is normally a one-way street. In a digital light processing (DLP) printer, a structured pattern is projected onto a layer of liquid resin, which cures and solidifies. This builds an object up, layer-by-layer. But if the print isn’t exactly right, there’s no easy way to fix it after the fact: it usually ends up in the trash.
In a new study, published in Advanced Materials Technologies, researchers at Lawrence Livermore National Laboratory (LLNL) developed a hybrid additive and subtractive manufacturing system with a unique resin that enhances traditional 3D printing by introducing dual-wavelength behavior. Under blue light, the resin cures and hardens. Under ultraviolet light, it degrades back into a liquid. The hybrid printing system enables corrective manufacturing, provides improved print resolution and allows for upcycling and recycling of parts.
“Imagine if a company needed a part to fit a certain machine but it’s a prototype and they’re not quite sure what they want,” said LLNL scientist and author Benjamin Alameda. “They could theoretically print with our resin. And if there were defects or something they wanted to change about it, they don’t have to print a whole new part. They could just shine another wavelength on it and modify the existing part. That’s useful and less wasteful.”
How weakness in cell structure affects the host–microbiome relationship
Cells have an internal skeleton that maintains their structure and also drives their movement. Known as the cytoskeleton, this scaffold is composed of a network of dynamic filaments made of a protein called actin.
Given how important these structures are, alterations in the proteins that work together to build and control the actin cytoskeleton are often lethal or cause severe effects. For example, children born with mutations in the ARPC5 protein, which is part of the Arp2/3 complex, experience immunodeficiency and a high risk of fatal sepsis in early life.
“This is a rare and devastating condition, and until recently, it wasn’t clear how these mutations lead to such severe illness,” says Michael Way, who runs the Cellular Signaling and Cytoskeletal Function Laboratory at the Crick. “The only known effective treatment would involve early bone marrow transplantation to replace the faulty immune cells with ones which have a healthy actin cytoskeleton.”
Magnetically Guided Microrobots Deliver Drugs with Pinpoint Accuracy
After numerous successful trials in the model, the team sought to demonstrate what the microrobot could achieve under real clinical conditions. First, they were able to demonstrate in pigs that all three navigation methods worked and that the microrobot remains clearly visible throughout the entire procedure. The investigators then navigated microrobots through the cerebral fluid of a sheep.
“This complex anatomical environment has enormous potential for further therapeutic interventions, which is why we were so excited that the microrobot was able to find its way in this environment too,” Landers noted. “In vivo experiments conducted with an ovine model demonstrated the platform’s ability to operate within anatomically constrained regions of the central nervous system,” the investigators stated in their paper. “Furthermore, in a porcine model, all locomotion strategies were validated under clinical conditions, confirming precise microrobot navigation within the cerebrovascular system and highlighting the system’s compatibility with versatile in vivo environments.”
In addition to treating thrombosis, these new microrobots could also be used for localized infections or tumors. At every stage of development, the research team has remained focused on their goal, which is to ensure that everything they create is ready for use in operating theaters as soon as possible. The next goal is to look at human clinical trials. “The use of materials that have been FDA approved for other intravascular applications, coupled with the modular design of the robotic platform, should simplify translation and adaptability to a range of clinical workflows,” the authors concluded. Speaking about what motivates the whole team, Landers said, “Doctors are already doing an incredible job in hospitals. What drives us is the knowledge that we have a technology that enables us to help patients faster and more effectively and to give them new hope through innovative therapies.”
The Next Superintelligence Will Not Just Think. It Will Bleed
Biology needs the same kind of substrate. Without it, we are still guessing. With it, discovery starts to look predictable by design.
Drug development still leans on animal models and small patient cohorts to make billion-dollar bets. Those proxies teach us something, but they do not teach how a molecule behaves across the complexity of human biology. That is why nine out of ten drugs that succeed in animals fail in human clinical trials.
Biology needs an environment that gives intelligence the same systematic feedback that data centers gave to computation. That is what biological data centers provide. Robotic systems that sustain tens of thousands of standardized human tissues at once. Tissues that are vascularized and immune competent, clinically indistinguishable from patient biopsies under blinded review. Tissues that can be dosed, that bleed, that heal.
New lightweight polymer film can prevent corrosion
MIT researchers have developed a lightweight polymer film that is nearly impenetrable to gas molecules, raising the possibility that it could be used as a protective coating to prevent solar cells and other infrastructure from corrosion, and to slow the aging of packaged food and medicines.
The polymer, which can be applied as a film mere nanometers thick, completely repels nitrogen and other gases, as far as can be detected by laboratory equipment, the researchers found. That degree of impermeability has never been seen before in any polymer, and rivals the impermeability of molecularly-thin crystalline materials such as graphene.
“Our polymer is quite unusual. It’s obviously produced from a solution-phase polymerization reaction, but the product behaves like graphene, which is gas-impermeable because it’s a perfect crystal. However, when you examine this material, one would never confuse it with a perfect crystal,” says Michael Strano, the Carbon P. Dubbs Professor of Chemical Engineering at MIT.
Accelerating therapies for brain conditions
This pace of discovery might be expected given the extreme intricacy of the brain and psychiatric disorders.
“The brain is incredibly complex — we’re talking about tens of billions of neurons with trillions of connections,” says Kozo Kaibuchi, director of the International Center for Brain Science (ICBS) at Fujita Health University, near Nagoya in Japan. “Psychiatric and neurological disorders are also highly diverse — often involving subtle changes on a spectrum rather than one obvious cause.”
On top of that, there are further obstacles that hinder progress in developing treatments for these conditions — the difficulty of imaging inside the human brain; the scarcity of human-like models; and the blood–brain barrier, which prevents most drugs from entering the brain.
