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  • Tax on AI and crypto could fund climate action, says former Paris accords envoy | Climate crisis

    Tax on AI and crypto could fund climate action, says former Paris accords envoy | Climate crisis

    Governments should consider taxing artificial intelligence and cryptocurrencies to generate funds to deal with the climate crisis, one of the architects of the Paris agreement has said.

    Laurence Tubiana, the chief executive of the European Climate Foundation and a former French diplomat, is co-lead of the Global Solidarity Levies Task Force, an international initiative to find new sources of funds for climate action by taxing highly polluting activities including aviation and fossil fuel extraction.

    She said cryptocurrency should certainly be taxed, and levies on AI should be considered.

    “That could be a first step – again, it’s the same rationale [for AI as taxing cryptocurrency], because they use a lot of energy,” she said. “Crypto seems to be something which is not regulated at all, and of course it’s a concern, from the financial stability element.”

    The equivalent of Poland’s annual energy consumption is expended each year just on generating bitcoin, one of the leading cryptocurrencies. AI also consumes vast resources, resulting in IT companies scrabbling to secure electricity supplies in locations around the world.

    Taxing AI could prove tricky, Tubiana conceded, as companies might try to shift the location of their datacentres. Although there was likely to be “pushback” against taxing cryptocurrencies, particularly from the US, where Donald Trump is an enthusiastic supporter of the technology, she said central bankers had expressed an interest.

    “Because we need to regulate it – it’s organised crime sometimes, so you should look at where the money’s coming from, and who is the user,” Tubiana said. The taskforce has assigned a group of experts to examine how this could be achieved.

    The taskforce has scored an early success in the form of an agreement among some countries to put new charges on business-class and first-class airline tickets, and private jets. France, Spain, Kenya, Barbados, Somalia, Benin, Sierra Leone, and Antigua and Barbuda were the first countries to sign up to the accord announced at the end of June.

    The French president, Emmanuel Macron, said: “We have to mobilise more and more countries in order for these critical sectors which are benefiting from globalisation to contribute to the financing of this common effort [to combat the climate crisis]. I want to urge all possible countries to join this international framework because it’s absolutely key, and it’s part of our agenda.”

    Such taxes could raise €147bn (£127bn) a year, if the big economies joined in. The use of private jets increased by almost 50% between 2019 and 2023, and first- and business-class flying recovered more speedily than economy class after the Covid lockdowns. Polls suggest that charging premier-class passengers more would be a popular move.

    Tubiana said: “When you have your car, you pay tax, and when you fly you don’t pay tax, so there is an element of justice there that resonates.”

    Countries could impose such taxes without a global agreement, she added. “The aviation tax is not that complicated, because it’s really a sovereign decision.”

    A potential carbon tax on shipping is also still under discussion, after the International Maritime Organization agreed steps towards such a deal in April. A further meeting will take place in October, and Tubiana said she was “reasonably optimistic” a new levy would be decided.

    The taskforce is also examining options such as a tax on buying shares in the stock market, which could raise as much as €105bn a year without distorting the market, according to research.

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    Rebecca Newsom, the global political lead of Greenpeace International’s Stop Drilling Start Paying campaign, urged the taskforce to go further and push for taxes on fossil fuel production.

    “The obvious next step is to hold oil and gas corporations to account,” she said. “As fossil fuel barons rake in obscene profits, and people are battered with increasingly violent floods, storms and wildfires, it’s no surprise that eight out of 10 people support making them pay. Members of the Global Solidarity Levies Task Force and rich countries around the world should act upon this enormous public mandate.”

    Tubiana, who guided the Cop21 conference in 2015 at which the Paris agreement was signed, also expressed concern about the direction France was taking in international climate negotiations.

    Macron has mooted a delay to the European Commission’s proposal of a 90% cut to greenhouse gas emissions by 2040, a target that is supposed to be confirmed by the EU parliament and member states in September before the Cop30 climate summit in Brazil in November.

    Tubiana said Macron’s new-found hesitation over climate policy was “a very sad story”. She warned that it would backfire and would reduce the chances of a strong outcome for Cop30, at which countries must set new emissions goals under the Paris agreement.

    “How can we ask anybody to do something if we’re not doing it, if we’re not proving that we believe we can decarbonise the economy?” she said. “I hope they will wake up to the bad signals they are giving. It’s really not reasonable to think that delaying action will benefit the economy of France. We need innovation, we don’t need to delay.”

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  • Fire ‘severely damages’ Belgium’s Tomorrowland stage ahead of Friday start | Arts and Culture News

    Fire ‘severely damages’ Belgium’s Tomorrowland stage ahead of Friday start | Arts and Culture News

    The annual Tomorrowland festival is set to draw about 100,000 attendees, with many expected to camp on site.

    A huge fire has engulfed the main stage of Belgium’s globally-renowned Tomorrowland electronic dance music festival, two days before the event was due to open to an expected audience of 100,000.

    “Due to a serious incident and fire on the Tomorrowland Mainstage, our beloved Mainstage has been severely damaged,” festival organisers said in a statement on Wednesday.

    “We can confirm that no one was injured during the incident,” it added.

    Several hundred firefighters had fought to save the stage from the flames, and Antwerp prosecutors have opened an investigation, though they said the fire appeared accidental.

    The annual Tomorrowland festival, held in the town of Boom, north of Brussels, is set to begin on Friday and approximately 100,000 participants are expected to attend, with many planning to camp on site for the duration of the event.

    The 2025 edition is scheduled to run over the next two weekends.

    Organisers said the festival’s campground will open as scheduled on Thursday, when attendees are expected to begin arriving, and emphasised that they are focused on finding solutions for the weekend events.

    Several dozen DJs and electronic music stars, such as David Guetta, Lost Frequencies, Armin van Buuren and Charlotte de Witte, are to perform from Friday for the first weekend, with two-thirds of the events split between the now destroyed “Mainstage” and the “Freedom Stage”.

    Founded 20 years ago by two Belgian brothers, Tomorrowland has become an internationally-renowned event. A winter festival is now held in the French ski resort of Alpe d’Huez and another in Brazil.

    Belgium’s King Philippe and Queen Mathilde attend the Tomorrowland 2017 music festival in Boom, Belgium, on July 21, 2017 [Danny Gys/Pool via Reuters]

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  • No Titanium Frame For Pro Model? Only Apple iPhone 17 Air Likely To Feature Premium Build

    No Titanium Frame For Pro Model? Only Apple iPhone 17 Air Likely To Feature Premium Build

    Apple is reportedly making an unexpected design shift by reserving the premium titanium build for just one of its upcoming iPhone 17 models. And surprisingly, it’s not the model most would expect. According to The Information, the new iPhone 17 Air, rather than the high-end Pro versions, will be the sole model in the lineup to feature titanium.

    This move comes after Apple had heavily promoted the use of titanium as a signature element of the iPhone 15 Pro and Pro Max, which debuted two years ago. The material continued to distinguish the iPhone 16 Pro range as well. But the latest reports suggest that titanium is being dropped from the Pro line in the upcoming series in favour of aluminium, which is a notable reversal in design philosophy so soon after embracing the premium metal.

    Apple analyst Ming-Chi Kuo provided further clarity on the development. Kuo noted that titanium is not being scrapped entirely, but instead will make an appearance exclusively on the new iPhone 17 Air. According to Kuo, the device will sport a titanium-aluminium alloy metal frame, with a lower percentage of titanium than the current Pro and Pro Max metal frames. This implies a hybrid construction, retaining the premium feel while possibly reducing costs or weight.

    Analyst Jeff Pu has also confirmed this direction in his latest research note. According to a report in MacRumors, Pu stated in an investor note with equity research firm GF Securities that the iPhone 17, iPhone 17 Pro and iPhone 17 Pro Max are expected to feature aluminium frames. This would make the iPhone 17 Air the only model in the lineup likely to use titanium.

    Traditionally, Apple has used titanium as a hallmark of its ‘Pro’ devices. The new iPhone 17 Air, expected to be positioned as a more affordable and lighter model, would mark a significant departure from that strategy.

    According to 9to5Mac, the move is surprising given that the iPhone 17 Air is expected to be a lower-cost model, yet it will feature a more premium build than the higher-end Pro and Pro Max devices.

    One possible explanation, according to 9to5Mac, is that titanium is being used in the Air to help reduce weight, particularly if the Pro models are reverting to stainless steel. However, aluminium is lighter than titanium, making the choice somewhat puzzling, according to 9to5Mac. 

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  • Standardized brain cell atlas to accelerate Parkinson’s and Alzheimer’s research

    Standardized brain cell atlas to accelerate Parkinson’s and Alzheimer’s research

    Researchers now have a powerful new way to understand the types of brain cells that are affected in neurodegenerative diseases and to uncover connections between conditions such as Parkinson’s, Alzheimer’s, and other forms of dementia.

    The Aligning Science Across Parkinson’s (ASAP) initiative and Allen Institute are joining forces to unlock insights into Parkinson’s and other neurodegenerative diseases through an expansion of the Allen Brain Cell (ABC) Atlas visualization tool – uniting data from millions of human brain cells and enabling researchers to explore the brain at unprecedented resolution.

    Through this collaboration, ASAP’s Collaborative Research Network (CRN) Cloud repository will add data from 3 million human cells across 9 brain regions from individuals with Parkinson’s to the 6.4 million human cells already available in the ABC Atlas visualization tool – an increase of nearly 50%.

    The collaboration marks the first time data from patients with Parkinson’s disease will be included in the ABC Atlas. By increasing access to the data and using a common language for cell types, both ASAP and Allen Institute are setting a new standard across the research community for characterizing disease-related changes in specific cell types of the brain. To support this work, ASAP is working with The Michael J. Fox Foundation for Parkinson’s Research (MJFF) to implement its programs.

    “When we launched the CRN Cloud platform in 2024, we set out to turn data from scarce patient brain samples into a catalyst for discovery,” said Ekemini A. U. Riley, PhD, Managing Director of ASAP. “This collaboration unlocks powerful new opportunities, giving researchers access to high-value datasets that could transform our understanding of Parkinson’s and other neurodegenerative diseases.”

    The NIH BRAIN Initiative Cell Atlas Network (BICAN) supported the creation of a standardized reference of the cell types that make up the human brain in the spirit of the Human Genome Project. The Seattle Alzheimer’s Disease Brain Cell Atlas (SEA-AD) was the first disease study to adopt this cellular reference framework to identify vulnerable and affected cell types in Alzheimer’s Disease.

    “This framework sets up a system to understand what types of cells and molecular programs are affected in any brain disease at a very high level of detail, and to compare across diseases using the same vocabulary,” says Ed Lein, Senior Investigator at the Allen Institute and a lead investigator on efforts in BICAN and SEA-AD, as well as the current collaboration with ASAP.

    Parkinson’s disease is now the second most common and fastest-growing neurodegenerative condition worldwide. As of today, more than 10 million people across the globe are living with Parkinson’s – a number that is expected to double by 2040. With no known way to prevent, slow, or stop its progression, it remains a critical global health challenge.

    In studying diseases like Parkinson’s, data from postmortem human brain samples are a precious resource that are extremely limited. They are costly and time-intensive to collect and manage, making open access essential for accelerating research and discovery. Postmortem human brains have been key for many foundational discoveries in neuroscience, including the identification of the pathological features of Parkinson’s and Alzheimer’s. These discoveries – such as identifying that dopamine-producing neurons are the ones affected in Parkinson’s and developing dopamine replacement therapies, like L-dopa (the only effective treatment for Parkinson’s) – have paved the way for developing targeted therapies and identifying biomarkers for disease diagnosis.

    “Single-cell genomics has unlocked new frontiers in understanding cell types in the brain and targeting them with therapies,” said Tyler Mollenkopf, Associate Director, Data & Technology at the Allen Institute.

    We released the Allen Brain Cell Atlas in 2023 to help researchers everywhere explore the thousands of cell types in the mammalian brain. It’s a huge step forward to incorporate ASAP’s Parkinson’s data and empower scientists with more ways to crack the code on brain disease.”


    Tyler Mollenkopf, Associate Director, Data & Technology,  Allen Institute

    Now, researchers who study neurodegenerative diseases have access to this critical data to explore how Parkinson’s, Alzheimer’s, and related neurodegenerative diseases are connected. These conditions share similar symptoms – like movement problems, memory loss, sleep issues, and changes in automatic body functions – which may be driven by common underlying causes. With this collaboration, researchers have a singular place to visualize cross-disease data using a shared system for labeling cell types – allowing them to unlock deeper insights into how cells, brain anatomy, and neurodegenerative conditions intersect.

    “The Allen Institute has provided many large-scale foundational data and resources about the cell types and circuits in the brain to the broad community,” says Hongkui Zeng, Executive Vice President of the Allen Institute, Director of Allen Institute for Brain Science, and a long-time lead investigator in BICAN and other BRAIN Initiative programs. “Partnering with ASAP in revealing how brain cells go awry in Parkinson’s disease will greatly amplify the impact we can jointly make to accelerate the development of more effective treatments.”

    Source:

    Aligning Science Across Parkinson’s

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  • Futuristic Action-Adventure Games : cyberpunk 2077 mac

    Futuristic Action-Adventure Games : cyberpunk 2077 mac

    Cyberpunk 2077: Ultimate Edition will be released natively on macOS on July 17, 2025, marking the first time the full game and its Phantom Liberty expansion are available to Apple Silicon users. The macOS port supports devices equipped with M-series chips, from the original M1 through the latest M4 processors. Players who have previously purchased Cyberpunk 2077 on Steam, GOG or the Epic Games Store will receive access to the macOS version at no additional cost, preserving cross-progression and all updates included in Patch 2.3.

    The port requires macOS 15.5 or later and between 92 GB (Steam, GOG, Epic) and 159 GB (Mac App Store) of storage, due to all voiceover assets being bundled for the App Store version. A minimum configuration of an M1 chip with 16 GB of unified memory targets 30 fps at 1440 × 900 or 1600 × 900 resolution. Recommended settings call for an M3 Pro with at least 18 GB of RAM to achieve 60 fps at 1080 p. Higher fidelity presets—“High Fidelity” and “Very High Fidelity”—are tuned for M2 Ultra/M3 Max and M3 Ultra/M4 Max systems with 36 GB of RAM, enabling higher resolutions, ray-tracing support and up to 60 fps. The game also includes a dynamic “For This Mac” graphics preset that automatically adjusts visual settings based on each Mac’s hardware profile.

    Image Credit: CD Projekt Red

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  • Research uncovers role of whole-genome doubling in ovarian cancer evolution

    Research uncovers role of whole-genome doubling in ovarian cancer evolution

    Research led by Memorial Sloan Kettering Cancer Center (MSK) is shedding new light on how ovarian cancer evolves – insights that could help researchers develop more effective treatment strategies.

    While ovarian cancer diagnoses and deaths have decreased over recent decades, the disease remains a leading cause of cancer-related death in women. This is largely because the cancer often spreads at a microscopic level within the abdomen early on, resulting in diagnosis at an advanced stage when treatment is less effective.

    A new study, published July 16 in Nature, used single-cell sequencing and other techniques to examine a phenomenon known as “whole-genome doubling” in high-grade serous ovarian carcinoma (HGSOC), the most common and aggressive form of ovarian cancer.

    Whole-genome doubling (WGD) is a process in which all of the chromosomes in a cancer cell’s genome are duplicated, which can help the cancer cells become stronger and more adaptable, and therefore more resistant to treatments.

    The paradox of WGD is that it can be both a driver and a barrier to cancer progression, depending on the context and timing of the event – in ovarian cancer, we observe WGD in the more advanced, difficult-to-treat cancers.” 


    Andrew McPherson, PhD, Computational Oncologist, Memorial Sloan Kettering Cancer Center

    The study, which was overseen by senior author Sohrab Shah, PhD, Chief of MSK’s Computational Oncology Service and Director of the Halvorsen Center for Computational Oncology, found that more than 65% of the ovarian cancer tumors they studied had a high level of whole-genome doubling and that these tumors were better able to suppress the patient’s normal immune response.

    “Our findings expand our understanding of ovarian cancer and stress the importance of considering whole-genome doubling in future treatment strategies,” says Dr. Shah, who is also the Nicholls-Biondi Chair at MSK. “This might include drugs that specifically target WGD as well as developing a better understanding of how WGD affects responses to our current treatments.”

    WGD-high tumors suppress immune responses

    Whole-genome doubling happens in more than 30% of solid cancers and is known to lead to increased rates of metastasis and drug resistance, as well as to poorer clinical outcomes.

    In order to study WGD’s impact on ovarian cancer in a nuanced way, the researchers used a technique called Direct Library Preparation (DLP) single-cell sequencing, which allowed them to look at differences between tens of thousands of individual cells. DLP sequencing revealed key subpopulations of cells that would otherwise get lost in bulk sequencing.

    The researchers analyzed more than 30,000 cells – representing 70 tumor samples from 41 patients with ovarian cancer who had not yet received any treatment. They categorized 66% of the tumors as WGD-high, meaning more than 8 out of 10 cells in a sample had undergone at least one instance of genome doubling.

    “After a cell experiences this doubling, we can see that there’s a profound increase in lost chromosomes and other molecular changes,” Dr. Shah says. “In these cells, we could see a higher rate of micronuclei – small, extra nuclei with fragments of DNA in them, which is an indication of what we call ‘chromosomal instability.’ These micronuclei often rupture, spilling DNA into the cells in a way that should set off alarm bells for the innate immune system.”

    But the study revealed that the WGD-high tumors develop ways to dampen immune responses, despite their high levels of instability – such as by repressing the STING pathway, which would normally activate immune cells to fight the cancer.

    “Surprisingly, we found WGD-low tumors are actually more visible to the immune system and more likely to trigger an inflammatory immune response,” Dr. McPherson adds.

    Mapping genome doubling in HGSOC sheds light on tumor evolution

    Mapping the doubling of genomes through single-cell sequencing also revealed new details about the evolution of ovarian cancer tumors.

    “The technique we developed allowed us to study how these tumors evolve,” Dr. McPherson says. “We were able to place the WGD events within the context of the evolutionary tree and say whether they’re on the trunk of the tree or how far along a branch they happen.”

    One of the key findings from the study was that WGD is an ongoing process. It can happen early in the development of a tumor or later in smaller groups of cancer cells. It can also happen multiple times in the same tumor.

    The study points to the need for additional research to understand how small environmental changes in the fallopian tubes – where high-grade serous ovarian cancer is believed to often originate – might influence the initiation of WGD events, Dr. McPherson notes.

    Collaboration was key

    The study would not have been possible without extensive collaboration and teamwork between computational researchers and the surgeons, pathologists, and oncologists at MSK who specialize in gynecologic cancers, led by Chief of Gynecologic Medical Oncology Carol Aghajanian, MD, and Chief of Gynecology Surgery Nadeem Abu-Rustum, MD, Dr. Shah says. Britta Weigelt, PhD and her lab were also vital to the project, collecting and reviewing tissue samples and processing them for sequencing. 

    “From identifying patients to collecting samples to analyzing them, it was truly a team effort,” Dr. Shah says.

    In addition, DLP sequencing is an especially difficult protocol to implement and required a team of technicians working long hours to complete each experiment, Dr. McPherson adds, noting the project would not have been possible without the dedication and expertise of Neeman Mohibullah, PhD, and her single-cell team at MSK’s Integrative Genomics Operations sequencing core.

    Several external collaborators were also integral to the project.

    The study was part of a broader initiative called MSK SPECTRUM, a multidisciplinary effort to harness MSK’s computational expertise to study ovarian cancer evolution, treatment, and response. The current study builds on previous research from the project that also was published in Nature.

    Source:

    Memorial Sloan Kettering Cancer Center

    Journal reference:

    McPherson, A., et al. (2025) Ongoing genome doubling shapes evolvability and immunity in ovarian cancer. Nature. doi.org/10.1038/s41586-025-09240-3.

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  • Dirham stages recovery against Pakistani rupee – 17 July 2025

    Dirham stages recovery against Pakistani rupee – 17 July 2025

    KARACHI – The buying rate of UAE Dirham (AED) registered significant recovery against Pakistani rupee in open market where it stood at Rs77.58 on Thursday.

    The selling rate of the Dirham also moved up and stood at Rs78.06, according to the Forex Association of Pakistan.

    The UAE Dirham (AED) to Pakistani Rupee exchange rate holds great importance as millions of Pakistanis work in the UAE and send remittances every month.

    Overseas Pakistanis residing in the UAE sent $717.2 million in wake of remittances in June 2025, grabbing second top position in the chart of the workers’ remittances as the first spot is held by Saudi Arabia.

    Pakistan recorded workers’ remittances inflow of $3.4 billion in June 2025.

    According to the data released by the State Bank of Pakistan (SBP) on Wednesday, workers’ remittances increased by 7.9 per cent on a year-on-year basis.

    During fiscal year 2024-25, workers’ remittances rose by 26.6 per cent to $38.3 billion as compared with $30.3 billion in 2023-24.

    Remittances during June 2025 were mainly sourced from Saudi Arabia ($823.2 million), United Arab Emirates ($717.2 million), United Kingdom ($537.6 million) and United States of America ($281.2 million).

    How Strengthening Dirham Benefits Pakistanis Receiving Remittances

    When the UAE Dirham strengthens against the Pakistani Rupee, it directly benefits Pakistanis receiving remittances from the UAE. Each Dirham sent converts to a higher amount in Rupees, increasing the value of financial support for families.

    This helps cover essential expenses such as food, education, and medical bills more effectively. Stronger remittances also allow recipients to save more and invest in small businesses or property.

    Additionally, it reduces financial stress and boosts confidence in managing daily living costs. A stronger Dirham enhances the impact of overseas workers’ efforts, making their contributions more meaningful to their families and communities.

    Significance of Exchange Rate

    Exchange rates determine the value of one currency in terms of another. They affect international trade, remittances, travel costs, and foreign investments. For remittance-receiving countries like Pakistan, favorable exchange rates can significantly increase the purchasing power of inflows, improving household income, economic stability, and development potential.

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  • Apple iPhone Fold To Borrow Samsung’s Crease-Less Display, May Come At Price Tag Over $2,000

    Apple iPhone Fold To Borrow Samsung’s Crease-Less Display, May Come At Price Tag Over $2,000

    Apple’s much-awaited foldable smartphone is set to debut in the latter half of 2026, which is still a good year away. That hasn’t stopped the grapevine around it to flow.

    In the latest on the purported iPhone “Fold”, the device’s display and its manufacturers have been disclosed. As reported by TF Securities International analyst Ming-Chi Kuo, the iPhone Fold will incorporate a creaseless folding display created by Samsung Display. 

    Kuo based the opinion on his latest industry survey, adding that Apple will implement a foldable screen designed by Samsung Display rather than relying on its own design. This comes as a surprise, since Apple is renowned to use in-house component design rather than sourcing it from elsewhere.

    Kuo opines that Apple will use Samsung’s display to “ensure stable mass production” of its debut foldable. The iPhone Fold will reportedly also include display hinges produced by another South Korean company that currently supplies for Samsung’s foldable devices.

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  • Australian-led study uncovers path to mass-scale green hydrogen-Xinhua

    SYDNEY, July 17 (Xinhua) — An Australian-led study has found a potential solution for producing green hydrogen at scale, removing a key barrier to global decarbonization.

    Australia’s Monash University-led researchers announced on Thursday progress toward overcoming a major barrier to sustainable green hydrogen production: the limited and costly supply of iridium, a key material in today’s most advanced hydrogen production technology.

    The study shows that cobalt, which is much more abundant and affordable than iridium, could replace it in key green hydrogen production devices, helping enable large-scale, sustainable hydrogen generation, according to a statement from Monash University.

    “Cobalt is much cheaper than iridium, but the challenge has always been making cobalt-based catalysts stable enough to survive the harsh conditions inside these electrolysers,” said Darcy Simondson, study contributor Monash PhD alumnus.

    Earlier efforts to use cobalt catalysts were hindered by poor stability, which has been addressed by the new study, conducted over more than three years by the Monash team with partners in Germany, the United States and Britain, using advanced spectroscopic, electrochemical, and computational methods.

    Researchers found that catalytic activity and degradation in cobalt anodes happen separately, allowing for improved performance without losing stability, said the study published in London-based Nature Energy.

    The findings suggest that robust cobalt catalysts could enable affordable, large-scale hydrogen production and help improve other catalyst technologies.

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  • OmicsTweezer offers breakthrough in analyzing tumor microenvironments

    OmicsTweezer offers breakthrough in analyzing tumor microenvironments

    Researchers have developed a powerful new tool that makes it easier to study the mix of cell types in human tissue, which is crucial for understanding diseases such as cancer.

    Developed by researchers at Oregon Health & Science University’s Knight Cancer Institute, the tool, dubbed OmicsTweezer, uses advanced machine learning techniques to analyze biological data at a scale large enough to estimate the composition of cell types in a sample of tissue that may be taken from a biopsy. This process allows scientists to map the cellular makeup of tumors and surrounding tissues – an area known as the tumor microenvironment.

    They published their findings today in Cell Genomics.

    “The tumor microenvironment, made up of diverse cell types that shape tumor development and patient outcomes, has been a longstanding research priority at the Knight Cancer Institute,” said senior author Zheng Xia, Ph.D., associate professor of biomedical engineering in the OHSU School of Medicine and a member of the OHSU Knight Cancer Institute.

    “Our goal is to infer cell type composition using bulk data from large clinical sample sizes.”

    Usually, scientists use data from the whole tissue (called “bulk data”) and try to compare it with data from individual cells to estimate the composition of cell types. But these two types of data often don’t match because they are collected in different ways. This mismatch, called a “batch effect,” can make it hard to get accurate results.

    OmicsTweezer compares known patterns from single-cell data – where researchers can study one cell at a time – with the more complex, mixed data from bulk samples. It does this by aligning both types of data in a shared digital space, making it easier to match patterns and reduce errors caused by differences in how the data was collected, leading to more reliable results.

    Overcoming limits of single-cell data

    While single-cell technologies can provide detailed views of individual cells, they remain expensive and technically difficult to apply to large numbers of cells within tissue samples from patients. As a result, scientists often rely on more accessible bulk data, which averages signals from many cells.

    It’s still very expensive to profile a large clinical sample size using single-cell technology. But there is an abundance of bulk data – and by integrating single-cell and bulk data together, we can build a much clearer picture.”


    Zheng Xia, Ph.D., associate professor of biomedical engineering, OHSU School of Medicine

    Traditional tools use a simpler linear model to estimate cell types based on gene expression. But OmicsTweezer takes a more sophisticated approach, using deep learning – a branch of machine learning that finds non-linear patterns in complex data – and a method called optimal transport to align different types of data.

    “We use optimal transport to align two different distributions – single-cell and bulk data – in the same space,” Xia said. “In this way, we can reduce the batch effect, which has long been a challenge when working with data from different sources.”

    New possibilities in cancer research

    Researchers tested OmicsTweezer on both simulated datasets and real tissue samples from patients with prostate and colon cancer. It successfully identified subtle cell subtypes and estimated cell population changes between patient groups, which could help scientists pinpoint potential therapeutic targets.

    “With this tool, we can now estimate the fractions of those populations defined by single-cell data in bulk data from patient groups,” Xia said. “That could help us understand which cell populations are changing during disease progression and guide treatment decisions.”

    OmicsTweezer was developed as part of a multidisciplinary collaboration at the OHSU Knight Cancer Institute, in partnership with Lisa Coussens, Ph.D., FAACR, FAIO, Gordon Mills, M.D., Ph.D., and the SMMART project. SMMART stands for Serial Measurements of Molecular and Architectural Responses to Therapy. It is the flagship project of the Knight Cancer Institute’s precision oncology program, which helps identify new treatments that last longer and improve the quality of life for patients with advanced cancer.

    “This kind of work wouldn’t be possible without collaboration,” Xia said. “It really reflects the strength of the team at the Knight Cancer Institute.”

    Source:

    Oregon Health & Science University

    Journal reference:

    Yang, X., et al. (2025). OmicsTweezer: A distribution-independent cell deconvolution model for multi-omics Data. Cell Genomics. doi.org/10.1016/j.xgen.2025.100950.

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