Showing posts with label biomedicine. Show all posts
Showing posts with label biomedicine. Show all posts

Sunday, October 12, 2025

When Biology Learns to Test Itself

If you’ve ever been sent down the rabbit hole of modern diagnostics - one test leading to another, each pricier than the last - you know medicine could learn a thing or two from electronics. In Electronic Design Automation (EDA), engineers have specific tests for specific faults: “stuck-at-1,” “timing violation,” “power leak.” Run the right diagnostics, and the chip tells you exactly where it’s broken.

In medicine, by contrast, we’ve got a galaxy of overlapping tests — blood panels, genomic assays, MRI sequences - and no consensus on which ones actually tell the whole story. It’s a field that still runs partly on intuition, luck, and insurance coverage.

Enter Dynamic Sensor Selection, a term that sounds like something you’d use to debug a Mars rover but is actually from a 2025 paper by Pickard et al., published last week in PNAS. The idea: treat the human body like a complex dynamical system (which, inconveniently, it is) and use mathematical “observability theory” to identify which few biomarkers tell you the most about what’s going on inside.

In plain terms, it’s a framework for choosing the right test points in a living system. Instead of wiring an oscilloscope to a circuit board, you’re “probing” gene expression, neural signals, or metabolic markers, and asking: Which measurements let me reconstruct the full picture?

The team behind this approach applied it across everything from bacterial genes to human brainwaves. In some experiments, the method could estimate unmeasured genes with about 50% error — impressive, considering biology’s noise makes Wi-Fi in a storm look stable. In brain studies, the algorithm even revealed that some EEG electrodes are basically freeloaders, contributing little to understanding what the neurons are up to. (So yes, even your neurons have that one coworker who never pulls their weight.)

The broader vision is seductive: "A medical system that diagnoses itself dynamically", focusing only on the sensors that matter most at a given moment. Imagine wearable devices that don’t just collect endless data but decide in real time which data is most informative - sparing us from both data fatigue and unnecessary costs.

It’s also a philosophical pivot: biology isn’t static. The “best” biomarker today might be irrelevant tomorrow, just as a stable circuit becomes unpredictable when the current spikes. Medicine, for all its imaging and sequencing power, still operates like a lab tech armed with every tool but no schematic. Pickard’s framework offers that missing circuit diagram.

So next time you’re overwhelmed by medical testing options, remember - the goal isn’t to measure everything, it’s to measure wisely. In the coming era of dynamic biomarkers, your body might finally come with its own built-in diagnostic dashboard.


And who knows? Someday your doctor’s favorite prescription might be:


> “Let’s check your observability matrix.”


REFERENCE


Pickard J, Stansbury C, Surana A, Muir L, Bloch A, Rajapakse I. Dynamic sensor selection for biomarker discovery. Proc Natl Acad Sci U S A. 2025 Oct 14;122(41):e2501324122. doi: 10.1073/pnas.2501324122. Epub 2025 Oct 7. PMID: 41055977.

Monday, July 24, 2023

The Past, Present, and Future of AI-Powered Medicine

In this era of rapidly advancing technology, Artificial Intelligence (AI) is spearheading transformative changes, particularly within the healthcare sector. A prime example is ChatGPT, a game-changer that is fast becoming an influential player in the biomedical field. Its potential to catalyze innovation and revolutionize medical research is profound. 

A MedrXiv paper posted today is a systematic review of AI in biomedical literature. The scope of this review is broad, encompassing preprints, peer-reviewed articles, case reports, patents, clinical trials, and even FDA approvals. The paper talks about impact of AI, including ChatGPT, across all medical specialties and subsets of publications, finding overrepresented domains within each subset, highlighting potential research gaps, biases, or areas of excessive focus. 

The pace at which the biomedical literature is growing is staggering, with two new papers being added every minute, around the clock. The MedrXiv paper also brings to light the limitations of current medical publishing models. 

The human author collaborated with ChatGPT, Bing, Claude, and Bard, and used SciSpace Copilot to review hundreds of systematic reviews and thousands of unique records across various databases. It aimed to comprehensively map out past achievements, current developments, and potential future directions in AI-based medical research. The paper represents the latest brainchild of an open science collaboration project, which welcomes participation from others at https://osf.io/87u6q/

The study reveals that as ChatGPT matures, it's finding applications across diverse medical specialties demanding cross-disciplinary collaboration. A fascinating trend shows a transition from theoretical to clinical applications in the AI literature, mirroring developments within the ChatGPT space.

Despite challenges such as ensuring the quality of training data and managing ethical concerns, ChatGPT is fostering the adoption of AI tools within medical areas that have been historically underrepresented in AI application.

If you have an interest in the future of medicine and the role AI technologies like ChatGPT play in shaping it, check out this project. It offers a compelling glimpse into what the future of healthcare might look like. 


REFERENCES

Gabashvili I.S. Artificial Intelligence in Biomedicine: Systematic Review. medRxiv 2023.07.23.23292672; doi: https://doi.org/10.1101/2023.07.23.23292672

Gabashvili I.S. The impact and applications of ChatGPT: a systematic review of literature reviews. arXiv:2305.18086 [cs.CY] https://doi.org/10.48550/arXiv.2305.18086

Gabashvili IS. ChatGPT in Dermatology: A Comprehensive Systematic Review JMIR Preprints. 02/06/2023:48979. medRxiv 2023.06.11.23291252; https://doi.org/10.1101/2023.06.11.23291252

Tuesday, June 13, 2023

Transforming Dermatology

Artificial intelligence has witnessed a rapid surge in the adoption of language models, with transformer-based pretrained language models (T-PLMs) playing a prominent role. These T-PLMs, such as BioBERT, MEP & Bioformer (BERT), Chatdoctor (LLaMA), OPAL & MedDialogue (BART), BioGPT and MedGPT (GPT 2), have revolutionized natural language processing in the biomedical research community, offering tailored performance for specific applications. Among these models, ChatGPT stands out due to its versatility, flexibility, and accessibility, making it widely applicable across various domains, including dermatology.

The fact that ChatGPT may be used by everyone, as opposed to models that can only be used by specialized developers and researchers, is one of its main advantages. This accessibility has paved the way for new possibilities in the field. By integrating clinical knowledge with interactive conversation, new generation of language models has the potential to transform all biomedical fields.

A recently posted preprint, open to peer review till July 8, focuses on the utilization of ChatGPT in dermatology. However, the study's conclusions have implications beyond dermatology and are relevant to other biomedical disciplines as well. Unlike previous reviews, this study goes further than performance evaluation by analyzing the actual utilization and real-world applications of ChatGPT in dermatology-related areas. By examining its practical use, the study offers valuable insights into the potential impact of ChatGPT in the broader biomedical research community. 


REFERENCE: 

Gabashvili IS. ChatGPT in Dermatology: A Comprehensive Systematic Review JMIR Preprints. 02/06/2023:48979. medRxiv 2023.06.11.23291252; https://doi.org/10.1101/2023.06.11.23291252 

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