Recent content by indigo34

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    Other Non-antibiotic medications leave lasting mark on gut microbiome, even years after use (Sep 2025) A hidden confounder for microbiome studies: medications used years before sample collection

    I know so many people on these medications. Doctors love to give out SSRIs. I hope this information eventually gets to be more widely known for both doctors and patients. But given antibiotic collateral damage does not seem to be recognized as an extremely serious problem by most...
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    Article Studies deliver new blow to cancer microbiome literature—and offer a way forward. Two analyses of microbial DNA in tumor samples aim to put controversy-riddled field back on track (Sep 2025, Micronoma)

    Well maybe unnecessary colonoscopies can still be avoided in the future. Good news because they are very disruptive to the microbiome. Other cancers often have less invasive and microbiome-harming tests available.
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    FMT Fecal microbiota transplantation improves bile acid malabsorption in patients with inflammatory bowel disease: results of microbiota and metabolites from two cohort studies (Sept 2025)

    I looked at the two clinical trial descriptions where they got the data from and they mention using fresh stool and delivering it via gastroscope to the mid-gut and via Colonic Transendoscopic Enteral Tubing (TET) device in the other. So fresh/ upper route is my interpretation. Interesting...
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    Study Mount Sinai study supports evidence that prenatal acetaminophen use may be linked to increased risk of autism and ADHD (Aug 2025, review) Evaluation of the evidence on acetaminophen use and neurodevelopmental disorders using the Navigation Guide methodology

    Aren't women in pain (which is partially mediated by the microbiome) more likely to take pain relievers? So couldn't the real association be, women who experience more pain are more likely to take Tylenol during pregnancy and it's more the desire for pain relief demonstrating the effect than the...
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    Study Some scientists are using chatbots to write all or part of their papers. 454 words that have increased in studies since ChatGPT was released (Jul 2025) Delving into LLM-assisted writing in biomedical publications through excess vocabulary

    Can you provide a source on this? I've heard they are looking into other types of AI but my understanding was that the best and closest to AGI were all LLMs. I have not done much research in this area though. I've heard that the so-called "alignment problem" - AI being aligned to human...
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    Article FDA names former pharmaceutical company executive, Dr. George Tidmarsh, to oversee US drug program, CDER (2025)

    It seems like you're conflating a lot of different things with this statement or perhaps I am misunderstanding you. It seems like you are calling me naive and a MAGA supporter. Is that correct? I'm definitely not part of "MAGA." I am located in the U.S. but I've never voted for Trump. My...
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    Article FDA names former pharmaceutical company executive, Dr. George Tidmarsh, to oversee US drug program, CDER (2025)

    I've changed my opinion of Makary after hearing more of his interviews and reading more articles about what he's doing. He seems pro big-pharma when initally he was claiming to be skeptical.
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    Article Finch wins US jury trial against Ferring over fecal-transplant patents (Aug 2024, Rebyota)

    Would it be worth trying to contact Finch? About improving the quality of their donors and getting their product approved for other conditions (i.e. IBS) From their website it seems like they are trying to patent FMT for C. diff, autism, IBD, Parkinson's, etc, and they have 70 patents related...
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    FMT Faecal microbiota transplant in Parkinson’s disease: pilot study to establish safety & tolerability (Jul 2025, n=12, enema over 6 mo, Biomebank) No significant motor symptom changes. No sustained improvement in non-motor symptoms.

    It's interesting that there was a trend toward reduced daily off time during the "induction phase" of about 1 FMT per week that disappeared when they switched to the "maintenance phase" of 1 FMT per month.
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    Has anyone else tried Keto Diet or similar to modify their gut biome?

    I've been on a ketogenic diet for a little over a year. That's because carbs tend to give me extreme bloating and discomfort. Fiber makes things worse for me too (causes loose stool and urgency) especially soluble fiber. Keto hasn't magically cured me but I feel less bad eating that way...
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    Study Some scientists are using chatbots to write all or part of their papers. 454 words that have increased in studies since ChatGPT was released (Jul 2025) Delving into LLM-assisted writing in biomedical publications through excess vocabulary

    This is scary. AI sometimes hallucinates citations that don't exist, which apparently happened in the recent MAHA report. I wonder if that's happened in other recent peer-reviewed studies. We know AI lies often too, so I don't see why they think it would be safe to use in scientific studies -...
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    Other H. Pylori bacteria that causes stomach ulcers may protect the brain from Alzheimer’s and Parkinson’s (Jun 2025) Helicobacter pylori CagA protein is a potent and broad-spectrum amyloid inhibitor

    Is this actually true? At least for Alzheimer's I thought that the research demonstrating there is a causal relationship was falsified, and that the drugs they developed based on this theory, which target beta-amyloid plaques, do not help Alzheimer's patients...
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    FMT Fecal transplants: Study is a 'wake-up call' for the field as researchers identify unintended consequences. (Jun 2025, mice) Microbiome mismatches from microbiota transplants lead to persistent off-target metabolic and immunomodulatory effects

    Too bad it's not open access. Results seem way overstated. They didn't use normal mice but antibiotic-treated mice. That likely dramatically affected their results and therefore makes them less translatable to situations where FMTs are given without antibiotic pre-treatment. Interesting they...
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    Early development In utero human intestine contains maternally derived bacterial metabolites (May 2025, n=21)

    The references mention analyzing fetal tissue samples so I assume the article followed the same methodology. They don't specify how they obtained the samples in most cases but I suspect it was through abortion procedures. https://www.cell.com/developmental-cell/fulltext/S1534-5807(19)30737-3...
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    Healthcare system Incoming trump admin with RFK signals new start for FDA

    I wonder if someone read the letter I gave to Senator Cassidy or if they were already aware of the connection. I never heard anything back of course though. He mentions it again around 12 minutes in. If they (HHS) come out and say there is a connection between autism and the microbiome I feel...
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