MrG
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biomattrs.bsky.social
MrG
@biomattrs.bsky.social
Matthew Robert Gruner (MrG). In Reno, NV. High school biology instructor. Python/informatics enthusiast. 🏳️‍🌈🏳️‍⚧️
Reposted by MrG
huggingface is doing a fully open source replication of R1 github.com/huggingface/...
GitHub - huggingface/open-r1: Fully open reproduction of DeepSeek-R1
Fully open reproduction of DeepSeek-R1. Contribute to huggingface/open-r1 development by creating an account on GitHub.
github.com
January 25, 2025 at 2:31 PM
Reposted by MrG
Bioinformaticians: Before diving into data analysis, pause. Quality control (QC) can make or break your results. 🧵👇
January 25, 2025 at 2:15 PM
Reposted by MrG
The immediate halting of funding to #PEPFAR places millions of lives in jeopardy. The IAS urgently calls on policy makers and stakeholders to restore the funding lifeline to this pivotal programme.

Lives depend on it, right now.

Read our full statement:
IAS statement: PEPFAR freeze threatens millions of lives
25 January 2025 (
www.iasociety.org
January 25, 2025 at 2:27 PM
Reposted by MrG
It’s easy to feel helpless right now, but remember we have tremendous capacity to help one another

Small acts of kindness like wearing a respirator, checking on someone who might be all alone, making a meal for someone in need, donating to mutual aid….These things have a huge impact

Love over hate
January 25, 2025 at 11:37 AM
Reposted by MrG
Everyone wants YOUR problems.

Think about people in the war zone;

Think about people who lost their homes in the LA fire;

Think about researchers affected by the NIH stopping funding review;

Your problem is tiny compared to theirs.
January 25, 2025 at 3:27 PM
Reposted by MrG
🧪 "Humanity's Last Exam" sets a new benchmark for AI: 3,000 expert-crafted questions spanning 100+ subjects. Current LLMs perform poorly, revealing a gap in expert-level knowledge and calibration, but it would be difficult to build a harder test. 🩺💻 #MLSky
Humanity's Last Exam
Benchmarks are important tools for tracking the rapid advancements in large language model (LLM) capabilities. However, benchmarks are not keeping pace in difficulty: LLMs now achieve over 90% accuracy on popular benchmarks like MMLU, limiting informed measurement of state-of-the-art LLM capabilities. In response, we introduce Humanity's Last Exam, a multi-modal benchmark at the frontier of human knowledge, designed to be the final closed-ended academic benchmark of its kind with broad subject coverage. The dataset consists of 3,000 challenging questions across over a hundred subjects. We publicly release these questions, while maintaining a private test set of held out questions to assess model overfitting.
lastexam.ai
January 23, 2025 at 5:22 PM
Reposted by MrG
How Small Can You Get? Another New-To-Science Flea-Toad Wows Scientists

"The smallest vertebrates so far discovered are the flea-toads, which live at the limit for how small any vertebrate can possibly get."

by @grrlscientist via medium

#vertebrate #evolution #SciComm🧪 medium.com/grrlscientis...
January 24, 2025 at 12:19 PM
Reposted by MrG
Positive vibes, perception that there are fewer “Nazis” on the platform than on X, Science starter packs, lists and feeds: roughly 6,000 readers answered @nature.com's poll, with many declaring that Bluesky was nicer, kinder and less antagonistic to science than X. 🧪

www.nature.com/articles/d41...
Bluesky’s science takeover: 70% of Nature poll respondents use platform
Roughly 6,000 readers answered our poll, with many declaring that Bluesky was nicer, kinder and less antagonistic to science than X.
www.nature.com
January 24, 2025 at 12:41 PM
Reposted by MrG
A terrifying new report by John Carreyrou illustrates why we have those pesky regulations and those irritating clinical trials:
Killing Cancer Patients (Once the Payments Clear)
www.science.org
January 23, 2025 at 7:52 PM
Reposted by MrG
🧪 Are Biomedical Studies Reliable?

A new survey reveals 72% of researchers believe there is a reproducibility crisis in biomedicine.

The biggest issue? Pressure to publish, as most institutions value new discoveries over replicating studies.

🔗 journals.plos.org/plosbiology/...

#SciComm
Biomedical researchers’ perspectives on the reproducibility of research
There is growing interest in the reproducibility of research and ways to enhance transparency. This study uses an international survey of more than 1900 biomedical researchers to reveal the perceived ...
journals.plos.org
January 24, 2025 at 1:14 PM
Reposted by MrG
The Genetics Society of America @genetics-gsa.bsky.social is "advocating for science and for scientists. We seek to cultivate an inclusive, diverse research community that engages with the public...& serves as an authoritative source of information." Pls consider joining genetics-gsa.org/membership/
January 24, 2025 at 1:43 PM
Reposted by MrG
For the first time in six decades, the CDC did not publish its Morbidity and Mortality Weekly Report on Thursday, just one effect of a flurry of executive orders & administrative moves after President Donald Trump’s January 20 inauguration.

www.poz.com/article/trum...
Trump Muzzles Federal Health Agencies, Withdraws from World Health Organization
CDC and other agencies were told to halt public communications, and the NIH grant process appears to be on hold.
www.poz.com
January 24, 2025 at 1:39 PM
Reposted by MrG
Not all planets are like ours. I don't just mean the water and life, I also mean the surface process. You look at a high resolution geological of Mars (like this one by Fawdon et al.), and you see stories you won't see on modern Earth. 🧪⚒️
www.tandfonline.com/doi/full/10....
January 23, 2025 at 4:28 PM
Reposted by MrG
Interesting. Will the current chaos cause potential reviewers to refuse? I always think that if you are not in the right mind frame to be fair, you should always turn down review invitations.
January 23, 2025 at 4:15 PM
Reposted by MrG
When I train teachers about trauma-informed classrooms, I emphasize that you cannot simply declare that a person or a place is safe and make it so. People determine safety for themselves based on explicit and implicit cues of safety. (🧵 1/4)
January 23, 2025 at 3:54 PM
Reposted by MrG
This is one of the reasons people were/are wary of science publishing 'solutions' that are basically "the government should run it"...
This isn't just an attack on scientific research. It's an attack on *scientists.*

Central to Trump's "Revolution of Common Sense" is the idea that scientists impede progress in pursuit of political goals.

This move -- Telegraphed in Project 2025 -- upends life for those who depend on NIH funding.
January 23, 2025 at 12:20 PM
Reposted by MrG
The joke is on us.
January 23, 2025 at 3:43 PM
Reposted by MrG
A systematic review involving >130 million people and 1 million dementia cases found that anti-inflammatory medications, vaccinations, and antibiotics were associated with reduced dementia, whereas vitamins and supplements linked to higher risk
alz-journals.onlinelibrary.wiley.com/doi/10.1002/...
Data‐driven discovery of associations between prescribed drugs and dementia risk: A systematic review
Abstract Recent clinical trials on slowing dementia progression have led to renewed focus on finding safer, more effective treatments. One approach to identify plausible candidates is to assess whet...
alz-journals.onlinelibrary.wiley.com
January 21, 2025 at 3:05 PM
Reposted by MrG
In the (great) first quarter of Neal Stephenson's (overall bad) 2019 novel "FALL," he has a scene set in a hypothetical American future in which the Red and Blue zones have become totally separate countries, essentially, and features a group of Blue denizens moving through the Red Ameristan...
January 21, 2025 at 8:34 PM
Reposted by MrG
Such a thrill…seeing a book you spent 2 years writing and over three decades living in print for the first time. ENDS OF THE EARTH. Onsale 2/4.
🧪

Hope to see you while I’m on tour!
January 21, 2025 at 9:07 PM
Reposted by MrG
Today I’m thinking of Miep Gies, an ordinary person who risked her own life to protect the Frank family during WWII.

Her quote reminds me that we all have the power to help others. To stand up against evil. To do the right thing even when it’s hard.

We can all turn on a light.
January 21, 2025 at 3:27 AM
Reposted by MrG
Spravato is the 1st FDA approval 4 a monotherapy for major depressive disorder/MDD. Drug has been administered to >140,000 patients worldwide & they have nearly 6 yrs of real world data they said in the press release. Estimated 21 million US adults living w/ MDD www.jnj.com/media-center... #biosky
January 21, 2025 at 6:39 PM
Reposted by MrG
Why understanding biology matters in bioinformatics
One big lesson: RNA and protein levels aren’t always correlated. If you don’t know this, you might draw the wrong conclusions. 🧵👇
January 21, 2025 at 2:45 PM
Reposted by MrG
Exploring the Pathogen Profiles of Ancient Feces https://www.biorxiv.org/content/10.1101/2025.01.14.632942v1 🧬🖥️🧪🦠💩
January 17, 2025 at 9:00 PM
Reposted by MrG
What the heck is an object (Seurat object?) in object-oriented programming? 🤔 Let's break it down with bioinformatics examples👇
January 18, 2025 at 3:15 PM