Alex Federation

Regulome Reports #1: Fasting 72 hours, no food, and a first-ever glimpse into the global human regulome

report: afederation.substack.com/p/regulome-r...

tech access application:https://forms.gle/bCi22VnZqbBD3qQq5

Now we can finally read it. Full write-up in the comments.

More experiments coming:
- Sleep deprivation (new baby incoming)
- Ultramarathon recovery
- Sauna // ice bath
- Alcohol

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The answer lives in the regulome. It's your body’s real-time operating system, interpreting the environment and making decisions

It decides how your genome responds to stress, sleep, food, toxins, exercise, and more.

Well, why do you sometimes wake up feeling like garbage after eight hours of sleep? Your HRV looks fine. You got your morning sunlight. Your bloodwork is normal. Even your genome doesn't have a glaring mutation.

I just ran the first n=1 dynamic regulome experiment. On myself.

A 72-hour fast where we tracked all 4,000+ components of the genome regulatory 'software' to see how they respond

And over 30% changed, most never mentioned in fasting literature

Why does this matter?

Audience in lecture hall

Pavel Sinitcyn presenting

Katerina Nastou presenting

Will Fondrie presenting

The EUBIC-MS Developers Meeting 2025 in Brixen is off to a great start with keynotes by Pavel Sinitcyn, Katerina Nastou, and @willfondrie.com.

#EuBIC2025

It’s been a tough few weeks. My 10yo daughter was diagnosed with a very rare, aggressive cancer called interdigitating dendritic cell sarcoma (IDCS). I’m reaching out to identify clinicians/patients who have encountered pediatric IDCS or other (non-LCH) dendritic or histiocytic sarcomas cases.

Some diseases are too rare to be VC-fundable. Without grant funding, these patients get nothing—that’s unacceptable.

NIH grants fund our work on a rare cancer with no approved treatments. Every year, we pay out of pocket for a third-party audit to prove there’s no waste, no fraud—just science.

Does anyone know if the savings will be re-invested into more grants?

Or is this just slashing the overall budget of the NIH?

Automated High-Throughput Affinity Capture-Mass Spectrometry Platform with Data-Independent Acquisition Affinity capture (AC) combined with mass spectrometry (MS)-based proteomics is highly utilized throughout the drug discovery pipeline to determine small-molecule target selectivity and engagement. How...

Love to see more teams getting into the multidimensional drug screening game with DIA proteomics.

380 kinases in one assay -

pubs.acs.org/doi/10.1021/...

Getting a bit tight in the hallways #teamMassSpec #proteomics

More than 40% of postdocs leave academia, study reveals Publishing highly cited papers helps postdoctoral researchers to land a faculty job.

That seems... like a reasonable number? I'm surprised it's not higher, especially since a postdoc will usually double their salary going into industry

www.nature.com/articles/d41...

Cancer might be the most creative biologist - it's evolutionary "job" is to stress test every biological mechanism in our cells are see if promoted survival/fitness

Apparently tumors can tunnel into lymphocytes and dump their mutated mitochondria?

What a wild world

This is the perspective I was waiting for after seeing all the new transcription factor footprinting papers 👇

Translating Proteomics Episode 15: Combating the Reproducibility Crisis in Computational Proteomics Discover new ways to improve the reproducibility of proteomic and multiomic analyses.

Nice discussion here - we're doing our part building the first proteomics search engine that can handle the scale needed for drug discovery

www.nautilus.bio/blog/transla...

Sana Biotechnology Announces Positive Clinical Results from Type 1 Diabetes Study of Islet Cell Transplantation Without Immunosuppression First-in-Human Study Provides Evidence that Sana’s Hypoimmune (HIP) Technology Enables Transplanted Islet Cells to Avoid Immune Rejection and Produce...

US Scientists already on it - Phase I announcement
www.globenewswire.com/news-release...

@willfondrie.com cool pre-print extended to more interesting chemical space

The zinc spark is an inorganic signature of human egg activation - Scientific Reports Scientific Reports - The zinc spark is an inorganic signature of human egg activation

I'm not sure how I missed this, but apparently there's a flash of light when the egg gets fertilized!?

Pretty wild

www.nature.com/articles/sre...

Re-upping this reply thread from last night. Drugs don't come from nowhere, folks. And we're not ripping off the NIH, either.

This update of may also help Bristol-Myers Squibb keep Opdivo on the market longer, as the original drug's patent is likely to be expiring soon.

This means treatment is much faster, only 3-5 minutes instead of 30 minutes. This could be more comfortable for patients and eventually allow self-administration at home.

Opdivo Qvantig is a new subcutaneous version of the cancer drug Opdivo.

It works the same way as Opdivo, blocking the PD-1 receptor on T cells to help the immune system fight cancer. But, it's given as a shot under the skin instead of an infusion into a vein.

FDA Approves Opdivo Qvantig (nivolumab and hyaluronidase-nvhy) Subcutaneous Injection for Use in Most Previously Approved Solid Tumor Opdivo (nivolumab) Indications

New Drug Approval: Opdivo Qvantig from BMS

www.drugs.com/newdrugs/fda...

Lots of really cool molecules here. The menin inhibitors are super important. No new transcription factor inhibitors, sadly. On to 2025 🚀

First @chorylab.bsky.social blog post!
chorylab.substack.com/p/new-year-n...

Y'all better watch out, there's more (data) where that came from!

Don't think I've ever read something this moving about gene regulation before

Wow. Very impressive work with in vivo dTAG looking at KRAS G12V.

Lots more to learn with this technology, this is only the start. Congratulations Behnam and team!

People sometimes make fun of science that sounds stupid and random.

Meanwhile, a study of lizard saliva turned into a peptide medication, which was turned into a diabetes medication, which was turned into a GLP1 weight loss drug, that just became the first therapy every approved for … sleep apnea

Method of the Year 2024: spatial proteomics - Nature Methods Approaches for profiling the spatial proteome in tissues are the basis of atlas-scale projects that are delivering on their promise for understanding biological complexity in health and disease.

Spatial proteomics wins method of the year!

Our team at @talusbio.bsky.social isn't using IF-based spatial proteomics, TF-Scan does provide a surrogate of protein localization within the nucleus, with enough throughput to be useful for drug discovery.

www.nature.com/articles/s41...