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naturepoker

@binomicalabs.org

2.9K followers 1.7K following 1.7K posts

Binomica Labs independent researcher by day, warehouse worker by night Small thoughtful science #phylogenetics #archaea #sequencing #bioinformatics @[email protected] http://naturepoker.wordpress.com https://orcid.org/0000-0002-6977-5440

naturepoker.wordpress.com

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naturepoker @binomicalabs.org · Oct 21

Now that we have pinned posts:

I'm a self-taught biologist in #NYC studying the microbial tree of life with lots of long-read sequencing focus.

Most of my study is self-funded from warehouse and other odd jobs - I'm hoping to document paths to a working class, independent researcher for others.

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naturepoker @binomicalabs.org · 43m

Oh I see, I'm still trying to wrap my head around all the things made possible with Logan. Very excited to see where all this leads. Thank you for the heads up!

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naturepoker @binomicalabs.org · 48m

Interesting thread - I wonder what the upcoming Pasteur browser might be like... Also, didn't realize there were European bacterial and environmental sequence browsers of similar intent like this one, unless we're talking about ena/ebi type portals

Camille Marchet ⚡ @camillemrcht.bsky.social · 3d

Ca n'est pas si souvent, un article publié dans Nature met ma communauté à l'honneur (la bioinformatique des séquences). Je vous raconte ?
www.nature.com/articles/d41...

‘Google for DNA’ brings order to biology’s big data

MetaGraph compresses vast data archives into a search engine for scientists, opening up new frontiers of biological discovery.

www.nature.com

Reposted by naturepoker

Dan McPainInTheKnees @danmckee.bsky.social · 2h

“What’s the charge? Eating a seal?”

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Nova Mieszkowska @marclim-uk.bsky.social · 2h

Groundbreaking work on the use of eDNA for characterizing intertidal biodiversity, comparing it to my MarClim time-series from @dinathebiologist.bsky.social, myself, Tom Webb, Helen Hipperson, and Matt Spencer @thembauk.bsky.social @livuniresearch.bsky.social onlinelibrary.wiley.com/doi/10.1002/...

Characterizing Rocky Intertidal Biodiversity Using Environmental DNA Metabarcoding From Local to National Scales

We assess the resolution of eDNA metabarcoding for detecting rocky intertidal taxa across three spatial scales—national, regional, and local. Distinct eDNA signals were observed at each scale, with c...

onlinelibrary.wiley.com

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naturepoker @binomicalabs.org · 1h

Oh I was wondering why everyone's talking about the genocidal Genovese. Haven't had a holiday in almost a decade, so these things all sort of meld together.

naturepoker @binomicalabs.org · 1h

Oh that's another great reference. Thank you for sharing!

Reposted by naturepoker

Philipp Bayer @philippbayer.bsky.social · 1h

Previous postdoc's perl script

Marjorie James Keenan @unenthusiast.com · 1d

In honour of spooky month, share a 4 word horror story that only someone in your profession would understand.

rm -rf ~/

hammancheez @hammancheez.bsky.social · 1d

"The chancellor approved it"

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naturepoker @binomicalabs.org · 1h

Looking at vending machines in #nyu dorm, holy cow. Almost $4 for a 16oz soda, same for a tiny bag of sour jelly. These things are like 3.90 a six pack even when buying retail.

These schools charge way too much to be ripping off students like this.

naturepoker @binomicalabs.org · 5h

Fascinating preprint. I've always been curious about genome stability of phages.

🧫🦠

Frédérique Le Roux @fredoleroux.bsky.social · 15h

Phages evolve fast, or do they?
In oysters, some stay identical for years.
With >1,200 phages & 600 Vibrio genomes, we reveal long-term stability and new mobile elements.
Proud of this collaborative work across our teams (Roscoff-UdeM and @epcrocha.bsky.social www.biorxiv.org/cgi/content/...

Ecological constraints foster both extreme viral-host lineage stability and mobile element diversity in a marine community

Phages are typically viewed as very rapidly evolving biological entities. Little is known, however, about whether and how phages can establish long-term genetic stability. We addressed this eco-evolut...

www.biorxiv.org

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Reposted by naturepoker

christoph_STCmicrobeblog @christophstc.bsky.social · 2d

turns out that beadle&tatum ('one gene–one enzyme) only scratched the surface, and you have opened a true pirates' treasure chest. And it's intriguing to see that there are other widely used nucleotide-binding domains besides the rossman fold 👏👏👏
#MicroSky

Tung Le @tunglejic.bsky.social · 2d

ParB NTPase fold might:
*suggest hidden layer of biological regulation
*maybe a fold as fundamental as P-loop ATPases or Rossmann folds (well, this has to be seen!)
*be a treasure trove of uncharacterized proteins waiting to be studied.

We probably have only scratched the surface.

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naturepoker @binomicalabs.org · 23h

These fellas act like human beings are vending machines. And there's a 'correct answer' to living a life.

naturepoker @binomicalabs.org · 23h

Experiment designs.

Ms T 🐘💙🎵📚 @elephantlass.bsky.social · 1d

Sunday

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naturepoker @binomicalabs.org · 1d

I wonder if some dinosaurs/raptors of old behaved in a similar manner. That's a pretty terrifying image.

c0nc0rdance @c0nc0rdance.bsky.social · Mar 8

Let's learn about the Seriemas, family Cariamidae.

This red-legged Seriema named Kevin is demonstrating how he prevents his food from wriggling as he swallows it, as captured by @witmerlab.bsky.social during a visit to the Columbus Zoo in 2019.

Native to South America, they have famous cousins...

naturepoker @binomicalabs.org · 1d

These CEOs might have far more time on their hands than they like to suggest to others. One piece is a 27 yr long franchise.

Also - we live in a world with Thomas Mann novels. These are some really... Depressingly juvenile minds trying to run our society.

Jake Flores @feraljokes.bsky.social · 1d

I can't believe this is real

Reposted by naturepoker

Teresa Rayon @trayon.bsky.social · 1d

Model organisms as platforms for training scientific minds

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

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Rob Edwards @linsalrob.bsky.social · 1d

🦠Join the legendary @viromegirl.bsky.social lab

Jobs in marine micro, virology & genomics
💻 Viral 'omics in seagrass
🧬 Marine microbial & bioinformatics
🧫 Vibrio phage + iron biogeochemistry
🎓 sea urchin–ciliate diseases

👉 www.marine.usf.edu/genomics/app...

#MarineVirology #Phagesky #Microbiome

Welcome to the Breitbart Lab - Genomics

We are modern virus hunters, using metagenomic sequencing to discover viruses in a wide range of environments and hosts. Have fun exploring the marvels of microbiology on this website!

marine.usf.edu

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naturepoker @binomicalabs.org · 3d

This really does sound exciting, I wish I could apply! 🧪🧫🦠

The Daum Lab @daumlab.bsky.social · 3d

#ArchaeaSky

The Daum Lab @daumlab.bsky.social · 3d

We have an exciting PhD opportunity to study ribosome hibernation in archaea using cryo-electron microscopy, tomography, microfluidics, omics, and confocal imaging. @daumlab.bsky.social,
@lsiexeter.bsky.social
Apply via:
www.exeter.ac.uk/study/fundin...
Any questions, IM me.

Reposted by naturepoker

STCmicrobeblog @stcmicrobeblog.bsky.social · 3d

#SymbioSky #MicroSky #ProtistsOnSky
the plot thickens 👇 as we all suspected and feared(?), organellogenesis is not straightforward, but rather, well,... a thicket ¯\_(ツ)_/¯

Figure 7. Graphical representation of the key events that lead to plastid organellogenesis. Novel features identified in Sinophysis are highlighted below the well-studied features.
source: https://www.biorxiv.org/content/10.1101/2025.10.07.680570v1

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naturepoker @binomicalabs.org · 3d

Someone tell this guy the machines are owned by someone, and do what they're programmed to do.

Prof Anna Watts @profannawatts.bsky.social · 3d

Lol the Nobels can't even acknowledge women's contribution to discovery. But sure let's acknowledge The Machines.

Headline from an article in Nature this week that states "Prizes must recognize machine contributions to discovery. The future of science will be written by humans and machines together. Awards should reflect that reality."

Reposted by naturepoker

Guy Leonard @guyleonard.bsky.social · 3d

When you go too heavy on the tech bros version of "Pascal's wager" ("Roko's Basilisk").

The LLMs don't care about you Mr. Wang. They can't, and will never.

Prof Anna Watts @profannawatts.bsky.social · 3d

Lol the Nobels can't even acknowledge women's contribution to discovery. But sure let's acknowledge The Machines.

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naturepoker @binomicalabs.org · 3d

This looks fun - #micropython based #unix-like system for #microcontrollers.

Could be a fun candidate for a minimal/off-grid compute. I'm often thinking about how much bio analysis I might pull off with a stripped down SBC type devices.

github.com/rbenrax/upyOS

GitHub - rbenrax/upyOS: Modular flash OS for micorcontroller based in Micropython

Modular flash OS for micorcontroller based in Micropython - rbenrax/upyOS

github.com

naturepoker @binomicalabs.org · 3d

LLM response using a different platform gives essentially the same responses as yours.

I guess this is more about the human condition of people being confident wrong that long preceded help from a computer.

naturepoker @binomicalabs.org · 4d

Julia 1.12 is out at last! With the --trim feature everyone's been talking about for a while now. Looking forward to trying it out. I think you just need to watch out for any dynamic dispatches in the code.

julialang.org/blog/2025/10...

#julia #julialang

Julia 1.12 Highlights

Highlights of the Julia 1.12 release.

julialang.org

naturepoker @binomicalabs.org · 5d

This one looks interesting-

"The functions that may be correctly rounded (error of ULP) in all the three formats are sqrt and cbrt. The following functions may be correctly rounded only for binary16: sinh, asin, cospi, sinpi, atanh, log2, tanh"

arxiv.org/abs/2509.05666

#julialang #julia

Accuracy of Mathematical Functions in Julia

Basic computer arithmetic operations, such as $+$, $\times$, or $÷$ are correctly rounded, whilst mathematical functions such as $e^x$, $\ln(x)$, or $\sin(x)$ in general are not, meaning that separate...

arxiv.org

Reposted by naturepoker

Society for the Study of Evolution @sse-evolution.bsky.social · 5d

Nominations are now open for the Dobzhansky Prize, which recognizes the accomplishments and future promise of an outstanding early-career evolutionary biologist. The award includes $5000 and an award talk at the in-person Evolution meeting. Deadline: December 1
shorturl.at/p70wY

Text: Society for the Study of Evolution Dobzhansky Prize to recognize the accomplishments and future promise of an outstanding early-career evolutionary biologist. Nominations due December 1, 2025.

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