naturepoker

Happy 2026 everyone! Here's a Binomica labs retrospective post. An amateur independent researcher's perspective on genome sequencing, academic conferences and approaching research themes undertaken through 2025 🧪 naturepoker.wordpress.com/2025/12/31/w...

Hey this reads like a laundry list of traits for some academic PIs I've seen. The World's First Corporate Psychopath May Have Just Been Identified : ScienceAlert www.sciencealert.com/the-worlds-f...

Trying to figure out if I should spend the remaining 30 minutes break to do more wisp stuff or finish assembling some more gnomes. Love the phone+tail scale+cheap Bluetooth keyboard combo.

Waiting for the last shift of the night-morning to start. Seagulls are really going wild today, I can hear them from all the way up here. #nyc

𝗖𝘆𝗮𝗻𝗼𝘀 𝗶𝗻 𝘁𝗵𝗲 𝗙𝗮𝗿-𝗥𝗲𝗱 𝗟𝗶𝗴𝗵𝘁 𝗗𝗶𝘀𝘁𝗿𝗶𝗰𝘁 please read Sofie van Dorst's 10-part 🧵here on bluesky – or on Nov 02 in our blog: smallthingsconsidered.blog #MicroSky #ProtistsOnSky #teamtomo #CryoEM #CryoET

Speaking of, man I'm really liking #wisp syntax for running #guile. Playing around with writing a throwaway fasta parser, writing out functions in wisp and mixing in #scheme for data feels pretty intuitive to me.

#guile 3.0.11 on Ubuntu LTS has built in wisp mode. Setting wisp alias for: 'guile --language=wisp -x .w' Lets me play around with wisp in the repl and also execute standalone scripts at the same time. The script shebang header needs to be: #!/usr/bin/env -S guile --language=wisp -s !#

I'm taking the day off and watching Lord of the Rings. I had the first Korean translation of the books. This was before fantasy literature exploded in Korea so I had to really search for them as a kid. Wish I still had them. Memories are usually the first thing poverty takes away from you.

This is some noisy nonsense, but looks pretty darn cool though, lol.

Following up on the last round of #bioinformatics #microbiology question, I kludged up a clustering script in #Julialang with AF-informed scoring metric and tested it out on ~3k #archaeal plasmids from a recent collab. Not good enough yet, but could be promising.

Interesting points. So they're certain existing phages are at least binding and injecting properly? Last work I did on phage host range narrowed engineering targets down to tail fiber and portal genes - and they could be variable even among strains.

Two very interesting recent papers explore left-right symmetry in organ development across kingdoms, shows how organisms evolved entirely separate mechanisms to generate the same effect! Japanese snails - www.cell.com/current-biol... Butterfly lilies - www.science.org/doi/10.1126/...

Sounds very cool! But, Opisthokonta sister to Archaeplastida is a bit surprising 🤔Also Amoebozoa omitted totally, which contradicts my (maybe wrong) impression that every other giant virus infects Acanthamoeba 🙄

Good lord October's almost over? I feel like end of August was last week.

Does anyone in #bioinformatics #microbiology know if there's a method to score and cluster ANI values while also taking into account the aligned fraction between the members? I'm trying to see if there's a coarse comparison method for a larger dataset that works with existing ANI tools.

💥New | Academics have a duty to defend open knowledge systems like Wikipedia ✍️ Helen Choi #OpenResearch #Wikipedia #AcademicSky #OAWeek

Finishing up the last work shift of the day, watching the sunrise in #nyc

After years of studying root development, I was drawn to duckweeds, as many species have lost roots. In this Tansley Insight in @newphyt.bsky.social , we explore other plants that have independently evolved rootlessness. nph.onlinelibrary.wiley.com/share/PYNXFP....

There's a local 24 hour gas station I get my coffee from (no other real option at 4am in the morning!). They have an ongoing $4 chicken sandwich and drinks combo that I can't help but stare at in equal parts fascination and horror... So enticing, but I've seen some things before.

Oh okay guys this is genuinely great. gifcities.org

When I was an undergrad, our physics prof made sure to show the dancing baby gif during her lecture (I think she had to leave powerpoint to fire up a web browser), so we all could get to see it. Imagine ~200 Harvard undergrads raptly watching a gif. Now you can, too! Thanks @archive.org

You know, one would think lowlife scammers like Elizabeth Holmes would first need to make some sort of moral amends for her actions before getting a staged, nationally profiled, money making movie run like this one. Rules truly are different for certain kinds of people in our society.

I’m excited to share our new preprint introducing HipHap, a tool for assigning long reads to haplotype-resolved diploid reference assemblies! With Max Marin, Matthew Meyerson, and @lh3lh3.bsky.social Preprint: www.biorxiv.org/content/10.6... 🧵 1/6

Julia v1.13.2 is out! 🎈🙃 🔴🟢🟣🔵 #JuliaLang discourse.julialang.org/t/julia-1-13...

Long-read, high-coverage reference genome of the nymphalid butterfly Catonephele acontius (Nymphalidae: Biblidinae) academic.oup.com/g3journal/ar...

I don't know what it says about me, but my favorite Kubrick movie might be Barry Lyndon.

miniSNP (minisnp.wytamma.com) is a fun/educational microbial variant caller that lets you watch your reads mapping and variant calling in real-time 🚀 🦠 📊 I hope this is helpful for people trying to learn or explain read mapping and variant calling!

These captchas are getting pretty brutal lol

Oh sweet, new autocycler version dropped. General performance improvement and unaligned BAM support for processing basecalled output directly (though I feel like regular users would still want a filtered fastq for their assemblies). github.com/rrwick/Autoc...

One of those mornings where half my 'genomes' are typo'd into 'gnomes'.

A new plant-bacteria immunological connection in the first preprint of our group at @mpi-bio-fml.bsky.social @plantevolution.bsky.social! Straight from the top of Mt. Olympus ⛰️🦅 Led by Eirik @eiriklag.bsky.social, in collaboration with @geminiteamlab.bsky.social www.biorxiv.org/content/10.6...

For the #baroquemusic fans out there – this lively, unexpectedly humorous novel by musician Federico Maria Sardelli tells the wild story of how countless works by #Vivaldi vanished after his death & were rediscovered in the 1920’s. #ReadingVenice

A recent analysis in Science of more than 116,000 bird songs has revealed that the astonishing variety of passerine birdsong is built from just eight basic acoustic motifs, like trills, whistles, and harmonic notes. Learn more on #WorldAnimalDay: https://scim.ag/3SziyeL

Huh, 2026 one goes to channelrhodopsin. Cool stuff, as much as I have mixed feelings about Nobel it's always good to see researchers appreciated. www.nobelprize.org/prizes/medic...

📆Save the date. This year's BacDive workshop will take place on 17 November 2026, 3 PM CET online! Join us for updates on the upcoming new API and on genomic data in BacDive 🦠🧬. We look forward to hearing your thoughts, ideas, and feedback! Register here ▶️ terminplaner.dfn.de/public/booki...

🌱 We are hiring! 🌱 Join our team as an Assistant Editor (12-month FTC) where you will support peer review, journal meetings, content promotion and editorial development. 📅 Apply by 23 October 2026 Please share with your network! @sebiology.bsky.social @plantpostdocs.bsky.social #PlantScience 🧪

Getting out of work in midtown, the sudden clearing of clouds against morning sunlight was unusually stunning. #nyc

Good grief, best option to sell an old #Thinkpad in #nyc, a city of 9 million people, seems to be the facebook marketplace of all places. Truly we have fallen.

I saw this at a local DD and had all sorts of feels. That bucket is polypropylene though. Autoclavable.

Autumn rain's finally let up a bit. #nyc

Are we really surprised? Also, I've been seeing a lot of academic labs with new Claude science subscriptions/gifts. Something to think about. 🧪

Yeesh, is the upcoming noreaster storm going to be that bad for #nyc? Just got a message starting with "For you and your family's safety, now is the last chance...." I need to go grocery shopping after work this morning lol.

lol holy shit I wouldn't talk about literally anything else if I was the guy running against him. —"What do you think about trans kids in sp-" —"Did you hear my opponent had his patient, who was 8 months pregnant, arrested in front of her son because she didn't pay a $50 medical bill?"

Got the full autumn experience last night, hanging out with old buddies & cheap beer at a makeshift rooftop theater. Sunset boulevard on 35mm celluloid is an interesting experience considering the venue lol. Not sure how they managed to swing that one.

I gotta tell ya. Just adding two frozen dumplings into an instant cup ramyun really changes the QoL feel of the whole thing.

We are often asked whether pangenomes are worth the hassle. The files can be large and methods to explore them are much more challenging than linear references. Earlier this week, we preprinted a clear example of how and why pan-genome graphs are so important for trait discovery.

A Hadean timeline for the emergence of the RNA World #OriginsOfLife #RNAworld #RNA #scienceSky www.nature.com/articles/s41...

thx for pointing this out, rich 🙏 (first, however,cwe will take another look at 📖 pmc.ncbi.nlm.nih.gov/articles/PMC...) #MicroSky and all other branches of biology