The Tattooed Professor
@schwessinger.bsky.social
Professor at the Australian National University. Biosecurity, fungal and plant genomics, evolution, and biochemistry. Dad. Swimming, reading, nature.
Reposted by The Tattooed Professor
The scikit-bio paper in online in Nature Methods! Many thanks to our collaborators, community contributors and reviewers! We couldn’t have done it without you. www.nature.com/articles/s41... #Bioinformatics #OpenSource
Scikit-bio: a fundamental Python library for biological omic data analysis - Nature Methods
Nature Methods - Scikit-bio: a fundamental Python library for biological omic data analysis
www.nature.com
December 11, 2025 at 5:57 PM
The scikit-bio paper in online in Nature Methods! Many thanks to our collaborators, community contributors and reviewers! We couldn’t have done it without you. www.nature.com/articles/s41... #Bioinformatics #OpenSource
Reposted by The Tattooed Professor
At the end of 2024 I did a chronological round up of all the #plantscience in @science.org that year.
So how did 2025 pan out? This year, I’m grouping papers thematically instead of chronologically so read on to find out what exciting plant science came out over the last 12 months. (1/22)
So how did 2025 pan out? This year, I’m grouping papers thematically instead of chronologically so read on to find out what exciting plant science came out over the last 12 months. (1/22)
January 2, 2026 at 6:24 PM
At the end of 2024 I did a chronological round up of all the #plantscience in @science.org that year.
So how did 2025 pan out? This year, I’m grouping papers thematically instead of chronologically so read on to find out what exciting plant science came out over the last 12 months. (1/22)
So how did 2025 pan out? This year, I’m grouping papers thematically instead of chronologically so read on to find out what exciting plant science came out over the last 12 months. (1/22)
Reposted by The Tattooed Professor
And more on that topic here:
www.science.org/doi/10.1126/... www.science.org/doi/10.1126/... www.science.org/doi/10.1126/... www.science.org/doi/10.1126/...
(6/22)
www.science.org/doi/10.1126/... www.science.org/doi/10.1126/... www.science.org/doi/10.1126/... www.science.org/doi/10.1126/...
(6/22)
Plant pathogenic fungi hijack phosphate signaling with conserved enzymatic effectors
Inorganic phosphate (Pi) is essential for life, and plant cells monitor Pi availability by sensing inositol pyrophosphate (PP-InsP) levels. In this work, we describe the hijacking of plant phosphate s...
www.science.org
January 2, 2026 at 6:24 PM
And more on that topic here:
www.science.org/doi/10.1126/... www.science.org/doi/10.1126/... www.science.org/doi/10.1126/... www.science.org/doi/10.1126/...
(6/22)
www.science.org/doi/10.1126/... www.science.org/doi/10.1126/... www.science.org/doi/10.1126/... www.science.org/doi/10.1126/...
(6/22)
Reposted by The Tattooed Professor
Papers here:
www.science.org/doi/10.1126/... www.science.org/doi/10.1126/... www.science.org/doi/10.1126/...
(5/22)
www.science.org/doi/10.1126/... www.science.org/doi/10.1126/... www.science.org/doi/10.1126/...
(5/22)
A wheat tandem kinase and NLR pair confers resistance to multiple fungal pathogens
Tandem kinase proteins underlie the innate immune systems of cereal plants, but how they initiate plant immune responses remains unclear. This report identifies wheat protein wheat tandem NBD 1 (WTN1)...
www.science.org
January 2, 2026 at 6:24 PM
Reposted by The Tattooed Professor
Thread: Introducing GCUA v2.0 (General Codon Usage Analysis) - a Python tool for analysing codon usage patterns in DNA sequences! Originally developed in 1998, now completely rewritten with modern features. Let me walk you through what I like about this version (PLS RT) github.com/mol-evol/gcu...
github.com
June 1, 2025 at 7:28 PM
Thread: Introducing GCUA v2.0 (General Codon Usage Analysis) - a Python tool for analysing codon usage patterns in DNA sequences! Originally developed in 1998, now completely rewritten with modern features. Let me walk you through what I like about this version (PLS RT) github.com/mol-evol/gcu...
Reposted by The Tattooed Professor
What are we doing t.me/traficoGranC...
January 3, 2026 at 6:40 AM
What are we doing t.me/traficoGranC...
Reposted by The Tattooed Professor
i've re-implemented PoPE from scratch as part of a model overhaul (w/ Claude Code). i don't have clean ablations yet but it's working. took about two hours to re-write my entire model
i think the PoPE idea is really cool and a great fit for scientific data
i think the PoPE idea is really cool and a great fit for scientific data
They find that RoPE (the positional encoding used in most modern LLMs) has a fundamental flaw. It entangles "what" (content) and "where" (position) information.
They propose PoPE (Polar Coordinate Position Embeddings), which eliminates the what-where.
They propose PoPE (Polar Coordinate Position Embeddings), which eliminates the what-where.
January 2, 2026 at 5:19 AM
i've re-implemented PoPE from scratch as part of a model overhaul (w/ Claude Code). i don't have clean ablations yet but it's working. took about two hours to re-write my entire model
i think the PoPE idea is really cool and a great fit for scientific data
i think the PoPE idea is really cool and a great fit for scientific data
Reposted by The Tattooed Professor
How about business leaders first institute all the recommendations from the Royal Commission into Misconduct in the Banking, Superannuation and Financial Services Industry?
January 2, 2026 at 12:55 AM
How about business leaders first institute all the recommendations from the Royal Commission into Misconduct in the Banking, Superannuation and Financial Services Industry?
There is literally no argument for keeping capital gains discounts for people with multiple properties. Great short read on what these tax breaks for rich people cost all of us Australians.
"Treasury figures reveal $18 billion capital gains windfall for Australia’s richest 10 per cent"
Form me in @thepointau.bsky.social
thepoint.com.au/off-the-char...
Form me in @thepointau.bsky.social
thepoint.com.au/off-the-char...
Treasury figures reveal $18 billion capital gains windfall for Australia’s richest 10 per cent
The latest tax expenditure figures released on Friday by the Treasury department show this financial year the richest 10 percent of Australians will receive $18bn worth of tax breaks from the capital ...
thepoint.com.au
January 2, 2026 at 3:18 AM
There is literally no argument for keeping capital gains discounts for people with multiple properties. Great short read on what these tax breaks for rich people cost all of us Australians.
Reposted by The Tattooed Professor
you can join the AI Skeptics Reading Group here; i'll be sending a reminder to buy the book (or the ebook) soon
AI Skeptics Reading Group
A reading group for AI skeptics It's exactly what it sounds like!
buttondown.com
January 1, 2026 at 5:14 PM
you can join the AI Skeptics Reading Group here; i'll be sending a reminder to buy the book (or the ebook) soon
Reposted by The Tattooed Professor
Given that functionalism has been a dead letter since the 1980s, and computationalism is a species of functionalism, the continuing popularity of the latter, even by those who should know better, is puzzling. Industry certainly has gotten its hooks into a lot of people.
We assume intelligence is computable not because we’ve proven it, but because we’ve lost the ability to conceptualize it any other way.
www.ocrampal.com/the-ultimate...
#philosophy #science #psychology #AI #intelligence #physics #biology #philmind #philsci #philsky #philpsy #neurosky #neuroskyence
www.ocrampal.com/the-ultimate...
#philosophy #science #psychology #AI #intelligence #physics #biology #philmind #philsci #philsky #philpsy #neurosky #neuroskyence
The Ultimate Hammer: Why Programmers Can't See Beyond Computation
* Alex: Senior engineer at a leading AI lab, 15 years of experience in machine learning
* Morgan: Philosopher of science with a background in biology
Alex: Look, I know you philosophers love to comp...
www.ocrampal.com
January 1, 2026 at 5:41 PM
Given that functionalism has been a dead letter since the 1980s, and computationalism is a species of functionalism, the continuing popularity of the latter, even by those who should know better, is puzzling. Industry certainly has gotten its hooks into a lot of people.
Reposted by The Tattooed Professor
Proximity labeling users: check out this study by @zhixingchen2.bsky.social and Peng Zou, which establishes how much contact-dependence vs. diffusion is responsible for biotinylation — tl;dr TurboID has a much smaller effective radius! www.nature.com/articles/s41... 1/2
Spatial barcoding reveals reaction radii and contact-dependent mechanism of proximity labeling - Nature Chemical Biology
A DNA nanoruler platform enables precise measurement of the labeling radii of TurboID and APEX2, uncovering their contact-dependent mechanisms. These findings redefine the enzymology of proximity labe...
www.nature.com
December 31, 2025 at 5:53 PM
Proximity labeling users: check out this study by @zhixingchen2.bsky.social and Peng Zou, which establishes how much contact-dependence vs. diffusion is responsible for biotinylation — tl;dr TurboID has a much smaller effective radius! www.nature.com/articles/s41... 1/2
Happy 2026. Sharing the first bright rays of the year for better times.
December 31, 2025 at 8:23 PM
Happy 2026. Sharing the first bright rays of the year for better times.
Reposted by The Tattooed Professor
Excited to launch the new improved Reproducible Code guide from @britishecologicalsociety.org @methodsinecoevol.bsky.social FREE online here! www.britishecologicalsociety.org//wp-content/... Amazing work by some very talented ECRs. We hope it’s useful!
December 16, 2025 at 3:03 PM
Excited to launch the new improved Reproducible Code guide from @britishecologicalsociety.org @methodsinecoevol.bsky.social FREE online here! www.britishecologicalsociety.org//wp-content/... Amazing work by some very talented ECRs. We hope it’s useful!
Reposted by The Tattooed Professor
Evolution of protein domains and protein domain combinations provides insights into the origin and diversification of land plants www.cell.com/cell-genomic...
December 31, 2025 at 9:09 AM
Evolution of protein domains and protein domain combinations provides insights into the origin and diversification of land plants www.cell.com/cell-genomic...
Reposted by The Tattooed Professor
What has Labor done with its golden opportunity in this term?
Net zero, says @johnquiggin.bsky.social. I agree.
Absolutely nada of any substance.
Net zero, says @johnquiggin.bsky.social. I agree.
Absolutely nada of any substance.
Labor delivers net zero (policy achievements)
Legislation so far in second term adds up to zilch
johnquigginblog.substack.com
December 30, 2025 at 4:44 AM
What has Labor done with its golden opportunity in this term?
Net zero, says @johnquiggin.bsky.social. I agree.
Absolutely nada of any substance.
Net zero, says @johnquiggin.bsky.social. I agree.
Absolutely nada of any substance.
Reposted by The Tattooed Professor
Join us for our #ILoveMethods26 workshop! Sign up at: forms.gle/JcG93NU6NNSj.... Find more information here: excelscior.uc.pt/love-methods....
December 30, 2025 at 6:02 PM
Join us for our #ILoveMethods26 workshop! Sign up at: forms.gle/JcG93NU6NNSj.... Find more information here: excelscior.uc.pt/love-methods....
Reposted by The Tattooed Professor
Releasing alignism, a small tool that I have found useful for doing multiple sequence alignment in browser.
hgbrian.github.io/alignism/
- The hard work was done by the awesome biowasm team!
- Does tree building too
- V fast compared to e.g., muscle on EBI
- Not tested that much!
hgbrian.github.io/alignism/
- The hard work was done by the awesome biowasm team!
- Does tree building too
- V fast compared to e.g., muscle on EBI
- Not tested that much!
December 30, 2025 at 5:16 PM
Releasing alignism, a small tool that I have found useful for doing multiple sequence alignment in browser.
hgbrian.github.io/alignism/
- The hard work was done by the awesome biowasm team!
- Does tree building too
- V fast compared to e.g., muscle on EBI
- Not tested that much!
hgbrian.github.io/alignism/
- The hard work was done by the awesome biowasm team!
- Does tree building too
- V fast compared to e.g., muscle on EBI
- Not tested that much!
Reposted by The Tattooed Professor
RAMBO: Resolving Amplicons in Mixed Samples for Accurate DNA Barcoding with Oxford Nanopore www.biorxiv.org/content/10.6... #jcampubs
December 30, 2025 at 3:53 PM
RAMBO: Resolving Amplicons in Mixed Samples for Accurate DNA Barcoding with Oxford Nanopore www.biorxiv.org/content/10.6... #jcampubs
Reposted by The Tattooed Professor
Great dancing too
December 30, 2025 at 7:27 AM
Great dancing too
Still one of the best techno dance music live acts. Good to see Underworld live in Sydney after approximately 18 years waiting.
December 30, 2025 at 7:27 AM
Still one of the best techno dance music live acts. Good to see Underworld live in Sydney after approximately 18 years waiting.
Reposted by The Tattooed Professor
Poverty is a policy choice. Concentrated wealth is a policy choice. Inequality is a policy choice. None of it is natural or inevitable. Remember: We have the power to build a system that serves the many, not the powerful few.
December 28, 2025 at 9:00 PM
Poverty is a policy choice. Concentrated wealth is a policy choice. Inequality is a policy choice. None of it is natural or inevitable. Remember: We have the power to build a system that serves the many, not the powerful few.
Reposted by The Tattooed Professor
Aboriginal Australians represent approximately 4% of the population and 30% of death (34 in 2025) in state custody. Somehow no one cares.
December 28, 2025 at 7:47 AM
Aboriginal Australians represent approximately 4% of the population and 30% of death (34 in 2025) in state custody. Somehow no one cares.