iiinova — where your digital self keeps evolving

Angel Goñi-Moreno @angelgm.eurosky.social · 16/10/2026

Muy contento con esta oportunidad. Seguimos avanzando en el uso de gemelos digitales para análisis celular con la iniciativa NEWTON Biotwins newtonbiotwins.com cofundada junto a @mirobueno.bsky.social

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Angel Goñi-Moreno @angelgm.eurosky.social · 07/10/2026

Lab retreat 2026 at the Geological and Mining Institute of Spain (IGME-CSIC). Fascinating discussions in an impressive environment. To the next academic year!

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Angel Goñi-Moreno @angelgm.eurosky.social · 11/09/2026

You remember our #ALife paper from 2023? doi.org/10.1162/isal.... One of my favourites! Experimental results are in, finally. You will most definitely enjoy reading about them. Coming soon! @lewisgrozinger.bsky.social @pglekas.eurosky.social

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Angel Goñi-Moreno @angelgm.eurosky.social · 07/09/2026

Also next in Lab's conference agenda: the IEEE International Conference on Digital Twin swc-ieee-2026.github.io/digitaltwin/. Jesús @mirobueno.bsky.social will give a talk about our digital twins in microbiology and #synbio.

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Angel Goñi-Moreno @angelgm.eurosky.social · 07/09/2026

Next in Lab's conference agenda: International Symposium on Plasmid Biology plasmid-biology-2026.de. Alejandro @redquena.bsky.social will be presenting poster CM-05 on the engineering of conjugation dynamics. Go talk to him!

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Angel Goñi-Moreno @angelgm.eurosky.social · 02/07/2026

Una maravilla esto que edita @principiamagazine.bsky.social sobre María Teresa Toral.

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Angel Goñi-Moreno @angelgm.eurosky.social · 16/06/2026

The 2026 Systems Biology Department's retreat. What a brilliant crowd! The t-shirt (artist: Marina de la Fuente) has a logo of every lab in the Dept. Our Lab is The logic Doors :-) Kudos to organizers: @angeles-hg.bsky.social, @pglekas.eurosky.social, @lewisgrozinger.bsky.social & Guillermo Gomez.

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Angel Goñi-Moreno @angelgm.eurosky.social · 08/06/2026

Next conference in the Lab's agenda: the #SynBYSS conference that starts today in Barcelona. The agenda is absolutely spectacular: www.jcvi.org/events/synbyss. If you are around, go visit Crislaine Rocha at poster 17. Her research, on coupling sensors to gates is truly brilliant. #synbio

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Angel Goñi-Moreno @angelgm.eurosky.social · 14/05/2026

Gene expression noise is not always noise. If expression comes from stable rates and events (blue lines) it is noiseless information (yet stochastic & probabilistic!). If there are sudden perturbations on the channel (green), then there is noise. I find that word particularly misleading 🤔

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Angel Goñi-Moreno @angelgm.eurosky.social · 07/04/2026

It's all about the Moon now, but here is the Sun from my office window this morning.

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Angel Goñi-Moreno @angelgm.eurosky.social · 05/03/2026

(5/5) Based on our knowledge of NOT gates, can we design a larger circuit? Oh, yes! We designed a YES gate by coupling two NOT functions. We designed the best gate that would work in Pf-5. The model also said that gate would not work in KT2440 Guess what? That is what happened (fourth result).

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Angel Goñi-Moreno @angelgm.eurosky.social · 05/03/2026

(4/5) A good example is parameter g. This is in charge of digital performance i.e. how clear the two states (on/off) are defined. We tested gates that only differed in the RBS (that is basically g in the model). Third result: Pf-5 is more digital tan KT2440. Let that sink in :-)

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Angel Goñi-Moreno @angelgm.eurosky.social · 05/03/2026

(3/5) Each of the four new parameters had a very specific impact on NOT gate performance (arrows in figure). This is the core of the comparison. Second result: the four parameters that explained each NOT gate in a chassis built a fingerprint. Their value told as a lot.

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Angel Goñi-Moreno @angelgm.eurosky.social · 05/03/2026

(2/5) We compared NOT gates against the (also soil!) chassis Pseudomonas putida KT2440. But hey, we needed math models to run this comparison. Overfitting enters the game. First result: we turned full mechanistic models (A) into models with clustered rates (B). Bye, bye overfitting!

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Angel Goñi-Moreno @angelgm.eurosky.social · 19/01/2026

New tech adventure: co-founded Newton Biotwins together with @mirobueno.bsky.social. We're building #DigitalTwins for the lab — starting with a flow cytometry twin. Turning #biology into an information science! newtonbiotwins.com/en/home_en/

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Angel Goñi-Moreno @angelgm.eurosky.social · 12/01/2026

Just published our workflow for genotyping transposon libraries. All methods, files, scripts... are open source and publicly available. 🔗 link.springer.com/article/10.1...

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Angel Goñi-Moreno @angelgm.eurosky.social · 08/01/2026

New paper out!📢 Exploring the computing power of microbes that shapes the environment. In this short review we talk about the "complexity gap", the distance between bottom-up genetic circuits and microbial information processes. Key questions to improve #biocomputation. 🔗 doi.org/10.1016/j.mi...

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Angel Goñi-Moreno @angelgm.eurosky.social · 22/12/2025

Side story: NAND gates where one input deals directly with growth control, and it is the actual physical body doing the computation. This is our initial approach to morphological computing in living cells. #biocomputation #alife Our new strain KT-TTX is truly fascinating. Feedback welcome!

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Angel Goñi-Moreno @angelgm.eurosky.social · 12/12/2025

This book is brilliant. Impossible to read without current scenarios in mind...

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Angel Goñi-Moreno @angelgm.eurosky.social · 01/12/2025

Our #ALIFE2025 paper is out! 🎉 We show that even when two circuits produce the same output, their evolutionary potential can differ greatly. #Evolution at the smallest scale. “Parameter Evolvability in Gene Expression Models Drives Phenotypic Adaptation” 🔗 direct.mit.edu/isal/proceed...

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Angel Goñi-Moreno @angelgm.eurosky.social · 29/10/2025

The 2025 Retreat of the Biocomputation Lab (in wonderful Chinchón, Madrid) comes to an end. Three days of fantastic discussions, with new (and revisited) goals ahead. What a brilliant team!

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Angel Goñi-Moreno @angelgm.eurosky.social · 24/10/2025

Vuelvo de dar un seminario sobre biocomputación en la escuela de teatro de Jorge Eines. Cosas de aquí, de Madrid.

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Angel Goñi-Moreno @angelgm.eurosky.social · 16/10/2025

I'm at a meeting on Unconventional Computing in... Bristol docks! Notes: 1) discussions around Turing Machines are endless, as infinite as the tape, and 2) reservoir computing with all physical substrates (not sure about this trend being the best but here we are).

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Angel Goñi-Moreno @angelgm.eurosky.social · 11/10/2025

Off to Madrid from an amazing #ALIFE2025 conference in beautiful Kyoto. Kudos to the organisers.

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Angel Goñi-Moreno @angelgm.eurosky.social · 08/10/2025

1st evolution session of the day at #ALIFE2025. Our story on evolvability by Pablo Japón. In evolution, it is not only the visible that matters!

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Angel Goñi-Moreno @angelgm.eurosky.social · 07/10/2025

#Judo at Enshin Dojo today. Wonderful place and most brilliant people!

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Angel Goñi-Moreno @angelgm.eurosky.social · 06/10/2025

Making the most of Kyoto after a great #ALIFE2025 first day. Here training with the Kyoto University #Judo Club!

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Angel Goñi-Moreno @angelgm.eurosky.social · 04/10/2025

Off to #ALIFE conference @alife2025.bsky.social in Kyoto! Although I've been involved in many, this is the first ALIFE I attend since Odense 2012 😅. Pablo Japon will be presenting our work on evolvability in #synbio - Wed at 9 in the Auditorium.

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Angel Goñi-Moreno @angelgm.eurosky.social · 26/08/2025

Wow!! This work is great - I'll need to dig out some old ideas on "quantum synthetic biology". This from our 2019 cellular supremacy paper:

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Angel Goñi-Moreno @angelgm.eurosky.social · 11/07/2025

New toy! Just need some free time now to play with it... Sure we can get ideas for new genetic circuits 🤔

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Angel Goñi-Moreno @angelgm.eurosky.social · 09/07/2025

Next in Lab's conference agenda: FEMS @femsmicro.org! @vdlorenzo.bsky.social and myself are running a session on bacterial computation. Talks by @yschaerli.bsky.social, @manishmicrobe.bsky.social, Sangram Bagh & organisers. Very looking forward to it! #biocomputation #synbio

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Angel Goñi-Moreno @angelgm.eurosky.social · 23/06/2025

Next in the Lab's conference agenda: the @embl.org symposium on New approaches and concepts in #microbiology. Look for @juanricomol.bsky.social‬!

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Angel Goñi-Moreno @angelgm.eurosky.social · 18/06/2025

Of course! Couldn't be otherwise 😉 Huge congrats, Lorea @loraleja.bsky.social! #ME16

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Angel Goñi-Moreno @angelgm.eurosky.social · 16/06/2025

On my way to the conference of the Spanish Society of #Microbiology! Very happy to be invited to show our research on computing with microbes. Looking forward to meeting with friends (and making new ones)!

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Angel Goñi-Moreno @angelgm.eurosky.social · 30/05/2025

We are offering a #PhD candidate position (Spanish FPI) to work with us at the @cnb-csic.bsky.social in Madrid. The project you would be part of: establish a #biofoundry at our institution, to optimize #synbio experiments from #design to #test. If interested, get in touch!

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Angel Goñi-Moreno @angelgm.eurosky.social · 30/05/2025

Digital logic doesn't always fit living matter. Here, two suggestions for handling biological information: 1) Random Pulse Computing (von Neumann's old idea)—check the output robustness (left pic) 2) Probabilistic bits, enabling invertible logic (right pic) 🔗 doi.org/10.1103/Phys...

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Angel Goñi-Moreno @angelgm.eurosky.social · 08/05/2025

This fine-tuning is fascinating. Reminds us of our own earlier work on "The Digitalizer," a synthetic module combining sRNA and double negative feedback to suppress leakage in OFF states and stabilize ON levels of target genes: www.embopress.org/doi/full/10....

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Angel Goñi-Moreno @angelgm.eurosky.social · 06/05/2025

The useless box now on my office desk! A machine that switches itself off. Designed by Marvin Minsky and versioned by Claude Shannon. Arthur C. Clarke saw "something unspeakably sinister" about it.

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Angel Goñi-Moreno @angelgm.eurosky.social · 05/05/2025

I feel the 'design principles' is the 3rd of a trilogy, after the 'supremacy' (www.nature.com/articles/s41...) and 'beyond Turing' (dl.acm.org/doi/10.1145/...) papers.

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Angel Goñi-Moreno @angelgm.eurosky.social · 02/05/2025

Why cellular computations challenge our design principles. We write about computational theory, information, living cells, complexity, computers, evolution... I really enjoyed writing this piece on #biocomputation. Kudos to Lewis & Bruno. www.sciencedirect.com/science/arti...

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Angel Goñi-Moreno @angelgm.eurosky.social · 29/04/2025

Massive blackout yesterday in Spain. This was the only radio we could use.

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Angel Goñi-Moreno @angelgm.eurosky.social · 24/04/2025

Symbolic (left) vs ANN-based agents (right) #JustSaying

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Angel Goñi-Moreno @angelgm.eurosky.social · 23/04/2025

Now based entirely on symbolic rules. Something strange happens on generation 33 (after 4 seconds) but otherwise agents look good.

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Angel Goñi-Moreno @angelgm.eurosky.social · 23/04/2025

Fixed now. Also implemented memory. Here:

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Angel Goñi-Moreno @angelgm.eurosky.social · 22/04/2025

OK I give up - this simulation just won't work. The agents are supposed to evolve rules that guide them toward the center of their world (each frame = a new generation of agents). Instead? A chaotic swarm of dots moving crazy while evolving who knows what.

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Angel Goñi-Moreno @angelgm.eurosky.social · 26/03/2025

When talk to colleagues, I see a growing interest in the central question of this paper: what if we’ve been designing genetic circuits the wrong way? After all, natural networks *look* very different. This work, which has gone somewhat unnoticed, is one of my favourites! doi.org/10.1162/isal...

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Angel Goñi-Moreno @angelgm.eurosky.social · 18/03/2025

The origins of both Cellular Computing and Quantum Computing could be set in 1994, don't you think? That was the year of Adleman's experiment and Shor's algorithm. If so, we could write a computational "supremacy" timeline comparing the two 🤔

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Angel Goñi-Moreno @angelgm.eurosky.social · 16/03/2025

One day you're talking crazy in front of a quantum computer about computability theory (Barcelona), next thing you're walking around snowy mountains (Segovia).

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Angel Goñi-Moreno @angelgm.eurosky.social · 14/03/2025

And back to Madrid after great couple of days in Barcelona. Nice to catch up with brilliant colleagues here. Bring back some ideas 💡

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