Moreno Colaiacovo 🇪🇺

Pagina del libro "Le sanguisughe di Giulietta" di Giuseppe Remuzzi, in cui si cita l'azienda Genomnia

Scopro ora, leggendo un suo libro, che quando lavoravo per #Genomnia avrei potuto analizzare il DNA di Giuseppe #Remuzzi. Alla fine ha preferito rivolgersi alla concorrenza! 😅

I am getting more and more interested in @proton.me 's battle against US big tech. Now we have #ProtonAuthenticator, which is a simple TFA app but it's nth attempt to annoy tech giants. I wonder if they are really making a dent in #Google's dominance!

Our paper on duplex sequencing approach for high-sensitiviy detection of genome-edited plants

#EU law requires #GMO labeling when levels exceed 0.9% at the ingredient level.

Our study shows that duplex #sequencing can reliably detect #NGT genome-edited DNA down to 0.1%, suggesting a potential alternative detection approach when #PCR assay design is not feasible. 🧬🔎

tinyurl.com/duplexNGT

This work is the result of a collaboration between the #JRC 🇪🇺 and #IGATech, who sequenced the mixed samples without knowing the expected mutations and their abundance.

Thank you to all coauthors, and especially to Laura Bonfini and Christian Savini from the European Commission.

By using duplex sequencing, we managed to call all expected mutations and filter out PCR artifacts and sequencing errors. Despite the excellent detection performance, challenges remain with respect to accurate quantification.

Yet, when PCR assays are unfeasible, sequencing can be a useful tool! 7/

Plots showing coefficient of variation and bias for different mutations at different levels

For #quantification, results at the 0.9% threshold showed acceptable variation across replicates. ✅

At very low levels, however, precision dropped. We also observed some bias with certain mutations and samples, regardless of the level. ❌ 6/

Bubble plot showing mutation frequency for one of the expected mutations, and a few unexpected ones

Detection performance was very good: we reliably detected all expected mutations down to 0.1% (if enough DNA was used). ✅

Other unexpected mutations were found, but none was called in all replicates, and in both strands of at least two distinct DNA molecules. We could filter them out! ✅ 5/

To test it, we mixed non-modified #tomato 🍅 DNA with edited DNA at decreasing levels (from 10% down to 0.1%), and we sequenced three replicates for each level.

We assessed different CRISPR-induced mutations in two genes, both single nucleotide changes or short insertions/deletions. 4/

Enter #duplex sequencing: a clever technique that tags #DNA molecules with barcodes before PCR. It tracks both strands of each molecule, so you can discard the mutations that were present in only one molecule or in only one strand.

Will it work to detect edited DNA at low levels? 3/

It's not easy to design #PCR assays that reliably distinguish sequence differences of just one nucleotide.

On the other hand, #sequencing struggles to reliably call low-frequency mutations. At those levels, noise is high and technical artifacts are a real issue. 2/

A duplex sequencing approach for high-sensitivity detection of genome-edited plants In this paper, we have evaluated a targeted high-throughput massive parallel sequencing approach for detecting single nucleotide mutations or small ge…

Our paper on duplex sequencing for the detection of genome-edited plants is out! 🧬

The EU law requires labeling of food/feed where #GMOs are above 0.9% at the ingredient level. PCR can detect such small quantities, but new genomic techniques like #CRISPR make it harder. What about sequencing? 🧵1/

Remarkable set of tracks suggests different dinosaurs herded together Late Cretaceous dinosaur tracks found in Canada might have been made by different species walking together, but the evidence is far from conclusive

It's likely that different species of plant-eating dinosaurs 🦕 herded together for protection like many modern animals do - and now we have some tentative evidence for this, in a set of 76-million-year-old tracks 👣 discovered in Canada 🧪

www.newscientist.com/article/2489...

Cool!

The first twin study to assess sense of #humor heritability reveals that no, humor production ability is not genetic.

Participants were asked to write funny captions to cartoons, which were then evaluated by judges in a blind test. This method was inspired by a The New Yorker caption contest 🙂

Perché la Valle d'Aosta ha annullato la ricerca sulla cosiddetta «acqua informata» Cos’è l’acqua informata e perché è riuscita a conquistare un’intera regione nonostante sia priva di fondamento scientifico.

TUTTO QUELLO CHE AVRESTE SEMPRE VOLUTO CHIEDERE SULL'ACQUA INFORMATA

Juanne Pili, per Open, riassume bene tutta la vicenda, e pubblica in anteprima anche l'analisi fatta da me con tre colleghi della cosiddetta "sperimentazione di Torino" su insalata, mais e riso.

www.open.online/2025/07/21/p...

AlphaFold - A practical guide AlphaFold - A practical guide

Recently I learnt that EMBL-EBI has a free online course about AlphaFold — how it works, strengths and limitations, how to use it — and it's very good!

There are also little quizzes and interactives.
www.ebi.ac.uk/training/onl...

I knew about organoids, but #bodyoids are totally new to me: brainless human bodies that can provide any organ for transplant (except the brain, I guess). They don't exist yet, but they still scare me 😅

Dear @anthropic.com , as a European customer, I would also like to choose where my data should be processed. Why give this option only to American customers? 🤷🏻‍♂️

Follower_Language_Analyzer The script detects the favorite language of your most active followers on Mastodon and Bluesky

This is the script I used to analyze my followers favourite language:
codeberg.org/emmecola/Fol...

I discovered that 54% of my followers prefer to write in English, and only 42% prefer Italian (on #Mastodon it's the opposite: Italian 65%, English 31%).

From now on I'll write here in #English 🇬🇧, and on Mastodon in Italian. The topics too will be different, this account will be more "scientific".

Sì è europeo anche quello, ma pare che il CEO finanzi aziende militari (ci sono state un po' di polemiche nelle ultime settimane, alcuni musicisti stanno lasciando la piattaforma). Dovendo cambiare, ho preferito scegliere altro 🙂

Mi sono sempre trovato bene con #Tidal, ma l'azienda norvegese è stata acquisita da una società americana e ora ha sede negli USA. È il momento di sostenere i servizi europei e provare #Deezer 🇫🇷🎶

Nascere col DNA di tre persone - Il Post Nel Regno Unito otto bambini sono stati concepiti con due ovuli e uno spermatozoo per evitare malattie ereditarie

"La tecnica viene definita “a tre persone” perché il bambino ha nel nucleo delle proprie cellule il #DNA ereditato dai due genitori, e nel resto della cellula il DNA mitocondriale di una donatrice." 🧬

La seconda maglia verde chiaro dell' #Italia è bellissima (ma quella della #Norvegia ha un font pazzesco). #NORITA #EuropeiFemminili 🇳🇴🇮🇹

Could Gut Bacteria Help You Flush Away Your PFAS Woes? When tested on their own and in mice, these bacterial strains from the human microbiome show promise in accumulating PFAS

Un nuovo studio pubblicato su Nature Microbiology ha scoperto che alcune specie di batteri intestinali assorbono i temibili #PFAS come spugne. Ottima notizia! 🦠

Human Gut Bacteria Can Gather Up PFAS ‘Forever Chemicals’ | Scientific American

Screenshot del cartone animato mostrato ai visitatori di Jurassic Park nel primo film

#JurassicWorld è un buon film d'azione, ha anche un po' dello spirito originario del primo film. Ma agli occhi di uno che da bambino ha assaporato la magia e il fascino di #JurassicPark, questi film sembrano sempre più simili a Godzilla e King Kong. Mr. DNA, mi manchi tantissimo! 🦕🧬

PPS: un'alternativa ad Amazon a quanto pare c'è: si chiama #Galaxus 🇨🇭. Vendono davvero di tutto!

E per quanto riguarda i computer, bisogna citare anche #Tuxedo 🇩🇪 . Offrono sia hardware che sistema operativo!

Digital sovereignty can’t be bargained away The European Commission has tools, public support and a mandate to act on Big Tech. Trading that away for short-term calm would be a costly mistake.

Digital sovereignty can't be bargained away #EuroStack

www.politico.eu/article/digi...

Homepage | European Alternatives We help you find European alternatives for digital service and products, like cloud services and SaaS products.

PS: ovviamente esistono altri tool che non ho menzionato, date un'occhiata qui per una panoramica completa

european-alternatives.eu

Livello 5 - Smanettone 🤓

Questa è roba da pro, ma con un po' di impegno si può fare. Windows non è insostituibile: fate almeno un tentativo con #Ubuntu 🇬🇧 o #LinuxMint 🇫🇷.

Ma un vero smanettone non si ferma qui: sullo smartphone installate #eOS 🇫🇷, e se scrivete codice lo condividetelo su #Codeberg 🇩🇪