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Daniel Machado

@dan1elmachado

Associate Professor of Computational Biology at NTNU

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15.11.2024
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Latest posts by Daniel Machado @dan1elmachado

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Happy to announce that CarveMe is now running online at usegalaxy.eu and usegalaxy.no ๐Ÿ™‚

16.02.2026 12:59 ๐Ÿ‘ 1 ๐Ÿ” 1 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0

A database of over 15.000 strain design publications reveals a conserved set of metabolic engineering targets across microbial hosts and products https://www.biorxiv.org/content/10.64898/2025.12.15.694291v1

17.12.2025 07:02 ๐Ÿ‘ 6 ๐Ÿ” 7 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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Not sure what to do about the yeast in the toilet ๐Ÿค”

13.12.2025 12:00 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0

Publisher: "check-out our new selection of community-driven journals !!" ๐Ÿ˜‡

What they actually mean: "we realized we could make even more money if we also didn't pay the editors !!" ๐Ÿ˜‚

03.10.2025 19:36 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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Genome-scale metabolic modeling of Ruminiclostridium cellulolyticum: a microbial cell factory for valorization of lignocellulosic biomass | mSystems In this work, we present a manually curated genome-scale metabolic model for Ruminiclostridium cellulolyticum, one of the few species known to fully degrade cellulose and hemicellulose. The model was ...

Our new genome-scale model for R. cellulolyticum is out on mSystems:

journals.asm.org/doi/10.1128/...

Very proud of the hard work of my PhD student, Idun Burgos ๐Ÿ˜Š

30.09.2025 15:32 ๐Ÿ‘ 3 ๐Ÿ” 1 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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Distilled water is the perfect low-calorie high-energy isotonic drink ๐Ÿฅ‡๐Ÿ’ช

14.09.2025 06:56 ๐Ÿ‘ 1 ๐Ÿ” 1 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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That sad moment when even Wordle refuses your grant ๐Ÿซ 

29.08.2025 06:46 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0

I don't claim to fully understand how the financial system and all its intricacies work, but my impression is that the global economy is one giant pyramid scheme that constantly borrows money from the next generation.

13.08.2025 22:12 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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Why spend money on journal fees?

If i want to advertise my research results, I can just report them to old people in my hometown and ask them to keep it a secret. ๐Ÿคซ

26.07.2025 18:16 ๐Ÿ‘ 1 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0

I usually ask explicitly to chatGPT to give me an answer based on solid scientific literature with preference for well known journals. So far i never got an answer that seemed suspicious. I'm quite happy with the quality of the results.

26.07.2025 11:51 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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Every time I accept to participate in another project...

23.07.2025 08:03 ๐Ÿ‘ 1 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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Applications are now open! We are recruiting 20 Assistant Professors in a wide range of subject areas. We're looking for early-career researchers with strong scientific merits and future potential.
๐Ÿ”— All positions: ki.se/en/about-ki/...

25.06.2025 10:00 ๐Ÿ‘ 99 ๐Ÿ” 97 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 3

Right-wing nationalists who claim that people should go back to where they came from, should maybe do the same, and go back to the hydrothermal vents... ๐Ÿค” ๐Ÿฆ 

23.04.2025 10:43 ๐Ÿ‘ 0 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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More than the number of users or the number of citations, the best achievement of my open source software is to have reached the "height of folly!" ๐Ÿฅฐ

10.04.2025 06:49 ๐Ÿ‘ 3 ๐Ÿ” 0 ๐Ÿ’ฌ 1 ๐Ÿ“Œ 0

Wouldn't it be ironic if with all the import tariffs, and backlash from other countries, Trump would actually promote a worldwide use of local products, and accidentally help the climate ? ๐Ÿ˜ƒ

13.03.2025 17:54 ๐Ÿ‘ 1 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0

From the authors of "The trip that could have been a video call" and "The meeting that could have been an email" comes the new great hit:

"The smalltalk that could have been a smile and wave"

12.03.2025 15:55 ๐Ÿ‘ 1 ๐Ÿ” 0 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0
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Genome-scale metabolic modeling of Ruminiclostridium cellulolyticum: a microbial cell factory for valorization of lignocellulosic biomass The development of sustainable biotechnological processes requires a transition from the traditional fermentation of refined substrates towards the valorization of waste materials such as lignocellulo...

Super excited to share the work of one of my first PhD students, Idun Burgos :) An extensively curated GEM for R. cellulolyticum, a promising microbial cell factory to digest lignocellulose.

www.biorxiv.org/content/10.1...

11.03.2025 10:02 ๐Ÿ‘ 2 ๐Ÿ” 2 ๐Ÿ’ฌ 0 ๐Ÿ“Œ 0

Ping

13.01.2025 14:01 ๐Ÿ‘ 1 ๐Ÿ” 0 ๐Ÿ’ฌ 1 ๐Ÿ“Œ 0