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Sergey Ovchinnikov
@sokrypton.org
Scientist, Assistant Professor at MIT biology, #FirstGen
480 followers249 following59 posts
SOsokrypton.org

Isn't this a second time a historic building went up in flames after someone decided to renovate? Not sure if this is correlation or causation, but I reckon we ought to stop renovating historic buildings until we get to the bottom of this. 🤔

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Reposted by Sergey Ovchinnikov
KLlindorfflarsen.bsky.social
Reposted by Sergey Ovchinnikov
KKkevinkaichuang.bsky.social

A completely unsupervised way of extracting contact maps from protein language models helps demonstrate that pLMs learn structure by storing motifs of pairwise contacts. @sokrypton.orgwww.biorxiv.org/content/10.1...

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SOsokrypton.org

Writing a rebuttal... Finally figured out what the authors did wrong to get conflicting results. 😂

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SOsokrypton.org

And this is why it's important to have controls in computational sciences... Even things as basic as numpy can be silently broken and give you the wrong results... 😬 (For those that are curious this was the default lambdalabs cloud instance setup)

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reinstalling libopenblas/numpy fixed the problem! sudo apt-get -y autoremove --purge 'libopenblas*' sudo apt-get -y install libopenblas-base pip install --upgrade --force-reinstall numpy thanks to Yaroslav Bulatov for pointing out that numpy could be using different backend versions.

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SOsokrypton.org

This appears computer specific... doing same test on a different CPU, all is fine 😬 This is a little concerning...

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SOsokrypton.org

Since when is the inverse of a symmetric matrix asymmetric? 🧐

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SOsokrypton.org

No, it was just a random thought 🤔 as I was walking my dog 🐕 this morning. I was just thinking, the really "smart" plagiarizers would just do a better job at paraphrasing, and a simple text matching method would not be able to detect this.

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SOsokrypton.org

I guess the technical term is "Paraphrasing plagiarism" meaning rephrasing someone else’s ideas to present them as your own. These are the instances I'm more worried about ... And likely to survive the recent witch-hunt. 😅

Types of plagiarism and how to recognize them
Types of plagiarism and how to recognize them

Plagiarism comes in many forms, some more severe than others—from rephrasing someone’s ideas without acknowledgement to stealing a whole essay. These are

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Sergey Ovchinnikov
@sokrypton.org
Scientist, Assistant Professor at MIT biology, #FirstGen
480 followers249 following59 posts