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mmhamdy 
posted an update about 4 hours ago
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It was supposed to be a failed experiment. Instead, it led to the discovery of one of the most intriguing phenomena in neural networks, simply because a researcher forgot to turn it off and left it running....for a week!

In 2022, researchers at OpenAI were studying how neural networks generalize from their training data. For this task, they were training small transformer models to perform modular arithmetic.

The thing is, neural networks are weird. When a model has an abundance of parameters (like neural nets), it can easily overfit. It essentially memorizes its training data, scoring a perfect 100% accuracy when tested on it, but remains completely clueless when faced with any new instances not present in the training set (close to 0 accuracy). It is like memorizing 1 + 2 = 3 without understanding the concept of addition, so if 2 + 3 wasn't in the training set, the model fails miserably!

Usually, when a model overfits like this, people just cut their losses, turn off the experiment, and move on with their lives.

But sometimes they forget. And that is exactly what happened to our researchers at OpenAI. A week later, they checked back in, and a miracle had happened!

They discovered Grokking (And no, this has nothing to do with xAI's Grok , the term was originally coined by sci-fi author Robert Heinlein to mean understanding something so deeply that it becomes part of you). Grokking is when a neural network suddenly and abruptly learns to generalize long after it has overfitted. Just take a look at the graph in the image below!

Spooky, right! I told you neural nets are weird!
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mmhamdy 
posted an update 3 days ago
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Human brains don't recreate every pixel to understand the world!

Most current models in genomics, proteomics, and single-cell transcriptomics rely on generative objectives like masked language modeling or next token prediction. While effective, these architectures waste significant capacity reconstructing raw, noisy sequence details that may not carry functional biological meaning.

But a promising, more efficient alternative is emerging: Joint-Embedding Predictive Architecture (JEPA)

Originally introduced by Yann LeCun for computer vision, JEPA is a non-generative, self-supervised learning (SSL) framework. Instead of predicting raw inputs, it operates as a world model that predicts abstract semantic embeddings in latent space.

Recently, the JEPA framework (and its more efficient LeJEPA variant) has been adapted into the biological sciences to develop performing foundation models and to improve on already existing ones.

It's interesting how each adaptation modified and tailored JEPA to suit its specific biological domain, whether by experimenting with different backbones or complementing the objective with other loss terms.

For example, JEPA-DNA and ProteinJEPA used JEPA as a continual pre-training framework to enhance existing foundation models without training from scratch, while Cell-JEPA and JEPA-DNA employed a hybrid objective that combines the JEPA loss with a traditional language modeling loss.

The article below provides an overview of these implementations, along with others that came out this year. As always, your thoughts and feedback are welcome and highly appreciated!

Link to the article is in the first comment 👇
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mmhamdy 
posted an update 11 days ago
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Things rarely go as we expect!

In 2017, Google released the Transformer architecture. While it was clear the model was promising, absolutely no one (including its authors) anticipated the pervasive global revolution it would create!

The authors actually viewed the Transformer as just a stepping stone for a much more ambitious project: The MultiModel.

Their ultimate goal was to build a single deep learning architecture capable of jointly learning massive, diverse tasks across entirely different domains (in 2017). A One Model To Learn Them All.

In fact, the MultiModel paper was published in the exact same month as Attention Is All You Need!

But history had other plans. The building block eclipsed the grand design!

So, have you heard about the MultiModel before? 😀
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