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A recent paper "Deep learning reveals antimicrobial peptides within prions" inspired me to curate a dataset of 🧬 sequences tagged 'prion' on the NCBI website. For a link to the paper and more information: scarysnake/prion-fasta
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PatchDNA, a DNA foundation model based on Meta's BLT tokenization strategy https://www.biorxiv.org/content/10.1101/2025.11.28.691095v1
monsoon-nlp
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Bio LLMs train on many genomes, but can we encode differences within a species? TomatoTomato adds pangenome tokens to represent a domestic tomato and a wild tomato in one sequence 🍅 🧬
monsoon-nlp/tomatotomato-gLM2-150M-v0.1
monsoon-nlp/tomatotomato-gLM2-150M-v0.1
Models stop describing their architecture and limits challenge
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Add new models
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I was curious about the Block Diffusion hybrid model and tried retraining it on a DNA tokenizer + dataset 🧬. Too early to evaluate, but it generates sequences (AAATGG TTATTG CAAATC...) and was improving on the validation set during training
Model: monsoon-nlp/dna-blockdiff-papaya
Original paper: Block Diffusion: Interpolating Between Autoregressive and Diffusion Language Models (2503.09573)
Model: monsoon-nlp/dna-blockdiff-papaya
Original paper: Block Diffusion: Interpolating Between Autoregressive and Diffusion Language Models (2503.09573)
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Genetic counselors help patients get 🧬 tests and understand their results. They need to study inheritance of several conditions, statistics, and patient care 🤓⚕️. I compiled 225 multiple-choice questions for the ABGC exam into a dataset: monsoon-nlp/genetic-counselor-multiple-choice
Llama 3.1 8B Instruct gets a 51% score.
I'm also creating a dataset of real-world open-ended questions (starting with Reddit) and am open to contributors
Llama 3.1 8B Instruct gets a 51% score.
I'm also creating a dataset of real-world open-ended questions (starting with Reddit) and am open to contributors
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