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add notes to gene embedding benchmark
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szalata authored Dec 19, 2024
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omic_modalities: Natural Language, scRNAseq, protein sequence, DNA sequence
evaluated_transformers: Mistral, MPnet, CellPLM, GeneFormer, scGPT, DNABert2, ESM (plus bag-of-words, gene2vec)
tasks: genomic properties, gene regulatory functions, gene localization, gene biological processes, protein properties
notes: '-'
notes: 'Evaluating model performance using gene embeddings allows comparing models utilizing different data modalities. The performance profile of a diverse set of models across ~300 gene related tasks was shown to be most influenced by the training modality.'
- paper:
type: preprint
text: '[Ahlmann-Eltze et al. 2024](https://www.biorxiv.org/content/10.1101/2024.09.16.613342)'
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