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data/embeddings/probe_mut2vec/README.md
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# Embedding name: PROBE-MUT2VEC
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- Modality: Protein-associated representation
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- Algorithm: Official PROBE human UniProt representation table, standardized by UniProt-to-master mapping
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- Embedding source URL: https://huggingface.co/spaces/HUBioDataLab/PROBE
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- Original model/code URL: https://github.com/HUBioDataLab/PROBE
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This is a Mut2Vec protein-associated representation from the PROBE archive.
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The source file used for this component was `MUT2VEC_UNIPROT_HUMAN.csv` from the official PROBE human UniProt representation archive.
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### Provenance fields
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Cleaned UniProt accessions were mapped to master_gene_table.csv using `uniprot_id`, `hgnc_uniprot_ids`, and `map_uniprot_ids_all`. Only unique UniProt-to-master mappings were accepted. Ambiguous UniProt accessions were excluded. Duplicate source proteins mapping to the same final master-table gene were averaged within that gene.
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The exact underlying UniProt/protein sequence database snapshot is inherited from the PROBE archive and should be checked against the official PROBE release documentation if a strict sequence-database timestamp is required.
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### Processing workflow
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For this PROBE embedding:
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### Important implementation decisions
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The PROBE vectors were taken directly from the official archive rather than recomputed. This keeps the PROBE batch aligned with the released human UniProt representation files.
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All PROBE embeddings use the same mapping logic, so differences between PROBE outputs reflect the source representation type rather than different gene-mapping rules.
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### Summary of final mapping:
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# Embedding name: PROBE-MUT2VEC
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- Modality: Protein-associated representation
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- Embedding source URL: https://huggingface.co/spaces/HUBioDataLab/PROBE
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- Original model/code URL: https://github.com/HUBioDataLab/PROBE
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This is a Mut2Vec protein-associated representation from the PROBE archive.
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The source file used for this component was `MUT2VEC_UNIPROT_HUMAN.csv` from the official PROBE human UniProt representation archive.
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### Provenance fields
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Cleaned UniProt accessions were mapped to master_gene_table.csv using `uniprot_id`, `hgnc_uniprot_ids`, and `map_uniprot_ids_all`. Only unique UniProt-to-master mappings were accepted. Ambiguous UniProt accessions were excluded. Duplicate source proteins mapping to the same final master-table gene were averaged within that gene.
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### Processing workflow
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For this PROBE embedding:
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### Important implementation decisions
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All PROBE embeddings use the same mapping logic, so differences between PROBE outputs reflect the source representation type rather than different gene-mapping rules.
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### Summary of final mapping:
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