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{ |
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"padding": null, |
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{ |
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"id": 0, |
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"content": "<UNK>", |
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{ |
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{ |
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"content": "<CLS>", |
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{ |
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"content": "<SEP>", |
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{ |
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"content": "<MASK>", |
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"content": "<EOS>", |
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}, |
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{ |
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"id": 6, |
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{ |
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"content": "<GLOBAL_INTERACTION_ATTRIBUTES>", |
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"rstrip": false, |
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{ |
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"id": 8, |
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"content": "<MOLECULAR_ENTITY_ANTIGEN>", |
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{ |
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"id": 9, |
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"content": "<MOLECULAR_ENTITY_EPITOPE>", |
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{ |
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"content": "<MOLECULAR_ENTITY_ANTIBODY_HEAVY_CHAIN>", |
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}, |
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{ |
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"id": 11, |
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"content": "<MOLECULAR_ENTITY_ANTIBODY_LIGHT_CHAIN>", |
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}, |
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{ |
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"id": 12, |
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"content": "<MOLECULAR_ENTITY_TCR_ALPHA_CHAIN>", |
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{ |
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"content": "<MOLECULAR_ENTITY_TCR_BETA_VDJ>", |
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}, |
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{ |
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"id": 14, |
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"content": "<MOLECULAR_ENTITY_TCR_BETA_CDR3>", |
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"rstrip": false, |
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}, |
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{ |
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"id": 15, |
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"content": "<BINDING_AFFINITY_CLASS>", |
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"single_word": false, |
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}, |
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{ |
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"id": 16, |
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"content": "<DECODER_START>", |
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}, |
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{ |
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"id": 17, |
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"content": "<BINDING>", |
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"rstrip": false, |
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"normalized": false, |
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"special": true |
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{ |
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"content": "<FILLIN>", |
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{ |
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"id": 19, |
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"content": "<REORDER>", |
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{ |
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"content": "<TOAA>", |
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"rstrip": false, |
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"normalized": false, |
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"special": true |
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{ |
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"id": 21, |
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"content": "<ACTIVE>", |
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"single_word": false, |
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"rstrip": false, |
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"special": true |
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}, |
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{ |
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"id": 22, |
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"content": "<GENESEQ>", |
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"lstrip": false, |
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"rstrip": false, |
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{ |
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"id": 23, |
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"content": "<INCREASE>", |
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"rstrip": false, |
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{ |
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"content": "<DECREASE>", |
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{ |
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{ |
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"content": "<DISTANCE>", |
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{ |
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"id": 27, |
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"content": "<SOLUBILITY>", |
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{ |
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"id": 28, |
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"content": "<TOXICITY>", |
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"content": "<ISACTIVE>", |
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"content": "<ISSYNTHETIC>", |
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"content": "<PENETR>", |
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"content": "<DISTRIBUTION>", |
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"content": "<EXCRETION>", |
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"content": "<FLUORESCENCE>", |
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{ |
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"content": "<STABILITY>", |
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{ |
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"id": 69, |
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"content": "<SENTINEL_ID_12>", |
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"content": "<SENTINEL_ID_13>", |
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"content": "<SENTINEL_ID_15>", |
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{ |
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"content": "<SENTINEL_ID_22>", |
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}, |
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{ |
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"content": "<SENTINEL_ID_183>", |
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{ |
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"content": "<SENTINEL_ID_184>", |
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}, |
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{ |
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"content": "<SENTINEL_ID_185>", |
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{ |
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"content": "<SENTINEL_ID_186>", |
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{ |
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"content": "<SENTINEL_ID_187>", |
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}, |
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{ |
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"content": "<SENTINEL_ID_188>", |
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}, |
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{ |
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"content": "<SENTINEL_ID_189>", |
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{ |
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"content": "<SENTINEL_ID_190>", |
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}, |
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{ |
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"content": "<SENTINEL_ID_191>", |
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}, |
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{ |
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"content": "<SENTINEL_ID_192>", |
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|
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}, |
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{ |
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"content": "<SENTINEL_ID_193>", |
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}, |
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{ |
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"content": "<SENTINEL_ID_194>", |
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|
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}, |
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{ |
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"content": "<SENTINEL_ID_195>", |
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|
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|
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}, |
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{ |
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"content": "<SENTINEL_ID_196>", |
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|
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|
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|
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|
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}, |
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{ |
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|
"content": "<SENTINEL_ID_197>", |
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|
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|
"rstrip": false, |
|
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|
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}, |
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{ |
|
"id": 255, |
|
"content": "<SENTINEL_ID_198>", |
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|
"lstrip": false, |
|
"rstrip": false, |
|
"normalized": false, |
|
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}, |
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{ |
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"content": "<SENTINEL_ID_199>", |
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|
"lstrip": false, |
|
"rstrip": false, |
|
"normalized": false, |
|
"special": true |
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}, |
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{ |
|
"id": 257, |
|
"content": "<MOLECULAR_ENTITY_TYPE_ANTIGEN>", |
|
"single_word": false, |
|
"lstrip": false, |
|
"rstrip": false, |
|
"normalized": false, |
|
"special": true |
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}, |
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{ |
|
"id": 258, |
|
"content": "<MOLECULAR_ENTITY_TYPE_ANTIBODY_LIGHT_CHAIN>", |
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"lstrip": false, |
|
"rstrip": false, |
|
"normalized": false, |
|
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}, |
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{ |
|
"id": 259, |
|
"content": "<MOLECULAR_ENTITY_TYPE_ANTIBODY_HEAVY_CHAIN>", |
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"single_word": false, |
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"lstrip": false, |
|
"rstrip": false, |
|
"normalized": false, |
|
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}, |
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{ |
|
"id": 260, |
|
"content": "<ATTRIBUTE_ORGANISM>", |
|
"single_word": false, |
|
"lstrip": false, |
|
"rstrip": false, |
|
"normalized": false, |
|
"special": true |
|
}, |
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{ |
|
"id": 261, |
|
"content": "<ATTRIBUTE_ORGANISM_HUMAN>", |
|
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|
"lstrip": false, |
|
"rstrip": false, |
|
"normalized": false, |
|
"special": true |
|
}, |
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{ |
|
"id": 262, |
|
"content": "<ATTRIBUTE_ORGANISM_RABBIT>", |
|
"single_word": false, |
|
"lstrip": false, |
|
"rstrip": false, |
|
"normalized": false, |
|
"special": true |
|
}, |
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{ |
|
"id": 263, |
|
"content": "<ATTRIBUTE_ORGANISM_RAT>", |
|
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|
"lstrip": false, |
|
"rstrip": false, |
|
"normalized": false, |
|
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|
}, |
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{ |
|
"id": 264, |
|
"content": "<ATTRIBUTE_ORGANISM_MOUSE>", |
|
"single_word": false, |
|
"lstrip": false, |
|
"rstrip": false, |
|
"normalized": false, |
|
"special": true |
|
}, |
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{ |
|
"id": 265, |
|
"content": "<ATTRIBUTE_ORGANISM_MONKEY>", |
|
"single_word": false, |
|
"lstrip": false, |
|
"rstrip": false, |
|
"normalized": false, |
|
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|
}, |
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{ |
|
"id": 266, |
|
"content": "<ATTRIBUTE_ORGANISM_CAMEL>", |
|
"single_word": false, |
|
"lstrip": false, |
|
"rstrip": false, |
|
"normalized": false, |
|
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|
}, |
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{ |
|
"id": 267, |
|
"content": "<EPITOPE_PARATOPE_PREDICTION>", |
|
"single_word": false, |
|
"lstrip": false, |
|
"rstrip": false, |
|
"normalized": false, |
|
"special": true |
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}, |
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{ |
|
"id": 268, |
|
"content": "<MOLECULAR_ENTITY_ANTIBODY_HEAVY_CHAIN_CDR1>", |
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"single_word": false, |
|
"lstrip": false, |
|
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|
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|
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}, |
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{ |
|
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|
"content": "<MOLECULAR_ENTITY_ANTIBODY_LIGHT_CHAIN_CDR3>", |
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"single_word": false, |
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"lstrip": false, |
|
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|
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|
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}, |
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{ |
|
"id": 270, |
|
"content": "<MOLECULAR_ENTITY_ANTIBODY_HEAVY_CHAIN_CDR3>", |
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"single_word": false, |
|
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|
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|
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|
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}, |
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{ |
|
"id": 271, |
|
"content": "<MOLECULAR_ENTITY_ANTIBODY_LIGHT_CHAIN_CDR2>", |
|
"single_word": false, |
|
"lstrip": false, |
|
"rstrip": false, |
|
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|
"special": true |
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}, |
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{ |
|
"id": 272, |
|
"content": "<MOLECULAR_ENTITY_ANTIBODY_HEAVY_CHAIN_CDR2>", |
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"single_word": false, |
|
"lstrip": false, |
|
"rstrip": false, |
|
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}, |
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{ |
|
"id": 273, |
|
"content": "<MOLECULAR_ENTITY_ANTIBODY_LIGHT_CHAIN_CDR1>", |
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|
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|
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|
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}, |
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{ |
|
"id": 274, |
|
"content": "<MOLECULAR_ENTITY_GENERAL_PROTEIN>", |
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|
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}, |
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{ |
|
"id": 275, |
|
"content": "<TIMESTEP>", |
|
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|
"rstrip": false, |
|
"normalized": false, |
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"special": true |
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}, |
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{ |
|
"id": 276, |
|
"content": "<DIFFUSION>", |
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|
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"normalized": false, |
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"special": true |
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}, |
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{ |
|
"id": 277, |
|
"content": "<SEQUENCE_NATURAL_END>", |
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|
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|
"rstrip": false, |
|
"normalized": false, |
|
"special": true |
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}, |
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{ |
|
"id": 278, |
|
"content": "<SMILES_SEQUENCE>", |
|
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|
"lstrip": false, |
|
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|
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}, |
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{ |
|
"id": 279, |
|
"content": "<SELFIES_SEQUENCE>", |
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|
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|
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|
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|
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}, |
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{ |
|
"id": 280, |
|
"content": "<AMINO_ACID_SEQUENCE>", |
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|
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|
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|
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}, |
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{ |
|
"id": 281, |
|
"content": "<GENERAL_AFFINITY_CLASS>", |
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|
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|
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}, |
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{ |
|
"id": 282, |
|
"content": "<BACKSPACE>", |
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|
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|
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}, |
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{ |
|
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|
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}, |
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{ |
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"id": 284, |
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"content": "<NOOP>", |
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|
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}, |
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{ |
|
"id": 285, |
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"content": "<TARGETED_ANTIBODY_DESIGN_ENCODER_ONLY_MODE>", |
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}, |
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{ |
|
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"content": "<MOLECULAR_ENTITY_SMALL_MOLECULE>", |
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}, |
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{ |
|
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}, |
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{ |
|
"id": 288, |
|
"content": "<CELL_TYPE_CLASS>", |
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|
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|
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}, |
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{ |
|
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}, |
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{ |
|
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}, |
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{ |
|
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"content": "<MOLECULAR_ENTITY_MUTATED_PROTEIN_CHAIN>", |
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|
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|
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|
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}, |
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{ |
|
"id": 293, |
|
"content": "<MOLECULAR_ENTITY_PROTEIN_CHAIN>", |
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|
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|
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}, |
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{ |
|
"id": 294, |
|
"content": "<COMPLEX_ENTITY>", |
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|
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}, |
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{ |
|
"id": 295, |
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"content": "<ALTERNATIVE>", |
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|
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|
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}, |
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{ |
|
"id": 296, |
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"content": "<CDR3_REGION>", |
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|
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}, |
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{ |
|
"id": 297, |
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"content": "<GENERAL_CHAIN>", |
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|
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}, |
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{ |
|
"id": 298, |
|
"content": "<SUBMOLECULAR_ENTITY>", |
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|
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|
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}, |
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{ |
|
"id": 299, |
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"content": "<MUTATED>", |
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}, |
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{ |
|
"id": 300, |
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"content": "<MOLECULAR_ENTITY_TCR_ALPHA_CDR3>", |
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{ |
|
"id": 301, |
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{ |
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"id": 302, |
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"content": "<MOLECULAR_ENTITY_TCR_GAMMA_CDR3>", |
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}, |
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{ |
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}, |
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{ |
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"id": 305, |
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}, |
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{ |
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"content": "<VECTOR>", |
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}, |
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{ |
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"id": 307, |
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"content": "<MASKED_SCALAR>", |
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{ |
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"content": "<MASKED_VECTOR>", |
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}, |
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{ |
|
"id": 309, |
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"content": "<AUTOENCODER_LATENT_LOG_VARIANCE>", |
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}, |
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{ |
|
"id": 310, |
|
"content": "<AUTOENCODER_LATENT_MEAN>", |
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|
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|
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}, |
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{ |
|
"id": 311, |
|
"content": "<AUTOENCODER_LATENT_SAMPLED_Z>", |
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|
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|
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|
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}, |
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{ |
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"id": 312, |
|
"content": "<AUTOENCODER_TASK>", |
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}, |
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{ |
|
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"content": "<DECODED_FROM_LATENT>", |
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} |
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], |
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"type": "Sequence", |
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"pretokenizers": [ |
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{ |
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"type": "Split", |
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"pattern": { |
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"Regex": "<.*?>|\\[.*?\\]|\\S" |
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}, |
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"behavior": "Removed", |
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} |
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] |
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}, |
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"type": "WordLevel", |
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