DT4H_CardioBERTa_parents_es_enriched is a Spanish biomedical terminology encoder for clinical concept normalization and entity linking. It is initialized from [DT4H/CardioBERTa.es] and specialized using CUI-supervised terminology pairs and metric learning.

Backbone

The backbone belongs to the CardioBERTa family from CardioLM - a multilingual suite of small language models for the cardiology domain. CardioBERTa comprises language-specific encoder models adapted to cardiology through continued pretraining on monolingual biomedical and cardiology-related corpora using Masked Language Modeling (MLM). The family covers Czech, Dutch, English, Italian, Romanian, Spanish and Swedish.

Training


Language	Spanish (`es`)
Triplet collection	`enriched`
Strategy	`parents`
Objective	Multi-Similarity Loss
Mining	All triplets, margin 0.2
Pooling	CLS
Epochs	1
Batch size	256
Learning rate	2e-5
Max. length	25

CUI-supervised terminology pairs enriched with parent-level ontology relations.

Terminology statistics

Strategy	Triplets	CUIs	Unique terms	Unique positives	Terms/CUI	Δ terms
synonyms	83,752	83,752	159,688	83,570	1.93	0
parents	1,696,740	476,638	545,019	418,108	3.97	+385,331
grandparents	4,944,387	476,973	545,308	468,287	9.91	+385,620

This model uses 1,696,740 triplets, covering 476,638 CUIs and 545,019 unique normalized terms.

The training terminology is not distributed with this repository because it contains resources subject to UMLS licensing conditions. Only aggregate statistics are released.

Intended use

The model is intended for terminology embedding, biomedical candidate retrieval, concept normalization and entity linking, particularly in cardiology and clinical NLP pipelines. It is not intended for direct clinical decision-making.

Usage

python

import torch
import torch.nn.functional as F
from transformers import AutoModel, AutoTokenizer

model_id = "DT4H/DT4H_CardioBERTa_parents_es_enriched"

tokenizer = AutoTokenizer.from_pretrained(model_id)
model = AutoModel.from_pretrained(model_id)

inputs = tokenizer(
    "clinical concept",
    return_tensors="pt",
    truncation=True,
    max_length=25,
)

with torch.no_grad():
    output = model(**inputs)

embedding = F.normalize(
    output.last_hidden_state[:, 0, :],
    p=2,
    dim=1,
)

Reference

Danu et al. CardioLM - a multilingual suite of small language models for the cardiology domain.

Developed within the DataTools4Heart (DT4H) project, Grant Agreement 101057849.

DT4H/CardioBERTa.es_P_enriched

DT4H_CardioBERTa_parents_es_enriched