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ashercn97/
medical-v003

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SentenceTransformer based on ashercn97/medicalai_ClinicalBERT-2025-04-11_22-11-59

This is a sentence-transformers model finetuned from ashercn97/medicalai_ClinicalBERT-2025-04-11_22-11-59. It maps sentences & paragraphs to a 768-dimensional dense vector space and can be used for semantic textual similarity, semantic search, paraphrase mining, text classification, clustering, and more.

Model Details

Model Description

Model Type: Sentence Transformer
Base model: ashercn97/medicalai_ClinicalBERT-2025-04-11_22-11-59
Maximum Sequence Length: 512 tokens
Output Dimensionality: 768 dimensions
Similarity Function: Cosine Similarity

Model Sources

Documentation: Sentence Transformers Documentation
Repository: Sentence Transformers on GitHub
Hugging Face: Sentence Transformers on Hugging Face

Full Model Architecture

SentenceTransformer(
  (0): Transformer({'max_seq_length': 512, 'do_lower_case': False}) with Transformer model: DistilBertModel 
  (1): Pooling({'word_embedding_dimension': 768, 'pooling_mode_cls_token': False, 'pooling_mode_mean_tokens': True, 'pooling_mode_max_tokens': False, 'pooling_mode_mean_sqrt_len_tokens': False, 'pooling_mode_weightedmean_tokens': False, 'pooling_mode_lasttoken': False, 'include_prompt': False})
)

Usage

Direct Usage (Sentence Transformers)

First install the Sentence Transformers library:

pip install -U sentence-transformers

Then you can load this model and run inference.

python

from sentence_transformers import SentenceTransformer

# Download from the 🤗 Hub
model = SentenceTransformer("ashercn97/medical-v003")
# Run inference
sentences = [
    'description: Bronchiectasis',
    'description: Bronchiectasis, uncomplicated',
    'description: Acute on chronic systolic (congestive) heart failure',
]
embeddings = model.encode(sentences)
print(embeddings.shape)
# [3, 768]

# Get the similarity scores for the embeddings
similarities = model.similarity(embeddings, embeddings)
print(similarities.shape)
# [3, 3]

Training Details

Training Dataset

Unnamed Dataset

Size: 389,269 training samples
Columns: primary_code and description
Approximate statistics based on the first 1000 samples:
primary_code description
type string string
details
min: 5 tokens
mean: 7.63 tokens
max: 27 tokens
min: 6 tokens
mean: 16.73 tokens
max: 69 tokens
Samples:
primary_code description
code: 137120 description: RADIAL HEAD MOD 10X22MM
description: LVEF 50-55% description: Unspecified systolic (congestive) heart failure
code: 510347 description: MAG-AL UD (MAALOX)
Loss: MultipleNegativesRankingLoss with these parameters:
json
1{ 2 "scale": 20.0, 3 "similarity_fct": "cos_sim" 4}

Evaluation Dataset

Unnamed Dataset

Size: 10,000 evaluation samples
Columns: primary_code and description
Approximate statistics based on the first 1000 samples:
primary_code description
type string string
details
min: 5 tokens
mean: 7.67 tokens
max: 37 tokens
min: 5 tokens
mean: 16.22 tokens
max: 64 tokens

Samples:

primary_code	description
`description: Psoriasis`	`description: Psoriasis, unspecified`
`description: Hodgkin Lymphoma`	`description: Hodgkin lymphoma, unspecified, unspecified site`
`description: Cancer-related pain control plan`	`description: Neoplasm related pain (acute) (chronic)`

Loss: MultipleNegativesRankingLoss with these parameters:
json
1{ 2 "scale": 20.0, 3 "similarity_fct": "cos_sim" 4}

Training Hyperparameters

Non-Default Hyperparameters

eval_strategy: steps
per_device_train_batch_size: 512
per_device_eval_batch_size: 512
learning_rate: 2e-05
weight_decay: 0.01
num_train_epochs: 2
lr_scheduler_type: cosine
warmup_ratio: 0.1
seed: 12
bf16: True
dataloader_num_workers: 64
dataloader_prefetch_factor: 5
batch_sampler: no_duplicates

All Hyperparameters

Click to expand

overwrite_output_dir: False
do_predict: False
eval_strategy: steps
prediction_loss_only: True
per_device_train_batch_size: 512
per_device_eval_batch_size: 512
per_gpu_train_batch_size: None
per_gpu_eval_batch_size: None
gradient_accumulation_steps: 1
eval_accumulation_steps: None
torch_empty_cache_steps: None
learning_rate: 2e-05
weight_decay: 0.01
adam_beta1: 0.9
adam_beta2: 0.999
adam_epsilon: 1e-08
max_grad_norm: 1.0
num_train_epochs: 2
max_steps: -1
lr_scheduler_type: cosine
lr_scheduler_kwargs: {}
warmup_ratio: 0.1
warmup_steps: 0
log_level: passive
log_level_replica: warning
log_on_each_node: True
logging_nan_inf_filter: True
save_safetensors: True
save_on_each_node: False
save_only_model: False
restore_callback_states_from_checkpoint: False
no_cuda: False
use_cpu: False
use_mps_device: False
seed: 12
data_seed: None
jit_mode_eval: False
use_ipex: False
bf16: True
fp16: False
fp16_opt_level: O1
half_precision_backend: auto
bf16_full_eval: False
fp16_full_eval: False
tf32: None
local_rank: 0
ddp_backend: None
tpu_num_cores: None
tpu_metrics_debug: False
debug: []
dataloader_drop_last: False
dataloader_num_workers: 64
dataloader_prefetch_factor: 5
past_index: -1
disable_tqdm: False
remove_unused_columns: True
label_names: None
load_best_model_at_end: False
ignore_data_skip: False
fsdp: []
fsdp_min_num_params: 0
fsdp_config: {'min_num_params': 0, 'xla': False, 'xla_fsdp_v2': False, 'xla_fsdp_grad_ckpt': False}
tp_size: 0
fsdp_transformer_layer_cls_to_wrap: None
accelerator_config: {'split_batches': False, 'dispatch_batches': None, 'even_batches': True, 'use_seedable_sampler': True, 'non_blocking': False, 'gradient_accumulation_kwargs': None}
deepspeed: None
label_smoothing_factor: 0.0
optim: adamw_torch
optim_args: None
adafactor: False
group_by_length: False
length_column_name: length
ddp_find_unused_parameters: None
ddp_bucket_cap_mb: None
ddp_broadcast_buffers: False
dataloader_pin_memory: True
dataloader_persistent_workers: False
skip_memory_metrics: True
use_legacy_prediction_loop: False
push_to_hub: False
resume_from_checkpoint: None
hub_model_id: None
hub_strategy: every_save
hub_private_repo: None
hub_always_push: False
gradient_checkpointing: False
gradient_checkpointing_kwargs: None
include_inputs_for_metrics: False
include_for_metrics: []
eval_do_concat_batches: True
fp16_backend: auto
push_to_hub_model_id: None
push_to_hub_organization: None
mp_parameters:
auto_find_batch_size: False
full_determinism: False
torchdynamo: None
ray_scope: last
ddp_timeout: 1800
torch_compile: False
torch_compile_backend: None
torch_compile_mode: None
include_tokens_per_second: False
include_num_input_tokens_seen: False
neftune_noise_alpha: None
optim_target_modules: None
batch_eval_metrics: False
eval_on_start: False
use_liger_kernel: False
eval_use_gather_object: False
average_tokens_across_devices: False
prompts: None
batch_sampler: no_duplicates
multi_dataset_batch_sampler: proportional

Training Logs

Click to expand

Epoch	Step	Training Loss	Validation Loss
0.0013	1	5.8248	-
0.0066	5	5.7392	-
0.0131	10	5.7616	-
0.0197	15	5.771	-
0.0263	20	5.738	-
0.0329	25	5.6972	-
0.0394	30	5.6486	-
0.0460	35	5.4818	-
0.0526	40	5.3395	-
0.0591	45	5.3319	-
0.0657	50	5.0993	1.5206
0.0723	55	5.0328	-
0.0788	60	4.9303	-
0.0854	65	4.8829	-
0.0920	70	4.8534	-
0.0986	75	4.7204	-
0.1051	80	4.6473	-
0.1117	85	4.5718	-
0.1183	90	4.5464	-
0.1248	95	4.5003	-
0.1314	100	4.4006	1.2175
0.1380	105	4.3973	-
0.1445	110	4.3876	-
0.1511	115	4.2815	-
0.1577	120	4.2261	-
0.1643	125	4.2256	-
0.1708	130	4.0866	-
0.1774	135	4.1415	-
0.1840	140	4.0636	-
0.1905	145	3.993	-
0.1971	150	3.9825	1.0376
0.2037	155	3.9345	-
0.2102	160	3.8686	-
0.2168	165	3.8343	-
0.2234	170	3.8011	-
0.2300	175	3.8103	-
0.2365	180	3.7799	-
0.2431	185	3.7414	-
0.2497	190	3.7447	-
0.2562	195	3.7346	-
0.2628	200	3.622	0.9137
0.2694	205	3.6555	-
0.2760	210	3.5778	-
0.2825	215	3.6234	-
0.2891	220	3.4653	-
0.2957	225	3.5705	-
0.3022	230	3.6318	-
0.3088	235	3.5244	-
0.3154	240	3.4487	-
0.3219	245	3.4906	-
0.3285	250	3.5459	0.8556
0.3351	255	3.3821	-
0.3417	260	3.4249	-
0.3482	265	3.4054	-
0.3548	270	3.4558	-
0.3614	275	3.3719	-
0.3679	280	3.2999	-
0.3745	285	3.3562	-
0.3811	290	3.3306	-
0.3876	295	3.2987	-
0.3942	300	3.2789	0.8102
0.4008	305	3.3221	-
0.4074	310	3.259	-
0.4139	315	3.2014	-
0.4205	320	3.1932	-
0.4271	325	3.2654	-
0.4336	330	3.1644	-
0.4402	335	3.2603	-
0.4468	340	3.2053	-
0.4534	345	3.1934	-
0.4599	350	3.138	0.7800
0.4665	355	3.108	-
0.4731	360	3.1663	-
0.4796	365	3.0978	-
0.4862	370	3.0882	-
0.4928	375	3.0992	-
0.4993	380	3.1188	-
0.5059	385	3.0937	-
0.5125	390	3.0411	-
0.5191	395	3.0851	-
0.5256	400	2.9981	0.7582
0.5322	405	3.0407	-
0.5388	410	2.9823	-
0.5453	415	3.0702	-
0.5519	420	3.0528	-
0.5585	425	3.0542	-
0.5650	430	3.0114	-
0.5716	435	2.9981	-
0.5782	440	2.9551	-
0.5848	445	2.9857	-
0.5913	450	2.9816	0.7337
0.5979	455	2.9808	-
0.6045	460	3.001	-
0.6110	465	2.9569	-
0.6176	470	2.9685	-
0.6242	475	2.8984	-
0.6307	480	2.8961	-
0.6373	485	2.9701	-
0.6439	490	2.8576	-
0.6505	495	2.9435	-
0.6570	500	2.9025	0.7270
0.6636	505	2.9408	-
0.6702	510	2.9115	-
0.6767	515	2.8296	-
0.6833	520	2.8089	-
0.6899	525	2.8953	-
0.6965	530	2.878	-
0.7030	535	2.8488	-
0.7096	540	2.8499	-
0.7162	545	2.7698	-
0.7227	550	2.8673	0.7193
0.7293	555	2.8058	-
0.7359	560	2.8479	-
0.7424	565	2.7514	-
0.7490	570	2.8213	-
0.7556	575	2.8438	-
0.7622	580	2.7368	-
0.7687	585	2.7612	-
0.7753	590	2.8911	-
0.7819	595	2.7759	-
0.7884	600	2.7618	0.6923
0.7950	605	2.7429	-
0.8016	610	2.7693	-
0.8081	615	2.7278	-
0.8147	620	2.8094	-
0.8213	625	2.7303	-
0.8279	630	2.7333	-
0.8344	635	2.6704	-
0.8410	640	2.75	-
0.8476	645	2.7469	-
0.8541	650	2.7348	0.6816
0.8607	655	2.7615	-
0.8673	660	2.7722	-
0.8739	665	2.765	-
0.8804	670	2.7235	-
0.8870	675	2.668	-
0.8936	680	2.7102	-
0.9001	685	2.7256	-
0.9067	690	2.7451	-
0.9133	695	2.1618	-
0.9198	700	1.3555	0.6804
0.9264	705	1.493	-
0.9330	710	1.3587	-
0.9396	715	1.3546	-
0.9461	720	1.3266	-
0.9527	725	1.3071	-
0.9593	730	1.2159	-
0.9658	735	1.376	-
0.9724	740	1.2715	-
0.9790	745	1.4462	-
0.9855	750	1.3423	0.6624
0.9921	755	1.3689	-
0.9987	760	1.3903	-
1.0053	765	2.43	-
1.0118	770	2.6936	-
1.0184	775	2.6122	-
1.0250	780	2.6665	-
1.0315	785	2.5816	-
1.0381	790	2.6004	-
1.0447	795	2.5618	-
1.0512	800	2.5187	0.6604
1.0578	805	2.559	-
1.0644	810	2.6416	-
1.0710	815	2.5599	-
1.0775	820	2.5993	-
1.0841	825	2.6176	-
1.0907	830	2.6315	-
1.0972	835	2.5305	-
1.1038	840	2.5624	-
1.1104	845	2.5767	-
1.1170	850	2.5543	0.6536
1.1235	855	2.5607	-
1.1301	860	2.5992	-
1.1367	865	2.6229	-
1.1432	870	2.597	-
1.1498	875	2.6013	-
1.1564	880	2.5763	-
1.1629	885	2.6565	-
1.1695	890	2.5783	-
1.1761	895	2.5474	-
1.1827	900	2.5754	0.6460
1.1892	905	2.5905	-
1.1958	910	2.6075	-
1.2024	915	2.5284	-
1.2089	920	2.6113	-
1.2155	925	2.5301	-
1.2221	930	2.5992	-
1.2286	935	2.5951	-
1.2352	940	2.5554	-
1.2418	945	2.5287	-
1.2484	950	2.4902	0.6411
1.2549	955	2.5829	-
1.2615	960	2.4933	-
1.2681	965	2.5032	-
1.2746	970	2.579	-
1.2812	975	2.5702	-
1.2878	980	2.5115	-
1.2943	985	2.5074	-
1.3009	990	2.5588	-
1.3075	995	2.4964	-
1.3141	1000	2.4969	0.6405
1.3206	1005	2.5437	-
1.3272	1010	2.5002	-
1.3338	1015	2.5195	-
1.3403	1020	2.5596	-
1.3469	1025	2.4809	-
1.3535	1030	2.5545	-
1.3601	1035	2.5403	-
1.3666	1040	2.538	-
1.3732	1045	2.5768	-
1.3798	1050	2.5246	0.6392
1.3863	1055	2.5714	-
1.3929	1060	2.4998	-
1.3995	1065	2.4409	-
1.4060	1070	2.4343	-
1.4126	1075	2.4988	-
1.4192	1080	2.519	-
1.4258	1085	2.5475	-
1.4323	1090	2.5481	-
1.4389	1095	2.5262	-
1.4455	1100	2.5288	0.6356
1.4520	1105	2.4489	-
1.4586	1110	2.5134	-
1.4652	1115	2.5466	-
1.4717	1120	2.5953	-
1.4783	1125	2.5048	-
1.4849	1130	2.5482	-
1.4915	1135	2.5035	-
1.4980	1140	2.4865	-
1.5046	1145	2.436	-
1.5112	1150	2.5097	0.6339
1.5177	1155	2.4402	-
1.5243	1160	2.5121	-
1.5309	1165	2.5289	-
1.5375	1170	2.4334	-
1.5440	1175	2.5176	-
1.5506	1180	2.4507	-
1.5572	1185	2.5162	-
1.5637	1190	2.4426	-
1.5703	1195	2.4526	-
1.5769	1200	2.4578	0.6315
1.5834	1205	2.4775	-
1.5900	1210	2.4659	-
1.5966	1215	2.4884	-
1.6032	1220	2.4713	-
1.6097	1225	2.4861	-
1.6163	1230	2.4817	-
1.6229	1235	2.4861	-
1.6294	1240	2.4207	-
1.6360	1245	2.5191	-
1.6426	1250	2.5891	0.6282
1.6491	1255	2.4916	-
1.6557	1260	2.4456	-
1.6623	1265	2.4901	-
1.6689	1270	2.5061	-
1.6754	1275	2.5172	-
1.6820	1280	2.4396	-
1.6886	1285	2.5093	-
1.6951	1290	2.4524	-
1.7017	1295	2.4564	-
1.7083	1300	2.48	0.6263
1.7148	1305	2.4826	-
1.7214	1310	2.4376	-
1.7280	1315	2.4966	-
1.7346	1320	2.4468	-
1.7411	1325	2.5125	-
1.7477	1330	2.401	-
1.7543	1335	2.5318	-
1.7608	1340	2.4687	-
1.7674	1345	2.5803	-
1.7740	1350	2.4707	0.6253
1.7806	1355	2.4686	-
1.7871	1360	2.4372	-
1.7937	1365	2.4549	-
1.8003	1370	2.4697	-
1.8068	1375	2.4849	-
1.8134	1380	2.3773	-
1.8200	1385	2.4402	-
1.8265	1390	2.4962	-
1.8331	1395	2.4085	-
1.8397	1400	2.5318	0.6247
1.8463	1405	2.5119	-
1.8528	1410	2.5209	-
1.8594	1415	2.4548	-
1.8660	1420	2.4803	-
1.8725	1425	2.4829	-
1.8791	1430	2.4629	-
1.8857	1435	2.5106	-
1.8922	1440	2.4612	-
1.8988	1445	2.5666	-
1.9054	1450	2.4677	0.6243
1.9120	1455	2.2826	-
1.9185	1460	1.2653	-
1.9251	1465	1.1973	-
1.9317	1470	1.2686	-
1.9382	1475	1.3213	-
1.9448	1480	1.1828	-
1.9514	1485	1.3756	-
1.9580	1490	1.276	-
1.9645	1495	1.1679	-
1.9711	1500	1.1197	0.6244
1.9777	1505	1.3336	-
1.9842	1510	1.2969	-
1.9908	1515	1.1702	-
1.9974	1520	1.0661	-

Framework Versions

Python: 3.10.12
Sentence Transformers: 4.0.2
Transformers: 4.51.2
PyTorch: 2.6.0
Accelerate: 1.6.0
Datasets: 3.5.0
Tokenizers: 0.21.1

Citation

BibTeX

Sentence Transformers

bibtex

@inproceedings{reimers-2019-sentence-bert,
    title = "Sentence-BERT: Sentence Embeddings using Siamese BERT-Networks",
    author = "Reimers, Nils and Gurevych, Iryna",
    booktitle = "Proceedings of the 2019 Conference on Empirical Methods in Natural Language Processing",
    month = "11",
    year = "2019",
    publisher = "Association for Computational Linguistics",
    url = "https://arxiv.org/abs/1908.10084",
}

MultipleNegativesRankingLoss

bibtex

@misc{henderson2017efficient,
    title={Efficient Natural Language Response Suggestion for Smart Reply},
    author={Matthew Henderson and Rami Al-Rfou and Brian Strope and Yun-hsuan Sung and Laszlo Lukacs and Ruiqi Guo and Sanjiv Kumar and Balint Miklos and Ray Kurzweil},
    year={2017},
    eprint={1705.00652},
    archivePrefix={arXiv},
    primaryClass={cs.CL}
}

	primary_code	description
type	string	string
details	min: 5 tokens mean: 7.63 tokens max: 27 tokens	min: 6 tokens mean: 16.73 tokens max: 69 tokens

primary_code	description
`code: 137120`	`description: RADIAL HEAD MOD 10X22MM`
`description: LVEF 50-55%`	`description: Unspecified systolic (congestive) heart failure`
`code: 510347`	`description: MAG-AL UD (MAALOX)`