Model: jo-mengr/mmcontext-pubmedbert-gs10k
Author: jo-mengr
Pipeline: sentence-similarity
Library: sentence-transformers
Tags: sentence-transformers, safetensors, sentence-similarity, feature-extraction, dense, generated_from_trainer, dataset_size:654049, loss:PerDatasetLossLogger, code, dataset:jo-mengr/cxg_pseudo_bulk_full_nxc, dataset:jo-mengr/geo_schaefer_half, arxiv:1908.10084, base_model:NeuML/pubmedbert-base-embeddings, base_model:finetune:NeuML/pubmedbert-base-embeddings, model-index, endpoints_compatible, region:us
Base models (finetune): id: NeuML/pubmedbert-base-embeddings
Card metadata: language: code
tags: sentence-transformers, sentence-similarity, feature-extraction, dense, generated_from_trainer, dataset_size:654049, loss:PerDatasetLossLogger
base_model: NeuML/pubmedbert-base-embeddings
widget: source_sentence: sample_idx:SRX956540
sentences: This measurement was conducted with Illumina HiSeq 2500. Primary neutrophil cells obtained from a healthy adult male., This measurement was conducted with Illumina HiSeq 2000. 1000 ng of fragmented total RNA from a cultured chronic myelogenous leukemia (CML) cell line (K-562) derived from a female hematological system disease (CML). The cells were grown in tissue culture and have undergone Ribo-Zero treatment., sample_idx:SRX185895, source_sentence: sample_idx:SRX825433
sentences: This measurement was conducted with Illumina HiSeq 2000. 1000 ng of fragmented total RNA from a cultured chronic myelogenous leukemia (CML) cell line (K-562) derived from a female hematological system disease (CML). The cells were grown in tissue culture and have undergone Ribo-Zero treatment., sample_idx:SRX185895, This measurement was conducted with Illumina Genome Analyzer II. A sample of the CFPAC1 clonal cell line, which has a wild type genotype, used as a control in a study related to cystic fibrosis and invasive ductal carcinoma. The cells are derived from a male Caucasian pancreas ductal adenocarcinoma and have been cultured., source_sentence: sample_idx:census_b46237d1-19c6-4af2-9335-9854634bad16_9783
sentences: This measurement was conducted with 10x 3' v2. Colon fibroblast cell, derived from a Carnegie stage 23 human embryo, classified as mesenchymal cell type., This measurement was conducted with 10x 3' v2. Fibroblast cells derived from the ileum tissue of a human fetus at Carnegie stage 22, with a positive enrichment fraction., sample_idx:census_b46237d1-19c6-4af2-9335-9854634bad16_16924, source_sentence: sample_idx:census_19b21f40-db42-4a71-a0d6-913e83b17784_614
sentences: sample_idx:census_19b21f40-db42-4a71-a0d6-913e83b17784_689, This measurement was conducted with 10x 3' v3. Astrocyte cells from the hippocampal formation of a 50-year-old male, specifically from the Head of hippocampus (HiH), Subicular cortex, and Sub regions., This measurement was conducted with 10x 3' v3. Neuron cell type from the hippocampal formation, specifically from the Tail of Hippocampus (HiT) - Subicular cortex - Sub region, taken from a 29-year-old male., source_sentence: sample_idx:census_367b55f4-d543-49aa-90e8-4765fcb8c687_969
sentences: This measurement was conducted with 10x 3' v3. Neuron cell type from the thalamic complex, specifically the centromedian and parafasicular nuclei (CM and Pf), derived from a 42-year old male., This measurement was conducted with 10x 3' v3. Neuron cell type from a 42-year-old male, specifically from the thalamic complex with thalamic excitatory supercluster term, corresponding to the Thalamus (THM) - intralaminar nuclear complex (ILN) - posterior group of intralaminar nuclei (PILN) - centromedian and parafasicular nuclei - CM and Pf dissection., sample_idx:census_367b55f4-d543-49aa-90e8-4765fcb8c687_840
datasets: jo-mengr/cxg_pseudo_bulk_full_nxc, jo-mengr/geo_schaefer_half
pipeline_tag: sentence-similarity
library_name: sentence-transformers
metrics: cosine_accuracy
model-index: name: SentenceTransformer based on NeuML/pubmedbert-base-embeddings
results: task: type: triplet
name: Triplet
dataset: name: cellxgene pseudo bulk full cell sentence 1 caption
type: cellxgene_pseudo_bulk_full_cell_sentence_1_caption
metrics: type: cosine_accuracy
value: 0.9267466068267822
name: Cosine Accuracy
verified: no, task: type: triplet
name: Triplet
dataset: name: geo half cell sentence 1 caption
type: geo_half_cell_sentence_1_caption
metrics: type: cosine_accuracy
value: 0.7779008746147156
name: Cosine Accuracy
verified: no
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Created: 2025-11-27 19:05:51