GrimSqueaker/ProteinHumVir

Human–Virus Protein Mistake Predictions (Parquet)

This dataset provides per-sequence labels, predictions, and lightweight descriptors used in the paper:

• Protein Language Models Expose Viral Immune Mimicry — Viruses 2025, 17(9):1199.
  DOI: 10.3390/v17091199 · Article: https://www.mdpi.com/1999-4915/17/9/1199

What’s included: a single file HumanVirus_Protein_mistakes.parquet with 25,117 rows and 20 columns.
Not included: PLM model embeddings (paper used Swiss-Prot T5 static embeddings or trained ESM2).
Code: https://github.com/ddofer/ProteinHumVir
Workshop poster: ICML 2024 (ML4LMS): https://openreview.net/forum?id=gGnJBLssbb

Summary

We trained and analyzed protein language model classifiers, and interpretable tabular models in distinguishing viral from human proteins. The dataset focuses on DL model errors (mistake=True), which are enriched for proteins implicated in immune mimicry / immune evasion. Use this table to reproduce error-profiling, build new classifiers, or explore biological correlates of misclassification. e.g. Explaining the mistakes of the DL/PLM models, using tabular models and explainable features, as we do in the paper.

Schema

column	type	brief description
Sequence	string	amino-acid sequence
Length	int	Protein sequence length
virus	int	ground truth (1=viral, 0=human)
model_pred_proba_vir	float	P(viral)
model_pred_vir	int	model prediction (1/0)
mistake	bool	prediction ≠ label
Baltimore	string?	viral group (null for human)
Family	string?	viral family
Genome Composition	string	e.g., dsDNA
Genus	string?	viral genus
Keywords	string	UniProt keywords
Mass	int	molecular mass (Da)
Organism	string	source organism
Protein names	string	protein name(s)
Taxonomic lineage	string	taxonomy path
UR50_Cluster ID	string	UniRef/UR50 ID
Virus hosts	string	known hosts
av_mw	float?	avg AA mass feature
genus_human_host	bool	Virus's genus has human host indicator
human_host	bool	Virus with human host indicator

Loading

Direct (single Parquet):

from datasets import load_dataset
ds = load_dataset(
    "parquet",
    data_files={"train": "https://huggingface.co/datasets/<user>/<repo>/resolve/main/HumanVirus_Protein_mistakes.parquet"},
)["train"]