LindertLab/DMS-Fold2-Benchmark-Dataset

DMS-Fold2 Benchmark Dataset

This repository contains the benchmark datasets used to evaluate DMS-Fold2. The files are organized into two benchmark sets:

• CASP/CAMEO targets (casp_cameo_targets/)
• Mega-scale targets (megascale_targets/)

Each target includes the sequence and experimental data required to reproduce the benchmark inputs.

Directory Structure

paper_benchmarks/
├── casp_cameo_targets/
│   ├── alignments.tar.gz
│   ├── fastas/
│   ├── pdbs/
│   ├── dm_csvs/
│   └── sm_csvs/
└── megascale_targets/
    ├── alignments.tar.gz
    ├── fastas/
    ├── pdbs/
    ├── dm_csvs/
    └── sm_csvs/

Contents

alignments.tar.gz

Compressed archive containing one directory per protein target with precomputed multiple sequence alignments (MSAs).

fastas/

FASTA sequences for each benchmark protein.

pdbs/

PDB files for each benchmark protein.

dm_csvs/

Double-mutant deep mutational scanning (DMS) datasets used as input to DMS-Fold2.

sm_csvs/

Single-mutant deep mutational scanning (DMS) datasets used as input to DMS-Fold2.

Benchmark Sets

megascale_targets

Benchmark proteins selected from the Mega-scale DMS collection.

casp_cameo_targets

Benchmark proteins from CASP14, CASP15, and CAMEO.

Citation

If you use this dataset, please cite the accompanying DMS-Fold2 publication.