GGUF format models for OmniGene-4-SFT-v3 (instruction-tuned version)
GGUF format quantized versions of OmniGene-4 for efficient inference on consumer GPUs and CPUs using llama.cpp, llama-cpp-python, Ollama, LM Studio, and other GGUF-compatible runtimes.
Performance
Benchmark
Accuracy
Standard Homology
99.95% (6,000 pairs)
Remote Homology
59.50% (2,000 pairs)
BixBench Knowledge
93.66%
vs. ESM-2 (650M): OmniGene-4 59.5% vs ESM-2 50.5% (+9 pp on same 2,000 pairs)
1from llama_cpp import Llama
23llm = Llama(4 model_path="OmniGene-4-SFT-v3-Q4_K_M.gguf",5 n_ctx=4096,6 n_gpu_layers=-1,# Offload all layers to GPU7)89# Example: Protein homology detection10prompt ="""### Instruction:
11Determine if the two protein sequences below are structurally related (homologous).
1213### Sequence 1:
14MKTAYIAKQRQISFVKSHFSRQLEERLGLIEVQAPILSRVGDGTQDNLSGAEKAVQVKVKALPDAQFEVVHSLAKWKRQTLGQHDFSAGEGLYTHMKALRPDEDRLSPLHSVYVDQWDWERVMGDGERQFSTLKSTVEAIWAGIKATEAAVSEEFGLAPFLPDQIHFVHSQELLSRYPDLDAKGRERAIAKDLGAVFLVGIGGKLSDGHRHDVRAPDYDDWSTPSELGHAGLNGDILVWNPVLEDAFELSSMGIRVDADTLKHQLALTGDEDRLELEWHQALLRGEMPQTIGGGIGQSRLTMLLLQLPHIGQVQAGVWPAAVRESVPSLL
1516### Sequence 2:
17MKKFDRGEQVVKVKALPQAQFEEVHSLAKWKRQTLGQHDFSAGEGLYTHMKALRPDEDRLSPLHSVYVDQWDWERVMGDGERQFSTLKSTVEAIWAGIKATEAAVSEEFGLAPFLPDQIHFVHSQELLSRYPDLDAKGRERAIAKDLGAVFLVGIGGKLSDGHRHDVRAPDYDDWSTPSELGHAGLNGDILVWNPVLEDAFELSSMGIRVDADTLKHQLALTGDEDRLELEWHQALLRGEMPQTIGGGIGQSRLTMLLLQLPHIGQVQAGVWPAAVRESVPSLL
1819### Answer:
20"""2122output = llm(prompt, max_tokens=5, temperature=0)23print(output['choices'][0]['text'])# Expected: "Yes" or "No"
Option 2: llama.cpp Command Line
bash
1./llama-cli -m OmniGene-4-SFT-v3-Q4_K_M.gguf \2 -p "### Instruction:\nDetermine if the two protein sequences are homologous.\n### Sequence 1:\nMKTAYIAK...\n### Answer:\n"\3 -n 5 -ngl -1
The model is instruction-tuned on 8 task families:
Task
Examples
Proportion
Protein homology
49,894
25.0%
Literature (UniProtQA)
39,915
20.0%
Mutation (MutaDescribe)
29,936
15.0%
Cell biology
29,936
15.0%
Molecule (SMILES)
25,945
13.0%
Structure (3D)
19,958
10.0%
DNA homology
3,992
2.0%
Example Tasks
1. Protein Homology Detection
### Instruction:
Determine if the two protein sequences below are structurally related (homologous).
### Sequence 1:
[protein sequence 1]
### Sequence 2:
[protein sequence 2]
### Answer:
2. Protein Function Prediction
### Instruction:
Predict the biological function of the following protein sequence.
### Protein Sequence:
[protein sequence]
### Answer:
3. Mutation Effect Prediction
### Instruction:
Describe the effect of the mutation on protein function.
### Wild-type:
[wild-type sequence]
### Mutant:
[mutant sequence]
### Answer:
4. Cell Type Identification
### Instruction:
Identify the cell type based on the gene expression profile.
### Gene Expression:
CD4: high, CD8: low, IL2: high
### Answer:
5. SMILES to Properties
### Instruction:
Predict the drug-likeness of the following molecule.
### SMILES:
CC(C)Cc1ccc(cc1)C(C)C(O)=O
### Answer:
Model Description
OmniGene-4-SFT-v3 is the final instruction-tuned biological foundation model with:
Base: Gemma-4-26B-A4B-Instruct + Bio CPT + Bio SFT
