Advanced features

The myNEO ImmunoEngine incorporates years of development ensuring confident identification of as many antigens as possible. The variety of filters/ranking mechanisms based on biological processes retain the neoantigen targets providing the most clinical benefit in terms of response strength, duration (memory induction), breadth, and overall survival.

The advanced features are divided amongst three modules, as per their purpose:

  • Tumour-specific variant: to identify all the tumour-specific alterations with high confidence based on the sequencing data of the tumour
  • Tumour-specific surface peptide: to predict which of the identified alterations will lead to changes in the presented antigen repertoire on the surface of the tumour cells.
  • Immunogenicity response: to evaluate the immunogenic impact of a therapy against the selected peptides

Tumour-specific variant

SNVs
SNVs
more info
Indels
Indels
more info
Gene fusions
Gene fusions
more info
mRNA splice variants
mRNA splice variants
more info
Retrotransposition
Retrotransposition
more info
ncRNA mutations
ncRNA mutations
more info
Mutational events
Mutational events
more info
Presentation alterations
Presentation alterations
more info
RNA editing
RNA editing
more info
Post-transl. modif.
Post-transl. modif.
more info
CNVs
CNVs
more info

Filtering

Transcription
Transcription
more info
High AF
High AF
more info
Specificity
Specificity
more info
High impact
High impact
more info
DB presence
DB presence
more info
Somatic mutation
Somatic mutation
more info
Mutagen specificity
Mutagen specificity
more info
High clonality
High clonality
more info

Tumour-specific surface peptide

Translational efficiency
Translational efficiency
more info
TAT protein
TAT protein
more info
Proteasomal degradation
Proteasomal degradation
more info
Peptide transport
Peptide transport
more info
TAP binding
TAP binding
more info
MHC I/II affinity
MHC I/II affinity
more info
pMHC stability
pMHC stability
more info

Neural network trained on ms

neoMS - NN trained on mass spec data
neoMS - NN trained on mass spec data
more info

Immunogenicity response

Peptide-specific

Mutant <> Normal
Mutant <> Normal
more info
Microbiome mimicry
Microbiome mimicry
more info
Virus-associated
Virus-associated
more info
T-cell interaction
T-cell interaction
more info

Patient-specific

Pooling T-cell reads
Pooling T-cell reads
more info
Immune contexture
Immune contexture
more info
Transcriptional profile
Transcriptional profile
more info
Clinical patient values
Clinical patient values
more info

Construct-specific

Epiconstruct selection
Epiconstruct selection
more info
Codon optimisation
Codon optimisation
more info
Junctional epitope identification
Junctional epitope identification
more info