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Models
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- Atlas
- CAMP
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- PLM
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- alignment
- annotation
- attention
- benchmarking
- binders
- codons
- developability
- drug discovery
- enzyme
- expression
- folding
- foundation
- foundation model
- function
- generation
- interaction
- interpretability
- kinetics
- ligand
- localization
- naturalness
- network
- oligomer
- oracle
- pH
- platform
- property prediction
- protein design
- protein language models
- protein representation
- quality
- quality control
- representation learning
- solubility
- stability
- structure
- taxonomy
- transformers
Showing 24 of 24 models
Foundation Models
cdsBERT
A codon-aware protein modeling research direction for understanding coding-sequence effects.
- codons
- CDS
- foundation model
Dual Triangle Attention
A foundation-model research direction for stronger position-aware bidirectional sequence modeling.
- attention
- transformers
- foundation model
E1-300M
Synthyra's protein representation model for sequence understanding across Atlas workflows.
- foundation
- protein representation
- PLM
- Atlas
Vec2Vec
Aligns protein, annotation, and language-model representations so biological knowledge can move between spaces.
- representation learning
- alignment
- annotation
Platforms
Protify
A low-code platform for evaluating and building protein property prediction workflows.
- benchmarking
- platform
- protein language models
Interaction Models
Atlas CAMP
Connects protein sequences to structured functional annotation space for search, triage, and interpretation.
- annotation
- CAMP
- function
- Atlas
Atlas PLI
Prioritizes likely protein-ligand interactions for drug discovery, repurposing, and target exploration.
- PLI
- ligand
- drug discovery
- Atlas
Atlas PPI
Maps likely protein-protein interactions from amino acid sequence alone.
- PPI
- interaction
- network
- Atlas
Oracle Models
EC General
Suggests broad enzyme-class hypotheses from protein sequence.
- oracle
- enzyme
- annotation
EC Rigor
Provides stricter enzyme-function hypotheses when higher-confidence EC assignment is needed.
- oracle
- enzyme
- annotation
E. coli Expression
Prioritizes proteins that are more likely to express successfully in E. coli workflows.
- oracle
- expression
- developability
Homodimer
Estimates whether a protein sequence is likely to self-associate as a homodimer.
- oracle
- interaction
- oligomer
Atlas Oracle Suite
A set of fast protein property predictors for triaging sequence quality, function, localization, and developability.
- oracle
- property prediction
- interpretability
- Atlas
kcat
Estimates enzyme turnover potential from protein sequence.
- oracle
- enzyme
- kinetics
pH Preference
Estimates the pH range where a protein may be most compatible or active.
- oracle
- pH
- enzyme
Realness
Scores whether a sequence looks like a natural protein rather than random or poorly formed sequence.
- oracle
- quality
- naturalness
Solubility
Prioritizes protein sequences that are more likely to remain soluble.
- oracle
- solubility
- developability
SoluProt
Provides a complementary solubility-style readout for protein developability triage.
- oracle
- solubility
- developability
Subcellular Localization
Predicts likely cellular localization signals from protein sequence.
- oracle
- localization
- annotation
Taxon
Estimates taxonomic signal in a protein sequence for context, quality control, and dataset review.
- oracle
- taxonomy
- quality control
Temperature Stability
Estimates whether a protein sequence is likely to tolerate higher-temperature conditions.
- oracle
- stability
- developability
Translator
Turns protein sequences into structured functional annotation hypotheses.
- annotation
- function
- Translator
- Atlas
Structure Models
ESMFold-TTT
Predicts protein structure and refines difficult cases for Atlas structure views.
- structure
- folding
- Atlas
Generation Models
DSM
Generates and prioritizes protein sequences for design campaigns, including binder discovery.
- generation
- protein design
- DSM
- binders