Methods of selecting binding reagents
AssigneeNautilus Subsidiary, Inc.
InventorParag MALLICK
Life of this patent
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Abstract
Methods and systems are provided herein for selecting an affinity reagent which binds a desired peptide epitope in a plurality of sequence contexts. The method relies on obtaining a peptide library, each peptide having the sequence αXβ, wherein X is the desired peptide epitope, wherein each of α and β comprise an amino acid, using the peptide library to select an affinity reagent.
Claims21
-112. (canceled)
A method of forming a model for an affinity reagent for an epitope X, comprising:
- (a) providing the affinity reagent for the epitope X;
- (b) obtaining binding measurements between the affinity reagent and a plurality of known protein sequences, wherein the plurality of known protein sequences contains protein sequences containing the epitope X and protein sequences that do not contain the epitope X;
- (c) based upon the binding measurements of the affinity reagent to the plurality of known protein sequences, determining the model for the affinity reagent, wherein the model infers a binding probability of the affinity reagent to any protein given a sequence of the protein;
- and
- (d) storing the model for the affinity reagent on a non-transitory storage medium.
A method of forming a model for an affinity reagent for an epitope X, comprising:
- (a) providing the affinity reagent for the epitope X, wherein the epitope X contains between 2 and 7 amino acids;
- (b) obtaining binding measurements between the affinity reagent and a plurality of known protein sequences, wherein the plurality of known protein sequences contains at least 50 known proteins sequences;
- (c) based upon the binding measurements of the affinity reagent to the plurality of known protein sequences, determining the model for the affinity reagent, wherein the model infers a binding probability of the affinity reagent to any protein given a sequence of the protein;
- and
- (d) storing the binding model for the affinity reagent on a non-transitory storage medium.
A non-transitory storage medium comprising a model for an affinity reagent for an epitope X, wherein the epitope X contains between 2 and 7 amino acids, wherein the binding model provides an inferred binding probability for any protein given a sequence of the protein, and wherein the model is based upon binding measurements between the affinity reagent for the epitope X and a plurality of known protein sequences, wherein the plurality of known protein sequences contains protein sequences containing the epitope X and protein sequences that do not contain the epitope X.
Dependencies are inferred from the claim text.