The present disclosure relates to methods and kits for high-throughput, highly parallel peptide identification employing immobilization of peptides associated with nucleic acid recording tags on a solid support, followed by contacting of immobilized peptides with peptide-binding agents conjugated to a writer enzyme, which is capable of catalyzing covalent addition of a nucleic acid moiety (e.g., nucleotides) onto the nucleic acid recording tags located in proximity. As a result, structural information of immobilized peptides, as well as kinetic information of binder-peptide interactions, can be encoded into nucleotide sequences associated with the peptides. Finally, identities of immobilized peptides can be decoded using sequences of the associated recording tags.

The porosome is the main secretory structure of the eukaryotic cell. Presented herein are compositions and methods for the control and regulation of the porosome structure. Including a method of porosome-associated-protein and interacting small molecule identification; usage of small molecules targeted to one or more porosome proteins; compositions and usages of nanobodies coupled with small molecules; the reconstitution of porosomes; and the creation and usage of artificial porosome structures.

Disclosed herein are polynucleotides encoding ligand-inducible gene switch polypeptides, and systems comprising gene switch polypeptides for modulating the expression of a heterologous gene and an interleukin in a host cell. The compositions, methods and systems described herein facilitate ligand dependent expression of polypeptides including but not limited to cytokines and antigen binding polypeptides.

The disclosure features methods of identifying specific drug candidates for disease treatment, the methods including: for pairs of associated expressed proteins in a protein-protein interaction network for a plurality of biological samples, comparing relative concentration values of the associated proteins in each of the biological samples to identify outliers among a distribution of the relative concentration values, identifying a set of proteins involved in dysregulated protein-protein interactions in the network based on the outliers, and predicting an efficacy of one or more drug candidates from among a set of drug candidates for treating a disease based on the identified set of proteins and information about one or more of proteins, protein complexes, biological pathways, and functional modules targeted by the set of drug candidates.

Provided herein are systems and methods for characterizing target/ligand engagement. In particular, luciferase-labeled polypeptide targets are used to detect or quantify target/ligand engagement (e.g., within a cell or cell lysate).

The invention relates to kits and components thereof used in the conduct of solid-phase binding assays.

The present invention provides compositions and methods that can be used to determine a peptide signature for an antibody repertoire in a sample comprising multiple antibodies. The method can be used to characterize a phenotype in a sample, such as providing a diagnosis, prognosis or theranosis of a medical condition.

The present disclosure provides a system comprising a communication interface and computer for assigning a label to the biomolecule fingerprint, wherein the label corresponds to a biological state. The present disclosure also provides a sensor arrays for detecting biomolecules and methods of use. In some embodiments, the sensor arrays are capable of determining a disease state in a subject.

The present disclosure provides a system comprising a communication interface and computer for assigning a label to the biomolecule fingerprint, wherein the label corresponds to a biological state. The present disclosure also provides a sensor arrays for detecting biomolecules and methods of use. In some embodiments, the sensor arrays are capable of determining a disease state in a subject.

The present disclosure provides means such as uses, nanoparticles, solutions, methods, kits and systems for screening target proteins for self-association properties (viscosity and opalescence) in ultra-dilute solutions. They provide means for screening a large number of target proteins at orders of magnitude lower concentrations than end-use formulations.