Digital Proteomics LLC

Drug Discovery > Bioanalysis

Digital Proteomics LLC is a unique CRO offering antibody sequencing and discovery services.  We bring sophisticated algorithmic and machine learning approaches to enable accurate antibody sequencing and functional antibody discovery.

Founded in 2009 as a spin-out from the University of California-San Diego, Digital Proteomics retains close connections to the Computer Science Department.  Our core competency in computer science is reflected in our proprietary analysis software used in our services: Reptor, Valens, and Alicanto.

With our proprietary Reptor platform, we use next-generation sequencing to obtain antibody sequences from hybridomas, single B cells, bulk B cells, and tissue.  Using deep sequencing, we discover minor clones, track clones across time and tissues, and construct lineages of clones undergoing affinity maturation.

When the source B cell is not available, we offer Valens for protein antibody sequencing.  We use mass spectrometry to recover the full monoclonal antibody sequence directly from the protein.  We have over 10 years of experience sequencing monoclonal antibodies from a variety of species including mouse, human, rat, and hamster.

Alicanto is a platform for custom antibody discovery that mines the complete antibody repertoire.  Alicanto selects functional antibodies with desired properties such as species cross-reactivity, enzyme active-site inhibition, competition with another antibody for target binding, or activity in a particular buffer or condition.  Custom antibody discovery with Alicanto can be applied to rabbits, camelids such as llama or alpaca, and humans.


Natalie Castellana CEO Phone: 888-416-9305
Anand Patel CTO Phone: 888-416-9305
3030 Bunker Hill Street #218 San Diego , CA 92109