Cross-Domain Acceleration of Open Modification Search: From Commodity Platforms to Emerging Memory and Storage Devices

The problem is that open modification search (OMS) in mass spectrometry is data-intensive and limited by reference data movement, not computation. The method introduces a binary hyperdimensional computing (HDC)-based OMS formulation that reduces similarity evaluation to lightweight bitwise primitives and tolerates device-level non-idealities. Experimental evidence shows that memory- and storage-centric architectures deliver up to >100x speedup and >40,000x improvement in energy efficiency over commodity platforms. This matters because it identifies memory- and storage-centric architectures as a key breakthrough for large-scale, high-speed search acceleration.