This article explores the architectural challenges introduced by emerging bottom-up fabrication of nanoelectronic circuits. The specific nanotechnology we explore proposes patterned DNA nanostructures as a scaffold for the placement and interconnection of carbon nanotube or silicon nanorod FETs to create a limited size circuit (node). Three characteristics of this technology that significantly impact architecture are (1) limited node size, (2) random node interconnection, and (3) high defect rates. We present and evaluate an accumulator-based active network architecture that is compatible with any technology that presents these three challenges. This architecture represents an initial, unoptimized solution for understanding the implications of DNA-guide self-assembly. © 2006 ACM.