Fully Homomorphic Encryption (FHE) is a set of powerful cryptographic schemes that allows computation to be performed directly on encrypted data with an unlimited depth. Despite FHE’s promising in privacy-preserving computing, yet in most FHE schemes, ciphertext generally blows up thousands of times compared to the original message, and the massive amount of data load from off-chip memory for bootstrapping and privacy-preserving machine learning applications (such as HELR, ResNet-20), both degrade the performance of FHE-based computation. Several hardware designs have been proposed to address this issue, however, most of them require enormous resources and power. An acceleration platform with easy programmability, high efficiency, and low overhead is a prerequisite for practical application. This paper proposes EFFACT, a highly efficient full-stack FHE acceleration platform with a compiler that provides comprehensive optimizations and vector-friendly hardware. We start by examining the computational overhead across different real-world benchmarks to highlight the potential benefits of reallocating computing resources for efficiency enhancement. Then we make a design space exploration to find an optimal SRAM size with high utilization and low cost. On the other hand, EFFACT features a novel optimization named streaming memory access which is proposed to enable high throughput with limited SRAMs. Regarding the software-side optimization, we also propose a circuit-level function unit reuse scheme, to substantially reduce the computing resources without performance degradation. Moreover, we design novel NTT and automorphism units that are suitable for a cost-sensitive and highly efficient architecture, leading to low area. For generality, EFFACT is also equipped with an ISA and a compiler backend that can support several FHE schemes like CKKS, BGV, and BFV. We provide both FPGA and ASIC versions of EFFACT. On account of our full stack design, FPGA-EFFACT outperforms the SOTA FPGA accelerators in gmean by $1.22 \times$. Meanwhile, ASIC-EFFACT shows increased improvements in terms of the performance per chip area and the performance per Watt compared with the SOTA ASIC works.

Read mapping is a crucial task in computational genomics. Recently, there has been a significant paradigm shift from sequence-to-sequence mapping (S2S) to sequence-to-graph mapping (S2G). The S2G mapping incurs high graph processing overheads and leads to an unnoticed shift of performance hotspots. This presents a substantial challenge to current software implementations and hardware accelerators.

Modern out-of-order processors call for more aggressive scheduling techniques such as priority scheduling and out-of-order commit to make use of increasing core resources. Since these approaches prioritize the issue or commit of certain instructions, they face the conundrum of providing the capacity efficiency of scheduling structures while preserving the ideal ordering of instructions. Traditional collapsible queues are too expensive for today's processors, while state-of-the-art queue designs compromise with the pseudo-ordering of instructions, leading to performance degradation as well as other limitations.

Genome analysis is a critical tool in medical and bioscience research, clinical diagnostics and treatment, and disease control and prevention. Seed and extension-based alignment is the main approach in the genome analysis pipeline, and BWA-MEM2, a widely acknowledged tool for genome alignment, performs seeding by searching for super maximal exact match (SMEM). The computation of SMEM searching requires high memory bandwidth and energy consumption, which becomes the main performance bottleneck in BWA-MEM2. State-of-the-Art designs like ERT and GenAx have achieved impressive speed-ups of SMEM-based genome alignment. However, they are constrained by frequent DRAM fetches or computationally intensive intersection calculations for all possible k-mers at every read position.

TCAM (Ternary Content-Addressable Memory) is the essential component for high-speed packet classification in modern hardware switches. However, due to its relatively slow update process, recent advances in Software-Defined Network (SDN) regard them as the bottleneck to the agile deployment of network services. Rule installation in commodity switches suffers from non-deterministic delays, ranging from a few milliseconds to nearly half a second. The crux of the problem is that TCAM prioritizes rules based on physical addresses. Corresponding entries have to be reallocated according to the priority of an incoming rule, such that the insertion delay grows linearly with the number of existing rules in a TCAM. In this paper, we present Constant-time Alteration Ternary CAM (CATCAM) that can accomplish both lookup queries and update requests for packet classification in a few nanoseconds. The key to fast update is to decouple rule priorities from physical addresses. We propose a matrix-based priority encoding scheme that records the priority relation between rules and can be implemented in 8T SRAM arrays with the emerging Processing In-Memory (PIM) technique. CATCAM also comes with a hierarchical architecture to scale out, its interval-based scheduling scheme guarantees deterministic update performance in all scenarios. CATCAM is developed under full-custom design in the 28 nm process. Evaluation across benchmark workloads shows that CATCAM provides at least three orders of magnitude speedup over state-of-the-art TCAM update algorithms and offers equivalent search capability to conventional TCAM while incurring 0.3% power and 20% area overhead.